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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/python-team/packages/python-pynndescent">Debian Python Team / packages / python-pynndescent</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/commit/7d135bb3a0913bb5fe61725a2f41d870b2a18c3f">7d135bb3</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2022-01-02T18:59:03+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.5.5</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/commit/a90e87aed0b939012379dc24250bf52fe3744ddf">a90e87ae</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2022-02-18T07:11:26+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.5.6</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/commit/5d5b576089159be927b67a3994f3cb0ea94e717c">5d5b5760</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2022-02-18T07:11:26+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/commit/06c6f5ef8064e51071e0804b9e3c779ff06dec32">06c6f5ef</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2022-02-18T07:11:28+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/0.5.6'
Update to upstream version '0.5.6'
with Debian dir 132fc6e9551f52569d8fe1ca044ce15e83d1061d</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/commit/f37b4e890adb00bd0fd8ba94d48974686f809547">f37b4e89</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2022-02-18T07:24:17+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Switch test framework from nose to pytest
</pre>
</li>
</ul>
<h4>22 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
PKG-INFO
</a>
</li>
<li class="file-stats">
<a href="#561b88e19de321ca62c7590bbb350765fb110905">
README.rst
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#96f95cff34e02c83ef21c710292571f9ddb20c73">
pynndescent.egg-info/PKG-INFO
</a>
</li>
<li class="file-stats">
<a href="#83b7f02d24d4273d9ca42516963b35579fd1e48d">
pynndescent.egg-info/SOURCES.txt
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</li>
<li class="file-stats">
<a href="#aeab6b8c5726593518aaf0dfa2109dff8f0adbff">
pynndescent/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#dc2ef0fdefec49c4cc5b9c9b21f155afc5774bcf">
pynndescent/distances.py
</a>
</li>
<li class="file-stats">
<a href="#4c3dc4b7317f02aad39b030d27a74f875fdc0856">
pynndescent/graph_utils.py
</a>
</li>
<li class="file-stats">
<a href="#fbd841420b4b82730048e844223c1e0cbb26d228">
pynndescent/optimal_transport.py
</a>
</li>
<li class="file-stats">
<a href="#255f5f1efb78d11f22b1b3b1361f64af54f5eb38">
pynndescent/pynndescent_.py
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<li class="file-stats">
<a href="#885448843ac2f66159a855652c2b9de14f19503c">
pynndescent/rp_trees.py
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<li class="file-stats">
<a href="#ba635fefc1186a7b2c54329edce850410eb15c6e">
pynndescent/sparse.py
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<li class="file-stats">
<a href="#a4bc2c492b8b1763a83549ea9fcf71578ec96f17">
pynndescent/sparse_nndescent.py
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</li>
<li class="file-stats">
<a href="#309fcf4228aff2b3b6e57e44d29e84746c42fd7c">
<span class="new-file">
+
pynndescent/tests/conftest.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#b18dc095c827a7b0b2c653fa1e7e4a705361cccf">
pynndescent/tests/test_distances.py
</a>
</li>
<li class="file-stats">
<a href="#5f98067e4e19540c775b7312cd847ca28c53ff43">
pynndescent/tests/test_pynndescent_.py
</a>
</li>
<li class="file-stats">
<a href="#a2180bc63bafad64b6dda794acf91a3dc57cdbb5">
pynndescent/tests/test_rank.py
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</li>
<li class="file-stats">
<a href="#b6f4ff4175669eef79b4e5c3f23f3b9cdec59e71">
pynndescent/utils.py
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</li>
<li class="file-stats">
<a href="#19359a61ae2446b51b549167b014da2fcf265768">
requirements.txt
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</li>
<li class="file-stats">
<a href="#8e2edce0d507e1297474f25c00cae94258db38d8">
setup.py
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf"><strong>PKG-INFO</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.2</span>
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2
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: pynndescent</span>
</pre>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 0.5.<span class="idiff left right">2</span></span>
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 0.5.<span class="idiff left right">6</span></span>
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4
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: Nearest Neighbor Descent</span>
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<td class="old_line diff-line-num" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
5
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5
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: http://github.com/lmcinnes/pynndescent</span>
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6
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Leland McInnes</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,12 +8,14 @@ Author-email: leland.mcinnes@gmail.com</td>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Maintainer: Leland McInnes</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">Maintainer-email: leland.mcinnes@gmail.com</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">License: BSD</span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">Description: .. image:: https://travis-ci.org/lmcinnes/pynndescent.svg</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> :target: https://travis-ci.org/lmcinnes/pynndescent</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> .. image:: https://ci.appveyor.com/api/projects/status/github/lmcinnes/pynndescent?branch=master&svg=true</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">Description: .. image:: doc/pynndescent_logo.png</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> :width: 600</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> :alt: PyNNDescent Logo</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> .. image:: https://dev.azure.com/lelandmcinnes/UMAP%20project%20builds/_apis/build/status/lmcinnes.pynndescent?branchName=master</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> :target: .. _build_status: https://dev.azure.com/lelandmcinnes/UMAP%20project%20builds/_build/latest?definitionId=2&branchName=master</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> :alt: Azure Pipelines Build Status</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> .. image:: https://img.shields.io/lgtm/alerts/g/lmcinnes/pynndescent.svg</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> :target: https://lgtm.com/projects/g/lmcinnes/pynndescent/alerts</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> :alt: LGTM Alerts</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -55,14 +57,14 @@ Description: .. image:: https://travis-ci.org/lmcinnes/pynndescent.svg</td>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="plaintext"> `ann-benchmarks <https://github.com/erikbern/ann-benchmarks>`_ system puts it</span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="plaintext"> solidly in the mix of top performing ANN libraries:</span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="plaintext"> **<span class="idiff left right">GIST-960</span> Euclidean**</span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="plaintext"> **<span class="idiff left right">SIFT-128</span> Euclidean**</span>
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<pre style="margin: 0;"> <span id="LC61" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">camo.githubusercontent.com/142a48c992ba689b8ea9e62636b5281a97322f74/68747470733a2f2f7261772e6769746875622e636f6d2f6572696b6265726e2f616e6e2d62656e63686d61726b732f6d61737465722f726573756c74732f676973742d3936302d6575636c696465616e2e706e67</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="plaintext"> :alt: ANN benchmark performance for <span class="idiff left right">GIST 960</span> dataset</span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">pynndescent.readthedocs.io/en/latest/_images/sift.png</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="plaintext"> :alt: ANN benchmark performance for <span class="idiff left right">SIFT 128</span> dataset</span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="plaintext"> **NYTimes-256 Angular**</span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">camo.githubusercontent.com/6120a35a9db64104eaa1c95cb4803c2fc4cd2679/68747470733a2f2f7261772e6769746875622e636f6d2f6572696b6265726e2f616e6e2d62656e63686d61726b732f6d61737465722f726573756c74732f6e7974696d65732d3235362d616e67756c61722e706e67</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">pynndescent.readthedocs.io/en/latest/_images/nytimes.png</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="plaintext"> :alt: ANN benchmark performance for NYTimes 256 dataset</span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="plaintext"> While PyNNDescent is among fastest ANN library, it is also both easy to install (pip</span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#561b88e19de321ca62c7590bbb350765fb110905"><strong>README.rst</strong></a>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">.. image:: https://dev.azure.com/lelandmcinnes/UMAP%20project%20builds/_apis/build/status/lmcinnes.pynndescent?branchName=master</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> :target: .. _build_status: https://dev.azure.com/lelandmcinnes/UMAP%20project%20builds/_build/latest?definitionId=2&branchName=master</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">.. image:: https://img.shields.io/lgtm/alerts/g/lmcinnes/pynndescent.svg</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> :target: https://lgtm.com/projects/g/lmcinnes/pynndescent/alerts</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -45,14 +47,14 @@ PyNNDescent provides fast approximate nearest neighbor queries. The</td>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext">`ann-benchmarks <https://github.com/erikbern/ann-benchmarks>`_ system puts it</span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext">solidly in the mix of top performing ANN libraries:</span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="plaintext">**<span class="idiff left right">GIST-960</span> Euclidean**</span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="plaintext">**<span class="idiff left right">SIFT-128</span> Euclidean**</span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="plaintext">.. image:: https://<span class="idiff left right">camo.githubusercontent.com/142a48c992ba689b8ea9e62636b5281a97322f74/68747470733a2f2f7261772e6769746875622e636f6d2f6572696b6265726e2f616e6e2d62656e63686d61726b732f6d61737465722f726573756c74732f676973742d3936302d6575636c696465616e2e706e67</span></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="plaintext"> :alt: ANN benchmark performance for <span class="idiff left right">GIST 960</span> dataset</span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="plaintext">.. image:: https://<span class="idiff left right">pynndescent.readthedocs.io/en/latest/_images/sift.png</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="plaintext"> :alt: ANN benchmark performance for <span class="idiff left right">SIFT 128</span> dataset</span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="plaintext">**NYTimes-256 Angular**</span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="plaintext">.. image:: https://<span class="idiff left right">camo.githubusercontent.com/6120a35a9db64104eaa1c95cb4803c2fc4cd2679/68747470733a2f2f7261772e6769746875622e636f6d2f6572696b6265726e2f616e6e2d62656e63686d61726b732f6d61737465722f726573756c74732f6e7974696d65732d3235362d616e67756c61722e706e67</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="plaintext">.. image:: https://<span class="idiff left right">pynndescent.readthedocs.io/en/latest/_images/nytimes.png</span></span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="plaintext"> :alt: ANN benchmark performance for NYTimes 256 dataset</span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="plaintext">While PyNNDescent is among fastest ANN library, it is also both easy to install (pip</span>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">python-pynndescent (0.5.<span class="idiff left right">2+dfsg-2</span>) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">python-pynndescent (0.5.<span class="idiff left right">6-1</span>) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * New upstream version</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * Move package to Debian Python Team</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.6.0</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Switch test framework from nose to pytest</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> <span class="idiff left right">Sun, 02 Jan 2022 18:58:17</span> +0100</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> <span class="idiff left right">Fri, 18 Feb 2022 07:11:26</span> +0100</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">python-pynndescent (0.5.2+dfsg-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -7,12 +7,12 @@ Build-Depends: debhelper-compat (= 13),</td>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh-python,</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> python3-setuptools,</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> python3-all,</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"> python3-joblib,</span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext"> python3-llvmlite,</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> python3-numba,</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> python3-scipy,</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> python3-sklearn,</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> python3-<span class="idiff left right">nose</span> <!nocheck></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> python3-joblib<span class="idiff left right"> <!nocheck></span>,</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> python3-llvmlite<span class="idiff left right"> <!nocheck></span>,</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> python3-numba<span class="idiff left right"> <!nocheck></span>,</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> python3-scipy<span class="idiff left right"> <!nocheck></span>,</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> python3-sklearn<span class="idiff left right"> <!nocheck></span>,</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> python3-<span class="idiff left right">pytest</span> <!nocheck></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Standards-Version: 4.6.0</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/python-team/packages/python-pynndescent</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/python-team/packages/python-pynndescent.git</span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,5 +8,5 @@ export PYTHONPATH=$(CURDIR)</td>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">override_dh_auto_test:</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext"> dh_auto_test -- --system=custom --test-args="PYTHONPATH={build_dir} {interpreter} -m <span class="idiff left right">nose</span> -v -w $(CURDIR)/pynndescent/tests"</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> dh_auto_test -- --system=custom --test-args="PYTHONPATH={build_dir} {interpreter} -m <span class="idiff left right">pytest</span> -v -w $(CURDIR)/pynndescent/tests"</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">endif</span></pre>
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<li id="96f95cff34e02c83ef21c710292571f9ddb20c73">
<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#96f95cff34e02c83ef21c710292571f9ddb20c73"><strong>pynndescent.egg-info/PKG-INFO</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.2</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: pynndescent</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 0.5.<span class="idiff left right">2</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 0.5.<span class="idiff left right">6</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: Nearest Neighbor Descent</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: http://github.com/lmcinnes/pynndescent</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Leland McInnes</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,12 +8,14 @@ Author-email: leland.mcinnes@gmail.com</td>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Maintainer: Leland McInnes</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">Maintainer-email: leland.mcinnes@gmail.com</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">License: BSD</span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">Description: .. image:: https://travis-ci.org/lmcinnes/pynndescent.svg</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> :target: https://travis-ci.org/lmcinnes/pynndescent</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> :alt: Travis Build Status</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> .. image:: https://ci.appveyor.com/api/projects/status/github/lmcinnes/pynndescent?branch=master&svg=true</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> :target: https://ci.appveyor.com/project/lmcinnes/pynndescent</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">Description: .. image:: doc/pynndescent_logo.png</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> :width: 600</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> :alt: PyNNDescent Logo</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> .. image:: https://dev.azure.com/lelandmcinnes/UMAP%20project%20builds/_apis/build/status/lmcinnes.pynndescent?branchName=master</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> :target: .. _build_status: https://dev.azure.com/lelandmcinnes/UMAP%20project%20builds/_build/latest?definitionId=2&branchName=master</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> :alt: Azure Pipelines Build Status</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> .. image:: https://img.shields.io/lgtm/alerts/g/lmcinnes/pynndescent.svg</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> :target: https://lgtm.com/projects/g/lmcinnes/pynndescent/alerts</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> :alt: LGTM Alerts</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -55,14 +57,14 @@ Description: .. image:: https://travis-ci.org/lmcinnes/pynndescent.svg</td>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="plaintext"> `ann-benchmarks <https://github.com/erikbern/ann-benchmarks>`_ system puts it</span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="plaintext"> solidly in the mix of top performing ANN libraries:</span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="plaintext"> **<span class="idiff left right">GIST-960</span> Euclidean**</span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="plaintext"> **<span class="idiff left right">SIFT-128</span> Euclidean**</span>
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<pre style="margin: 0;"> <span id="LC61" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">camo.githubusercontent.com/142a48c992ba689b8ea9e62636b5281a97322f74/68747470733a2f2f7261772e6769746875622e636f6d2f6572696b6265726e2f616e6e2d62656e63686d61726b732f6d61737465722f726573756c74732f676973742d3936302d6575636c696465616e2e706e67</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="plaintext"> :alt: ANN benchmark performance for <span class="idiff left right">GIST 960</span> dataset</span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">pynndescent.readthedocs.io/en/latest/_images/sift.png</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="plaintext"> :alt: ANN benchmark performance for <span class="idiff left right">SIFT 128</span> dataset</span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="plaintext"> **NYTimes-256 Angular**</span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">camo.githubusercontent.com/6120a35a9db64104eaa1c95cb4803c2fc4cd2679/68747470733a2f2f7261772e6769746875622e636f6d2f6572696b6265726e2f616e6e2d62656e63686d61726b732f6d61737465722f726573756c74732f6e7974696d65732d3235362d616e67756c61722e706e67</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="plaintext"> .. image:: https://<span class="idiff left right">pynndescent.readthedocs.io/en/latest/_images/nytimes.png</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="plaintext"> :alt: ANN benchmark performance for NYTimes 256 dataset</span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="plaintext"> </span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="plaintext"> While PyNNDescent is among fastest ANN library, it is also both easy to install (pip</span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#83b7f02d24d4273d9ca42516963b35579fd1e48d"><strong>pynndescent.egg-info/SOURCES.txt</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -22,15 +22,8 @@ pynndescent.egg-info/not-zip-safe</td>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">pynndescent.egg-info/requires.txt</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">pynndescent.egg-info/top_level.txt</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">pynndescent/tests/__init__.py</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext">pynndescent/tests/conftest.py</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext">pynndescent/tests/test_distances.py</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext">pynndescent/tests/test_pynndescent_.py</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext">pynndescent/tests/test_rank.py</span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="plaintext">pynndescent/tests/__pycache__/__init__.cpython-37.pyc</span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="plaintext">pynndescent/tests/__pycache__/test_rank.cpython-37.pyc</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext">pynndescent/tests/test_data/cosine_hang.npy</span></pre>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#aeab6b8c5726593518aaf0dfa2109dff8f0adbff"><strong>pynndescent/__init__.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,6 +3,13 @@ import numba</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">.pynndescent_</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">,</span> <span class="n" style="color: #333;">PyNNDescentTransformer</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Workaround: https://github.com/numba/numba/issues/3341</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="python"><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">config</span><span class="p">.</span><span class="n" style="color: #333;">THREADING_LAYER</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"workqueue"</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">config</span><span class="p">.</span><span class="n" style="color: #333;">THREADING_LAYER</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"omp"</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="python"> <span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numba.np.ufunc</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">tbbpool</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">config</span><span class="p">.</span><span class="n" style="color: #333;">THREADING_LAYER</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"tbb"</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">ImportError</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">e</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># might be a missing symbol due to e.g. tbb libraries missing</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">config</span><span class="p">.</span><span class="n" style="color: #333;">THREADING_LAYER</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"workqueue"</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="python"><span class="n" style="color: #333;">__version__</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pkg_resources</span><span class="p">.</span><span class="n" style="color: #333;">get_distribution</span><span class="p">(</span><span class="s" style="color: #d14;">"pynndescent"</span><span class="p">).</span><span class="n" style="color: #333;">version</span></span></pre>
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<li id="dc2ef0fdefec49c4cc5b9c9b21f155afc5774bcf">
<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#dc2ef0fdefec49c4cc5b9c9b21f155afc5774bcf"><strong>pynndescent/distances.py</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,6 +12,7 @@ from pynndescent.optimal_transport import (</td>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"> <span class="n" style="color: #333;">network_simplex_core</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"> <span class="n" style="color: #333;">total_cost</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"> <span class="n" style="color: #333;">ProblemStatus</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"> <span class="n" style="color: #333;">sinkhorn_transport_plan</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"><span class="n" style="color: #333;">_mock_identity</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">eye</span><span class="p">(</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -22,7 +23,7 @@ FLOAT32_EPS = np.finfo(np.float32).eps</td>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="python"><span class="n" style="color: #333;">FLOAT32_MAX</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">finfo</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">).</span><span class="nb" style="color: #0086b3;">max</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">euclidean</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="python"> <span class="sa">r</span><span class="s" style="color: #d14;">"""Standard euclidean distance.</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -66,7 +67,7 @@ def squared_euclidean(x, y):</td>
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<pre style="margin: 0;"> <span id="LC67" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">standardised_euclidean</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">sigma</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_mock_ones</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="python"> <span class="sa">r</span><span class="s" style="color: #d14;">"""Euclidean distance standardised against a vector of standard</span></span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="python"><span class="s" style="color: #d14;"> deviations per coordinate.</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -81,7 +82,7 @@ def standardised_euclidean(x, y, sigma=_mock_ones):</td>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">manhattan</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="python"> <span class="sa">r</span><span class="s" style="color: #d14;">"""Manhattan, taxicab, or l1 distance.</span></span>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -95,7 +96,7 @@ def manhattan(x, y):</td>
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">chebyshev</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="python"> <span class="sa">r</span><span class="s" style="color: #d14;">"""Chebyshev or l-infinity distance.</span></span>
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -109,7 +110,7 @@ def chebyshev(x, y):</td>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">minkowski</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="python"> <span class="sa">r</span><span class="s" style="color: #d14;">"""Minkowski distance.</span></span>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="129" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -128,7 +129,7 @@ def minkowski(x, y, p=2):</td>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">**</span> <span class="p">(</span><span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">weighted_minkowski</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">w</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_mock_ones</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="python"> <span class="sa">r</span><span class="s" style="color: #d14;">"""A weighted version of Minkowski distance.</span></span>
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="146" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -146,7 +147,7 @@ def weighted_minkowski(x, y, w=_mock_ones, p=2):</td>
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<pre style="margin: 0;"> <span id="LC147" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">**</span> <span class="p">(</span><span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC148" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC149" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">mahalanobis</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">vinv</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_mock_identity</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC153" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -164,7 +165,7 @@ def mahalanobis(x, y, vinv=_mock_identity):</td>
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<pre style="margin: 0;"> <span id="LC165" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC166" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC167" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC167" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC169" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">hamming</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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171
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -174,7 +175,7 @@ def hamming(x, y):</td>
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174
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175
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">float</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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175
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176
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<pre style="margin: 0;"> <span id="LC176" class="line" lang="python"></span>
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177
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<pre style="margin: 0;"> <span id="LC177" class="line" lang="python"></span>
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177
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<pre style="margin: 0;">-<span id="LC177" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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178
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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178
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179
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<pre style="margin: 0;"> <span id="LC179" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">canberra</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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179
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180
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<pre style="margin: 0;"> <span id="LC180" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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181
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<pre style="margin: 0;"> <span id="LC181" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -185,7 +186,7 @@ def canberra(x, y):</td>
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185
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186
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<pre style="margin: 0;"> <span id="LC186" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="python"></span>
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188
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<pre style="margin: 0;"> <span id="LC188" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC188" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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190
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">bray_curtis</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="python"> <span class="n" style="color: #333;">numerator</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="python"> <span class="n" style="color: #333;">denominator</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -199,7 +200,7 @@ def bray_curtis(x, y):</td>
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<pre style="margin: 0;"> <span id="LC200" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC202" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC202" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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204
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">jaccard</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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205
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="python"> <span class="n" style="color: #333;">num_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -255,7 +256,7 @@ def correct_alternative_jaccard(v):</td>
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<pre style="margin: 0;"> <span id="LC256" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">-</span> <span class="nb" style="color: #0086b3;">pow</span><span class="p">(</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">v</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC257" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC258" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC260" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">matching</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -266,7 +267,7 @@ def matching(x, y):</td>
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<pre style="margin: 0;"> <span id="LC267" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">float</span><span class="p">(</span><span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC268" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC269" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC269" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC270" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC271" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">dice</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC272" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC273" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -282,7 +283,7 @@ def dice(x, y):</td>
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<pre style="margin: 0;"> <span id="LC283" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="mf" style="color: #099;">2.0</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC284" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC285" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC285" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC286" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC287" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">kulsinski</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC288" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC289" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -300,7 +301,7 @@ def kulsinski(x, y):</td>
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<pre style="margin: 0;"> <span id="LC301" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC302" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC303" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC303" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC305" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">rogers_tanimoto</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC306" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC307" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -311,7 +312,7 @@ def rogers_tanimoto(x, y):</td>
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<pre style="margin: 0;"> <span id="LC312" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="p">(</span><span class="mf" style="color: #099;">2.0</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC314" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC314" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC315" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC316" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">russellrao</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC317" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC318" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -325,7 +326,7 @@ def russellrao(x, y):</td>
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<pre style="margin: 0;"> <span id="LC326" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">float</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">])</span></span>
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<pre style="margin: 0;"> <span id="LC327" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC328" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC328" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC329" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC330" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sokal_michener</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC331" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC332" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -336,7 +337,7 @@ def sokal_michener(x, y):</td>
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<pre style="margin: 0;"> <span id="LC337" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="p">(</span><span class="mf" style="color: #099;">2.0</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC338" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC339" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC339" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC341" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sokal_sneath</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC342" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC343" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -352,7 +353,7 @@ def sokal_sneath(x, y):</td>
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<pre style="margin: 0;"> <span id="LC353" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="mf" style="color: #099;">0.5</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC354" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC355" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC355" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC357" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">haversine</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC358" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">2</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC359" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span> <span class="nb" style="color: #0086b3;">ValueError</span><span class="p">(</span><span class="s" style="color: #d14;">"haversine is only defined for 2 dimensional graph_data"</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -362,7 +363,7 @@ def haversine(x, y):</td>
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<pre style="margin: 0;"> <span id="LC363" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">2.0</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arcsin</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC364" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC365" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC366" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC367" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">yule</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC368" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC369" class="line" lang="python"> <span class="n" style="color: #333;">num_true_false</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -384,7 +385,7 @@ def yule(x, y):</td>
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<pre style="margin: 0;"> <span id="LC385" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC386" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC387" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC387" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC388" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC389" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">cosine</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC390" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC391" class="line" lang="python"> <span class="n" style="color: #333;">norm_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -546,7 +547,7 @@ def true_angular_from_alt_cosine(d):</td>
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<pre style="margin: 0;"> <span id="LC547" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">-</span> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arccos</span><span class="p">(</span><span class="nb" style="color: #0086b3;">pow</span><span class="p">(</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">d</span><span class="p">))</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">pi</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC548" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC549" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC549" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC550" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC551" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">correlation</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC552" class="line" lang="python"> <span class="n" style="color: #333;">mu_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC553" class="line" lang="python"> <span class="n" style="color: #333;">mu_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -728,9 +729,7 @@ def kantorovich(x, y, cost=_dummy_cost, max_iter=100000):</td>
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<pre style="margin: 0;"> <span id="LC729" class="line" lang="python"> <span class="n" style="color: #333;">sub_cost</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">row_mask</span><span class="p">,</span> <span class="p">:][:,</span> <span class="n" style="color: #333;">col_mask</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC730" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC731" class="line" lang="python"> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span> <span class="n" style="color: #333;">graph</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">allocate_graph_structures</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC731" class="line" lang="python"> <span class="n" style="color: #333;">a</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC732" class="line" lang="python"> <span class="n" style="color: #333;">b</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC733" class="line" lang="python"> <span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC732" class="line" lang="python"> <span class="n" style="color: #333;">a</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">b</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="bp" style="color: #999;">False</span></span>
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<pre style="margin: 0;"> <span id="LC733" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC734" class="line" lang="python"> <span class="n" style="color: #333;">initialize_supply</span><span class="p">(</span><span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="n" style="color: #333;">graph</span><span class="p">,</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">supply</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC735" class="line" lang="python"> <span class="n" style="color: #333;">initialize_cost</span><span class="p">(</span><span class="n" style="color: #333;">sub_cost</span><span class="p">,</span> <span class="n" style="color: #333;">graph</span><span class="p">,</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">cost</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="739" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -740,12 +739,7 @@ def kantorovich(x, y, cost=_dummy_cost, max_iter=100000):</td>
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<pre style="margin: 0;"> <span id="LC739" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span> <span class="nb" style="color: #0086b3;">ValueError</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC740" class="line" lang="python"> <span class="s" style="color: #d14;">"Kantorovich distance inputs must be valid probability distributions."</span></span>
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<pre style="margin: 0;"> <span id="LC741" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC743" class="line" lang="python"> <span class="n" style="color: #333;">solve_status</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">network_simplex_core</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC744" class="line" lang="python"> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC745" class="line" lang="python"> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC746" class="line" lang="python"> <span class="n" style="color: #333;">graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC747" class="line" lang="python"> <span class="n" style="color: #333;">max_iter</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC748" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC742" class="line" lang="python"> <span class="n" style="color: #333;">solve_status</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">network_simplex_core</span><span class="p">(</span><span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span> <span class="n" style="color: #333;">graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_iter</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC743" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># if solve_status == ProblemStatus.MAX_ITER_REACHED:</span></span>
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<pre style="margin: 0;"> <span id="LC744" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># print("WARNING: RESULT MIGHT BE INACCURATE\nMax number of iteration reached!")</span></span>
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<pre style="margin: 0;"> <span id="LC745" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">solve_status</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">ProblemStatus</span><span class="p">.</span><span class="n" style="color: #333;">INFEASIBLE</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -761,6 +755,146 @@ def kantorovich(x, y, cost=_dummy_cost, max_iter=100000):</td>
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<pre style="margin: 0;"> <span id="LC755" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC756" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC757" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC758" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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759
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<pre style="margin: 0;">+<span id="LC759" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sinkhorn</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">cost</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_dummy_cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0</span><span class="p">):</span></span>
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760
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<pre style="margin: 0;">+<span id="LC760" class="line" lang="python"> <span class="n" style="color: #333;">row_mask</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC761" class="line" lang="python"> <span class="n" style="color: #333;">col_mask</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC762" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC763" class="line" lang="python"> <span class="n" style="color: #333;">a</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">row_mask</span><span class="p">].</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC764" class="line" lang="python"> <span class="n" style="color: #333;">b</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">col_mask</span><span class="p">].</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC765" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC766" class="line" lang="python"> <span class="n" style="color: #333;">a_sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">a</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC767" class="line" lang="python"> <span class="n" style="color: #333;">b_sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">b</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC769" class="line" lang="python"> <span class="n" style="color: #333;">a</span> <span class="o" style="font-weight: 600;">/=</span> <span class="n" style="color: #333;">a_sum</span></span>
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<pre style="margin: 0;">+<span id="LC770" class="line" lang="python"> <span class="n" style="color: #333;">b</span> <span class="o" style="font-weight: 600;">/=</span> <span class="n" style="color: #333;">b_sum</span></span>
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<pre style="margin: 0;">+<span id="LC772" class="line" lang="python"> <span class="n" style="color: #333;">sub_cost</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">row_mask</span><span class="p">,</span> <span class="p">:][:,</span> <span class="n" style="color: #333;">col_mask</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC774" class="line" lang="python"> <span class="n" style="color: #333;">transport_plan</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sinkhorn_transport_plan</span><span class="p">(</span></span>
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775
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<pre style="margin: 0;">+<span id="LC775" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">cost</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">sub_cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">regularization</span></span>
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<pre style="margin: 0;">+<span id="LC776" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC777" class="line" lang="python"> <span class="n" style="color: #333;">dim_i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC778" class="line" lang="python"> <span class="n" style="color: #333;">dim_j</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC779" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC780" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim_i</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC781" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim_j</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC782" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC783" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC784" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;">+<span id="LC785" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC786" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC787" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC788" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">jensen_shannon_divergence</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC789" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC790" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC791" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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792
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<pre style="margin: 0;">+<span id="LC792" class="line" lang="python"> <span class="n" style="color: #333;">dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC793" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC794" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC795" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC796" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC797" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC798" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">FLOAT32_EPS</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dim</span></span>
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<pre style="margin: 0;">+<span id="LC799" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">FLOAT32_EPS</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dim</span></span>
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<pre style="margin: 0;">+<span id="LC800" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC801" class="line" lang="python"> <span class="n" style="color: #333;">pdf_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">FLOAT32_EPS</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_x</span></span>
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802
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<pre style="margin: 0;">+<span id="LC802" class="line" lang="python"> <span class="n" style="color: #333;">pdf_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">y</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">FLOAT32_EPS</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_y</span></span>
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<pre style="margin: 0;">+<span id="LC803" class="line" lang="python"> <span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.5</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">pdf_x</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">pdf_y</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC804" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC805" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim</span><span class="p">):</span></span>
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806
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<pre style="margin: 0;">+<span id="LC806" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mf" style="color: #099;">0.5</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span></span>
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807
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<pre style="margin: 0;">+<span id="LC807" class="line" lang="python"> <span class="n" style="color: #333;">pdf_x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">pdf_x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">m</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">pdf_y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">pdf_y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">m</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC808" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC809" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC810" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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812
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<pre style="margin: 0;">+<span id="LC812" class="line" lang="python"></span>
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813
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<pre style="margin: 0;">+<span id="LC813" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC814" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">wasserstein_1d</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC815" class="line" lang="python"> <span class="n" style="color: #333;">x_sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC816" class="line" lang="python"> <span class="n" style="color: #333;">y_sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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817
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<pre style="margin: 0;">+<span id="LC817" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC818" class="line" lang="python"> <span class="n" style="color: #333;">x_sum</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC819" class="line" lang="python"> <span class="n" style="color: #333;">y_sum</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC820" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC821" class="line" lang="python"> <span class="n" style="color: #333;">x_cdf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">x_sum</span></span>
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<pre style="margin: 0;">+<span id="LC822" class="line" lang="python"> <span class="n" style="color: #333;">y_cdf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">y_sum</span></span>
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<pre style="margin: 0;">+<span id="LC823" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC824" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">x_cdf</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC825" class="line" lang="python"> <span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC826" class="line" lang="python"> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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827
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<pre style="margin: 0;">+<span id="LC827" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC828" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">minkowski</span><span class="p">(</span><span class="n" style="color: #333;">x_cdf</span><span class="p">,</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC829" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC830" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC831" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC832" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">circular_kantorovich</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">):</span></span>
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833
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<pre style="margin: 0;">+<span id="LC833" class="line" lang="python"> <span class="n" style="color: #333;">x_sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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834
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<pre style="margin: 0;">+<span id="LC834" class="line" lang="python"> <span class="n" style="color: #333;">y_sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC835" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC836" class="line" lang="python"> <span class="n" style="color: #333;">x_sum</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC837" class="line" lang="python"> <span class="n" style="color: #333;">y_sum</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC838" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC839" class="line" lang="python"> <span class="n" style="color: #333;">x_cdf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">x_sum</span></span>
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<pre style="margin: 0;">+<span id="LC840" class="line" lang="python"> <span class="n" style="color: #333;">y_cdf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">y_sum</span></span>
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<pre style="margin: 0;">+<span id="LC841" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC842" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">x_cdf</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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843
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<pre style="margin: 0;">+<span id="LC843" class="line" lang="python"> <span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC844" class="line" lang="python"> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC845" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC846" class="line" lang="python"> <span class="n" style="color: #333;">mu</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">median</span><span class="p">((</span><span class="n" style="color: #333;">x_cdf</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">)</span> <span class="o" style="font-weight: 600;">**</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC847" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC848" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Now we just want minkowski distance on the CDFs shifted by mu</span></span>
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849
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<pre style="margin: 0;">+<span id="LC849" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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850
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<pre style="margin: 0;">+<span id="LC850" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">2</span><span class="p">:</span></span>
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851
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<pre style="margin: 0;">+<span id="LC851" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x_cdf</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC852" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">mu</span><span class="p">)</span> <span class="o" style="font-weight: 600;">**</span> <span class="n" style="color: #333;">p</span></span>
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853
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<pre style="margin: 0;">+<span id="LC853" class="line" lang="python"></span>
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854
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<pre style="margin: 0;">+<span id="LC854" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">**</span> <span class="p">(</span><span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC855" class="line" lang="python"></span>
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856
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<pre style="margin: 0;">+<span id="LC856" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">2</span><span class="p">:</span></span>
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857
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<pre style="margin: 0;">+<span id="LC857" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x_cdf</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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858
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<pre style="margin: 0;">+<span id="LC858" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">mu</span></span>
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859
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<pre style="margin: 0;">+<span id="LC859" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">val</span></span>
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860
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<pre style="margin: 0;">+<span id="LC860" class="line" lang="python"></span>
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861
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<pre style="margin: 0;">+<span id="LC861" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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862
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<pre style="margin: 0;">+<span id="LC862" class="line" lang="python"></span>
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863
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<pre style="margin: 0;">+<span id="LC863" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">:</span></span>
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864
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<pre style="margin: 0;">+<span id="LC864" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">x_cdf</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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865
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<pre style="margin: 0;">+<span id="LC865" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">x_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">y_cdf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">mu</span><span class="p">)</span></span>
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866
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<pre style="margin: 0;">+<span id="LC866" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC867" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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868
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<pre style="margin: 0;">+<span id="LC868" class="line" lang="python"></span>
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869
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<pre style="margin: 0;">+<span id="LC869" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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870
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<pre style="margin: 0;">+<span id="LC870" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span> <span class="nb" style="color: #0086b3;">ValueError</span><span class="p">(</span><span class="s" style="color: #d14;">"Invalid p supplied to Kantorvich distance"</span><span class="p">)</span></span>
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871
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<pre style="margin: 0;">+<span id="LC871" class="line" lang="python"></span>
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872
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873
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<pre style="margin: 0;">+<span id="LC873" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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874
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<pre style="margin: 0;">+<span id="LC874" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">symmetric_kl_divergence</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC875" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC876" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC877" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC878" class="line" lang="python"> <span class="n" style="color: #333;">dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC880" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC881" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC882" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC883" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC884" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">FLOAT32_EPS</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dim</span></span>
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<pre style="margin: 0;">+<span id="LC885" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">FLOAT32_EPS</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dim</span></span>
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<pre style="margin: 0;">+<span id="LC887" class="line" lang="python"> <span class="n" style="color: #333;">pdf_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">FLOAT32_EPS</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_x</span></span>
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<pre style="margin: 0;">+<span id="LC888" class="line" lang="python"> <span class="n" style="color: #333;">pdf_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">y</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">FLOAT32_EPS</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_y</span></span>
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<pre style="margin: 0;">+<span id="LC890" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC891" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">pdf_x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">pdf_x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">pdf_y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">pdf_y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC892" class="line" lang="python"> <span class="n" style="color: #333;">pdf_y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">pdf_x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC893" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC895" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC898" class="line" lang="python"><span class="n" style="color: #333;">named_distances</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC899" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># general minkowski distances</span></span>
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<pre style="margin: 0;"> <span id="LC900" class="line" lang="python"> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">:</span> <span class="n" style="color: #333;">euclidean</span><span class="p">,</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -785,14 +919,27 @@ named_distances = {</td>
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919
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<pre style="margin: 0;"> <span id="LC919" class="line" lang="python"> <span class="s" style="color: #d14;">"cosine"</span><span class="p">:</span> <span class="n" style="color: #333;">cosine</span><span class="p">,</span></span>
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920
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<pre style="margin: 0;"> <span id="LC920" class="line" lang="python"> <span class="s" style="color: #d14;">"dot"</span><span class="p">:</span> <span class="n" style="color: #333;">dot</span><span class="p">,</span></span>
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921
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<pre style="margin: 0;"> <span id="LC921" class="line" lang="python"> <span class="s" style="color: #d14;">"correlation"</span><span class="p">:</span> <span class="n" style="color: #333;">correlation</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC788" class="line" lang="python"> <span class="s" style="color: #d14;">"hellinger"</span><span class="p">:</span> <span class="n" style="color: #333;">hellinger</span><span class="p">,</span></span>
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922
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<pre style="margin: 0;"> <span id="LC922" class="line" lang="python"> <span class="s" style="color: #d14;">"haversine"</span><span class="p">:</span> <span class="n" style="color: #333;">haversine</span><span class="p">,</span></span>
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923
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<pre style="margin: 0;"> <span id="LC923" class="line" lang="python"> <span class="s" style="color: #d14;">"braycurtis"</span><span class="p">:</span> <span class="n" style="color: #333;">bray_curtis</span><span class="p">,</span></span>
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924
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<pre style="margin: 0;"> <span id="LC924" class="line" lang="python"> <span class="s" style="color: #d14;">"spearmanr"</span><span class="p">:</span> <span class="n" style="color: #333;">spearmanr</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC792" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich"</span><span class="p">:</span> <span class="n" style="color: #333;">kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC793" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein"</span><span class="p">:</span> <span class="n" style="color: #333;">kantorovich</span><span class="p">,</span></span>
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925
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<pre style="margin: 0;"> <span id="LC925" class="line" lang="python"> <span class="s" style="color: #d14;">"tsss"</span><span class="p">:</span> <span class="n" style="color: #333;">tsss</span><span class="p">,</span></span>
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926
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<pre style="margin: 0;"> <span id="LC926" class="line" lang="python"> <span class="s" style="color: #d14;">"true_angular"</span><span class="p">:</span> <span class="n" style="color: #333;">true_angular</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC927" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Distribution distances</span></span>
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<pre style="margin: 0;">+<span id="LC928" class="line" lang="python"> <span class="s" style="color: #d14;">"hellinger"</span><span class="p">:</span> <span class="n" style="color: #333;">hellinger</span><span class="p">,</span></span>
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929
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<pre style="margin: 0;">+<span id="LC929" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich"</span><span class="p">:</span> <span class="n" style="color: #333;">kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC930" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein"</span><span class="p">:</span> <span class="n" style="color: #333;">kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC931" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein_1d"</span><span class="p">:</span> <span class="n" style="color: #333;">wasserstein_1d</span><span class="p">,</span></span>
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932
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<pre style="margin: 0;">+<span id="LC932" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein-1d"</span><span class="p">:</span> <span class="n" style="color: #333;">wasserstein_1d</span><span class="p">,</span></span>
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933
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<pre style="margin: 0;">+<span id="LC933" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich-1d"</span><span class="p">:</span> <span class="n" style="color: #333;">wasserstein_1d</span><span class="p">,</span></span>
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934
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<pre style="margin: 0;">+<span id="LC934" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich_1d"</span><span class="p">:</span> <span class="n" style="color: #333;">wasserstein_1d</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC935" class="line" lang="python"> <span class="s" style="color: #d14;">"circular_kantorovich"</span><span class="p">:</span> <span class="n" style="color: #333;">circular_kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC936" class="line" lang="python"> <span class="s" style="color: #d14;">"circular_wasserstein"</span><span class="p">:</span> <span class="n" style="color: #333;">circular_kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC937" class="line" lang="python"> <span class="s" style="color: #d14;">"sinkhorn"</span><span class="p">:</span> <span class="n" style="color: #333;">sinkhorn</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC938" class="line" lang="python"> <span class="s" style="color: #d14;">"jensen-shannon"</span><span class="p">:</span> <span class="n" style="color: #333;">jensen_shannon_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC939" class="line" lang="python"> <span class="s" style="color: #d14;">"jensen_shannon"</span><span class="p">:</span> <span class="n" style="color: #333;">jensen_shannon_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC940" class="line" lang="python"> <span class="s" style="color: #d14;">"symmetric-kl"</span><span class="p">:</span> <span class="n" style="color: #333;">symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC941" class="line" lang="python"> <span class="s" style="color: #d14;">"symmetric_kl"</span><span class="p">:</span> <span class="n" style="color: #333;">symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC942" class="line" lang="python"> <span class="s" style="color: #d14;">"symmetric_kullback_liebler"</span><span class="p">:</span> <span class="n" style="color: #333;">symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC943" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Binary distances</span></span>
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944
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<pre style="margin: 0;"> <span id="LC944" class="line" lang="python"> <span class="s" style="color: #d14;">"hamming"</span><span class="p">:</span> <span class="n" style="color: #333;">hamming</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC945" class="line" lang="python"> <span class="s" style="color: #d14;">"jaccard"</span><span class="p">:</span> <span class="n" style="color: #333;">jaccard</span><span class="p">,</span></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#4c3dc4b7317f02aad39b030d27a74f875fdc0856"><strong>pynndescent/graph_utils.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -53,13 +53,7 @@ def create_component_search(index):</td>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="python"> <span class="s" style="color: #d14;">"seed_scale"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">custom_search_closure</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="python"> <span class="n" style="color: #333;">query_points</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="python"> <span class="n" style="color: #333;">candidate_indices</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="python"> <span class="n" style="color: #333;">k</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="python"> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="python"> <span class="n" style="color: #333;">visited</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="python"> <span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">custom_search_closure</span><span class="p">(</span><span class="n" style="color: #333;">query_points</span><span class="p">,</span> <span class="n" style="color: #333;">candidate_indices</span><span class="p">,</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span> <span class="n" style="color: #333;">visited</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">make_heap</span><span class="p">(</span><span class="n" style="color: #333;">query_points</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">k</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="python"> <span class="n" style="color: #333;">distance_scale</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">epsilon</span></span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -180,8 +174,7 @@ def adjacency_matrix_representation(neighbor_indices, neighbor_distances):</td>
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<pre style="margin: 0;"> <span id="LC174" class="line" lang="python"> <span class="n" style="color: #333;">neighbor_distances</span><span class="p">[</span><span class="n" style="color: #333;">neighbor_distances</span> <span class="o" style="font-weight: 600;">==</span> <span class="mf" style="color: #099;">0.0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">FLOAT32_EPS</span></span>
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC176" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">row</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">repeat</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC183" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arange</span><span class="p">(</span><span class="n" style="color: #333;">neighbor_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">),</span></span>
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<pre style="margin: 0;">-<span id="LC184" class="line" lang="python"> <span class="n" style="color: #333;">neighbor_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arange</span><span class="p">(</span><span class="n" style="color: #333;">neighbor_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">),</span> <span class="n" style="color: #333;">neighbor_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC178" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC179" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">col</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">neighbor_indices</span><span class="p">.</span><span class="n" style="color: #333;">ravel</span><span class="p">()</span></span>
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187
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180
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<pre style="margin: 0;"> <span id="LC180" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">neighbor_distances</span><span class="p">.</span><span class="n" style="color: #333;">ravel</span><span class="p">()</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -31,6 +31,9 @@ import numba</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">collections</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">namedtuple</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">enum</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Enum</span><span class="p">,</span> <span class="n" style="color: #333;">IntEnum</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="python"><span class="n" style="color: #333;">_mock_identity</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">eye</span><span class="p">(</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="python"><span class="n" style="color: #333;">_mock_ones</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">ones</span><span class="p">(</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="python"><span class="n" style="color: #333;">_dummy_cost</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">2</span><span class="p">),</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Accuracy tolerance and net supply tolerance</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python"><span class="n" style="color: #333;">EPSILON</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">2.2204460492503131e-15</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -223,14 +226,9 @@ def find_join_node(source, target, succ_num, parent, in_arc):</td>
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="python"> <span class="s" style="color: #d14;">"second"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="python"> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint8</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC228" class="line" lang="python"> <span class="s" style="color: #d14;">"in_arc"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC226" class="line" lang="python"> <span class="p">}<span class="idiff left right">,</span></span></span>
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<pre style="margin: 0;">+<span id="LC229" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC230" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC228" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">find_leaving_arc</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC229" class="line" lang="python"> <span class="n" style="color: #333;">join</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC230" class="line" lang="python"> <span class="n" style="color: #333;">in_arc</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC231" class="line" lang="python"> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC232" class="line" lang="python"> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC233" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC231" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">find_leaving_arc</span><span class="p">(</span><span class="n" style="color: #333;">join</span><span class="p">,</span> <span class="n" style="color: #333;">in_arc</span><span class="p">,</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC232" class="line" lang="python"> <span class="n" style="color: #333;">source</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">source</span></span>
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<pre style="margin: 0;"> <span id="LC233" class="line" lang="python"> <span class="n" style="color: #333;">target</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">target</span></span>
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<pre style="margin: 0;"> <span id="LC234" class="line" lang="python"> <span class="n" style="color: #333;">flow</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">flow</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -299,20 +297,8 @@ def find_leaving_arc(</td>
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<pre style="margin: 0;"> <span id="LC297" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Change _flow and _state vectors</span></span>
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<pre style="margin: 0;"> <span id="LC298" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># locals: val, u</span></span>
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<pre style="margin: 0;"> <span id="LC299" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># modifies: _state, _flow</span></span>
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<pre style="margin: 0;">-<span id="LC302" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC303" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC304" class="line" lang="python"> <span class="s" style="color: #d14;">"u"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC305" class="line" lang="python"> <span class="s" style="color: #d14;">"in_arc"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC306" class="line" lang="python"> <span class="s" style="color: #d14;">"val"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC307" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">-<span id="LC308" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC309" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">update_flow</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC310" class="line" lang="python"> <span class="n" style="color: #333;">join</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC311" class="line" lang="python"> <span class="n" style="color: #333;">leaving_arc_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC312" class="line" lang="python"> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC313" class="line" lang="python"> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC314" class="line" lang="python"> <span class="n" style="color: #333;">in_arc</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC315" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC300" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"u"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span> <span class="s" style="color: #d14;">"in_arc"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span> <span class="s" style="color: #d14;">"val"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">})</span></span>
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<pre style="margin: 0;">+<span id="LC301" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">update_flow</span><span class="p">(</span><span class="n" style="color: #333;">join</span><span class="p">,</span> <span class="n" style="color: #333;">leaving_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span> <span class="n" style="color: #333;">in_arc</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC302" class="line" lang="python"> <span class="n" style="color: #333;">source</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">source</span></span>
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<pre style="margin: 0;"> <span id="LC303" class="line" lang="python"> <span class="n" style="color: #333;">target</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">target</span></span>
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<pre style="margin: 0;"> <span id="LC304" class="line" lang="python"> <span class="n" style="color: #333;">flow</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node_arc_data</span><span class="p">.</span><span class="n" style="color: #333;">flow</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -372,15 +358,9 @@ def update_flow(</td>
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<pre style="margin: 0;"> <span id="LC358" class="line" lang="python"> <span class="s" style="color: #d14;">"new_stem"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC359" class="line" lang="python"> <span class="s" style="color: #d14;">"par_stem"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC360" class="line" lang="python"> <span class="s" style="color: #d14;">"in_arc"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC375" class="line" lang="python"> <span class="p">}<span class="idiff left right">,</span></span></span>
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<pre style="margin: 0;">+<span id="LC361" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC362" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC377" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">update_spanning_tree</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC378" class="line" lang="python"> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC379" class="line" lang="python"> <span class="n" style="color: #333;">leaving_arc_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC380" class="line" lang="python"> <span class="n" style="color: #333;">join</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC381" class="line" lang="python"> <span class="n" style="color: #333;">in_arc</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC382" class="line" lang="python"> <span class="n" style="color: #333;">source</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC383" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC363" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">update_spanning_tree</span><span class="p">(</span><span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span> <span class="n" style="color: #333;">leaving_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">join</span><span class="p">,</span> <span class="n" style="color: #333;">in_arc</span><span class="p">,</span> <span class="n" style="color: #333;">source</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC364" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="python"> <span class="n" style="color: #333;">parent</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">.</span><span class="n" style="color: #333;">parent</span></span>
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<pre style="margin: 0;"> <span id="LC366" class="line" lang="python"> <span class="n" style="color: #333;">thread</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">.</span><span class="n" style="color: #333;">thread</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -863,12 +843,7 @@ def total_cost(flow, cost):</td>
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<pre style="margin: 0;"> <span id="LC843" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC844" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC845" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">nogil</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC866" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">network_simplex_core</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC867" class="line" lang="python"> <span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC868" class="line" lang="python"> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC869" class="line" lang="python"> <span class="n" style="color: #333;">graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC870" class="line" lang="python"> <span class="n" style="color: #333;">max_iter</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC871" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC846" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">network_simplex_core</span><span class="p">(</span><span class="n" style="color: #333;">node_arc_data</span><span class="p">,</span> <span class="n" style="color: #333;">spanning_tree</span><span class="p">,</span> <span class="n" style="color: #333;">graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_iter</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC847" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC848" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># pivot_block = PivotBlock(</span></span>
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<pre style="margin: 0;"> <span id="LC849" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># max(np.int32(np.sqrt(graph.n_arcs)), 10),</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -949,3 +924,271 @@ def network_simplex_core(</td>
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<pre style="margin: 0;"> <span id="LC924" class="line" lang="python"> <span class="n" style="color: #333;">pi</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-=</span> <span class="n" style="color: #333;">max_pot</span></span>
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<pre style="margin: 0;"> <span id="LC925" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC926" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">solution_status</span></span>
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<pre style="margin: 0;">+<span id="LC927" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC928" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC929" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#######################################################</span></span>
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<pre style="margin: 0;">+<span id="LC930" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># SINKHORN distances in various variations</span></span>
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<pre style="margin: 0;">+<span id="LC931" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#######################################################</span></span>
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<pre style="margin: 0;">+<span id="LC932" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC934" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC935" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC936" class="line" lang="python"> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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937
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<pre style="margin: 0;">+<span id="LC937" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"diff"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">},</span></span>
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938
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<pre style="margin: 0;">+<span id="LC938" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC939" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC940" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">right_marginal_error</span><span class="p">(</span><span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC941" class="line" lang="python"> <span class="n" style="color: #333;">uK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">@</span> <span class="n" style="color: #333;">K</span></span>
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<pre style="margin: 0;">+<span id="LC942" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC943" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">uK</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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944
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<pre style="margin: 0;">+<span id="LC944" class="line" lang="python"> <span class="n" style="color: #333;">diff</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">uK</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">v</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC945" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">diff</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">diff</span></span>
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946
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<pre style="margin: 0;">+<span id="LC946" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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947
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<pre style="margin: 0;">+<span id="LC947" class="line" lang="python"></span>
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948
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<pre style="margin: 0;">+<span id="LC948" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC949" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC950" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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951
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<pre style="margin: 0;">+<span id="LC951" class="line" lang="python"> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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952
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<pre style="margin: 0;">+<span id="LC952" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"diff"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC953" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC954" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC955" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">right_marginal_error_batch</span><span class="p">(</span><span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC956" class="line" lang="python"> <span class="n" style="color: #333;">uK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">T</span> <span class="o" style="font-weight: 600;">@</span> <span class="n" style="color: #333;">u</span></span>
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<pre style="margin: 0;">+<span id="LC957" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC958" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">uK</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC959" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">uK</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]):</span></span>
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960
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<pre style="margin: 0;">+<span id="LC960" class="line" lang="python"> <span class="n" style="color: #333;">diff</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">uK</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">v</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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961
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<pre style="margin: 0;">+<span id="LC961" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">diff</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">diff</span></span>
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962
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<pre style="margin: 0;">+<span id="LC962" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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963
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<pre style="margin: 0;">+<span id="LC963" class="line" lang="python"></span>
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964
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<pre style="margin: 0;">+<span id="LC964" class="line" lang="python"></span>
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965
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<pre style="margin: 0;">+<span id="LC965" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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966
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<pre style="margin: 0;">+<span id="LC966" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">transport_plan</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">):</span></span>
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967
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<pre style="margin: 0;">+<span id="LC967" class="line" lang="python"> <span class="n" style="color: #333;">i_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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968
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<pre style="margin: 0;">+<span id="LC968" class="line" lang="python"> <span class="n" style="color: #333;">j_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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969
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<pre style="margin: 0;">+<span id="LC969" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">empty_like</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">)</span></span>
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970
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<pre style="margin: 0;">+<span id="LC970" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">i_dim</span><span class="p">):</span></span>
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971
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<pre style="margin: 0;">+<span id="LC971" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">j_dim</span><span class="p">):</span></span>
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972
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<pre style="margin: 0;">+<span id="LC972" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">u</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">K</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">v</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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973
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<pre style="margin: 0;">+<span id="LC973" class="line" lang="python"></span>
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974
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<pre style="margin: 0;">+<span id="LC974" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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975
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<pre style="margin: 0;">+<span id="LC975" class="line" lang="python"></span>
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976
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<pre style="margin: 0;">+<span id="LC976" class="line" lang="python"></span>
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977
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<pre style="margin: 0;">+<span id="LC977" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">},</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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978
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<pre style="margin: 0;">+<span id="LC978" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">relative_change_in_plan</span><span class="p">(</span><span class="n" style="color: #333;">old_u</span><span class="p">,</span> <span class="n" style="color: #333;">old_v</span><span class="p">,</span> <span class="n" style="color: #333;">new_u</span><span class="p">,</span> <span class="n" style="color: #333;">new_v</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC979" class="line" lang="python"> <span class="n" style="color: #333;">i_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">old_u</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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980
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<pre style="margin: 0;">+<span id="LC980" class="line" lang="python"> <span class="n" style="color: #333;">j_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">old_v</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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981
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<pre style="margin: 0;">+<span id="LC981" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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982
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<pre style="margin: 0;">+<span id="LC982" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">i_dim</span><span class="p">):</span></span>
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983
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<pre style="margin: 0;">+<span id="LC983" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">j_dim</span><span class="p">):</span></span>
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984
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<pre style="margin: 0;">+<span id="LC984" class="line" lang="python"> <span class="n" style="color: #333;">old_uv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">old_u</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">old_v</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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985
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<pre style="margin: 0;">+<span id="LC985" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">old_uv</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">new_u</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">new_v</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">])</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">old_uv</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC986" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC987" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">i_dim</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">j_dim</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC988" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC989" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC990" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC991" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">precompute_K_prime</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">x</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC992" class="line" lang="python"> <span class="n" style="color: #333;">i_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC993" class="line" lang="python"> <span class="n" style="color: #333;">j_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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994
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<pre style="margin: 0;">+<span id="LC994" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">empty_like</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">)</span></span>
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995
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<pre style="margin: 0;">+<span id="LC995" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">i_dim</span><span class="p">):</span></span>
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996
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<pre style="margin: 0;">+<span id="LC996" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="mf" style="color: #099;">0.0</span><span class="p">:</span></span>
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997
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<pre style="margin: 0;">+<span id="LC997" class="line" lang="python"> <span class="n" style="color: #333;">x_i_inverse</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC998" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC999" class="line" lang="python"> <span class="n" style="color: #333;">x_i_inverse</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">INFINITY</span></span>
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1000
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<pre style="margin: 0;">+<span id="LC1000" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">j_dim</span><span class="p">):</span></span>
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1001
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<pre style="margin: 0;">+<span id="LC1001" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x_i_inverse</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">K</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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1002
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<pre style="margin: 0;">+<span id="LC1002" class="line" lang="python"></span>
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1003
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<pre style="margin: 0;">+<span id="LC1003" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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1004
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<pre style="margin: 0;">+<span id="LC1004" class="line" lang="python"></span>
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1005
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<pre style="margin: 0;">+<span id="LC1005" class="line" lang="python"></span>
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1006
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<pre style="margin: 0;">+<span id="LC1006" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1007
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<pre style="margin: 0;">+<span id="LC1007" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">K_from_cost</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="p">):</span></span>
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1008
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<pre style="margin: 0;">+<span id="LC1008" class="line" lang="python"> <span class="n" style="color: #333;">i_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1009
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<pre style="margin: 0;">+<span id="LC1009" class="line" lang="python"> <span class="n" style="color: #333;">j_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1010
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<pre style="margin: 0;">+<span id="LC1010" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">empty_like</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">)</span></span>
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1011
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<pre style="margin: 0;">+<span id="LC1011" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">i_dim</span><span class="p">):</span></span>
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1012
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<pre style="margin: 0;">+<span id="LC1012" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">j_dim</span><span class="p">):</span></span>
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1013
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<pre style="margin: 0;">+<span id="LC1013" class="line" lang="python"> <span class="n" style="color: #333;">scaled_cost</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">regularization</span></span>
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1014
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<pre style="margin: 0;">+<span id="LC1014" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">exp</span><span class="p">(</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">scaled_cost</span><span class="p">)</span></span>
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1015
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<pre style="margin: 0;">+<span id="LC1015" class="line" lang="python"></span>
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1016
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<pre style="margin: 0;">+<span id="LC1016" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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1017
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<pre style="margin: 0;">+<span id="LC1017" class="line" lang="python"></span>
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1018
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<pre style="margin: 0;">+<span id="LC1018" class="line" lang="python"></span>
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1019
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<pre style="margin: 0;">+<span id="LC1019" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1020
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<pre style="margin: 0;">+<span id="LC1020" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sinkhorn_iterations</span><span class="p">(</span></span>
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1021
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<pre style="margin: 0;">+<span id="LC1021" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">max_iter</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="n" style="color: #333;">error_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-9</span><span class="p">,</span> <span class="n" style="color: #333;">change_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-9</span></span>
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1022
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<pre style="margin: 0;">+<span id="LC1022" class="line" lang="python"><span class="p">):</span></span>
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1023
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<pre style="margin: 0;">+<span id="LC1023" class="line" lang="python"> <span class="n" style="color: #333;">K_prime</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">precompute_K_prime</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">x</span><span class="p">)</span></span>
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1024
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<pre style="margin: 0;">+<span id="LC1024" class="line" lang="python"></span>
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1025
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<pre style="margin: 0;">+<span id="LC1025" class="line" lang="python"> <span class="n" style="color: #333;">prev_u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">u</span></span>
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1026
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<pre style="margin: 0;">+<span id="LC1026" class="line" lang="python"> <span class="n" style="color: #333;">prev_v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">v</span></span>
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1027
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<pre style="margin: 0;">+<span id="LC1027" class="line" lang="python"></span>
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1028
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<pre style="margin: 0;">+<span id="LC1028" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">iteration</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">max_iter</span><span class="p">):</span></span>
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1029
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<pre style="margin: 0;">+<span id="LC1029" class="line" lang="python"></span>
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1030
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<pre style="margin: 0;">+<span id="LC1030" class="line" lang="python"> <span class="n" style="color: #333;">next_v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">T</span> <span class="o" style="font-weight: 600;">@</span> <span class="n" style="color: #333;">u</span><span class="p">)</span></span>
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1031
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<pre style="margin: 0;">+<span id="LC1031" class="line" lang="python"></span>
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1032
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<pre style="margin: 0;">+<span id="LC1032" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">any</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">next_v</span><span class="p">)):</span></span>
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<td class="new_line diff-line-num new" data-linenumber="1033" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1033
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<pre style="margin: 0;">+<span id="LC1033" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1034
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<pre style="margin: 0;">+<span id="LC1034" class="line" lang="python"></span>
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1035
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<pre style="margin: 0;">+<span id="LC1035" class="line" lang="python"> <span class="n" style="color: #333;">next_u</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">K_prime</span> <span class="o" style="font-weight: 600;">@</span> <span class="n" style="color: #333;">next_v</span><span class="p">)</span></span>
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1036
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<pre style="margin: 0;">+<span id="LC1036" class="line" lang="python"></span>
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1037
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<pre style="margin: 0;">+<span id="LC1037" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">any</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">next_u</span><span class="p">)):</span></span>
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1038
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<pre style="margin: 0;">+<span id="LC1038" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1039
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<pre style="margin: 0;">+<span id="LC1039" class="line" lang="python"></span>
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1040
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<pre style="margin: 0;">+<span id="LC1040" class="line" lang="python"> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">next_u</span></span>
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1041
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<pre style="margin: 0;">+<span id="LC1041" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">next_v</span></span>
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1042
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<pre style="margin: 0;">+<span id="LC1042" class="line" lang="python"></span>
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1043
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<pre style="margin: 0;">+<span id="LC1043" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">iteration</span> <span class="o" style="font-weight: 600;">%</span> <span class="mi" style="color: #099;">20</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<td class="new_line diff-line-num new" data-linenumber="1044" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1044
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<pre style="margin: 0;">+<span id="LC1044" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Check if values in plan have changed significantly since last 20 iterations</span></span>
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1045
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<pre style="margin: 0;">+<span id="LC1045" class="line" lang="python"> <span class="n" style="color: #333;">relative_change</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">relative_change_in_plan</span><span class="p">(</span><span class="n" style="color: #333;">prev_u</span><span class="p">,</span> <span class="n" style="color: #333;">prev_v</span><span class="p">,</span> <span class="n" style="color: #333;">next_u</span><span class="p">,</span> <span class="n" style="color: #333;">next_v</span><span class="p">)</span></span>
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<td class="new_line diff-line-num new" data-linenumber="1046" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1046
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<pre style="margin: 0;">+<span id="LC1046" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">relative_change</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">change_tolerance</span><span class="p">:</span></span>
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1047
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<pre style="margin: 0;">+<span id="LC1047" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1048
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<pre style="margin: 0;">+<span id="LC1048" class="line" lang="python"></span>
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1049
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<pre style="margin: 0;">+<span id="LC1049" class="line" lang="python"> <span class="n" style="color: #333;">prev_u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">u</span></span>
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1050
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<pre style="margin: 0;">+<span id="LC1050" class="line" lang="python"> <span class="n" style="color: #333;">prev_v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">v</span></span>
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1051
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<pre style="margin: 0;">+<span id="LC1051" class="line" lang="python"></span>
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1052
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<pre style="margin: 0;">+<span id="LC1052" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">iteration</span> <span class="o" style="font-weight: 600;">%</span> <span class="mi" style="color: #099;">10</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1053
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<pre style="margin: 0;">+<span id="LC1053" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Check if right marginal error is less than tolerance every 10 iterations</span></span>
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1054
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<pre style="margin: 0;">+<span id="LC1054" class="line" lang="python"> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">right_marginal_error</span><span class="p">(</span><span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">)</span></span>
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1055
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<pre style="margin: 0;">+<span id="LC1055" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">error_tolerance</span><span class="p">:</span></span>
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1056
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<pre style="margin: 0;">+<span id="LC1056" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1057
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<pre style="margin: 0;">+<span id="LC1057" class="line" lang="python"></span>
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1058
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<pre style="margin: 0;">+<span id="LC1058" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span></span>
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1059
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<pre style="margin: 0;">+<span id="LC1059" class="line" lang="python"></span>
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1060
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<pre style="margin: 0;">+<span id="LC1060" class="line" lang="python"></span>
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1061
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<pre style="margin: 0;">+<span id="LC1061" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC1062" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sinkhorn_iterations_batch</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">max_iter</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="n" style="color: #333;">error_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-9</span><span class="p">):</span></span>
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1063
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<pre style="margin: 0;">+<span id="LC1063" class="line" lang="python"> <span class="n" style="color: #333;">K_prime</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">precompute_K_prime</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">x</span><span class="p">)</span></span>
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1064
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<pre style="margin: 0;">+<span id="LC1064" class="line" lang="python"></span>
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1065
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<pre style="margin: 0;">+<span id="LC1065" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">iteration</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">max_iter</span><span class="p">):</span></span>
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1066
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<pre style="margin: 0;">+<span id="LC1066" class="line" lang="python"></span>
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1067
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<pre style="margin: 0;">+<span id="LC1067" class="line" lang="python"> <span class="n" style="color: #333;">next_v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">.</span><span class="n" style="color: #333;">T</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">T</span> <span class="o" style="font-weight: 600;">@</span> <span class="n" style="color: #333;">u</span><span class="p">)</span></span>
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1068
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<pre style="margin: 0;">+<span id="LC1068" class="line" lang="python"></span>
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1069
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<pre style="margin: 0;">+<span id="LC1069" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">any</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">next_v</span><span class="p">)):</span></span>
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1070
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<pre style="margin: 0;">+<span id="LC1070" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1071
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<pre style="margin: 0;">+<span id="LC1071" class="line" lang="python"></span>
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1072
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<pre style="margin: 0;">+<span id="LC1072" class="line" lang="python"> <span class="n" style="color: #333;">next_u</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">K_prime</span> <span class="o" style="font-weight: 600;">@</span> <span class="n" style="color: #333;">next_v</span><span class="p">)</span></span>
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1073
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<pre style="margin: 0;">+<span id="LC1073" class="line" lang="python"></span>
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1074
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<pre style="margin: 0;">+<span id="LC1074" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">any</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">next_u</span><span class="p">)):</span></span>
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1075
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<pre style="margin: 0;">+<span id="LC1075" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1076
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<pre style="margin: 0;">+<span id="LC1076" class="line" lang="python"></span>
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1077
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<pre style="margin: 0;">+<span id="LC1077" class="line" lang="python"> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">next_u</span></span>
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1078
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<pre style="margin: 0;">+<span id="LC1078" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">next_v</span></span>
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1079
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<pre style="margin: 0;">+<span id="LC1079" class="line" lang="python"></span>
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1080
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<pre style="margin: 0;">+<span id="LC1080" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">iteration</span> <span class="o" style="font-weight: 600;">%</span> <span class="mi" style="color: #099;">10</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1081
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<pre style="margin: 0;">+<span id="LC1081" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Check if right marginal error is less than tolerance every 10 iterations</span></span>
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1082
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<pre style="margin: 0;">+<span id="LC1082" class="line" lang="python"> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">right_marginal_error_batch</span><span class="p">(</span><span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">)</span></span>
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1083
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<pre style="margin: 0;">+<span id="LC1083" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">error_tolerance</span><span class="p">:</span></span>
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1084
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<pre style="margin: 0;">+<span id="LC1084" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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1085
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<pre style="margin: 0;">+<span id="LC1085" class="line" lang="python"></span>
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1086
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<pre style="margin: 0;">+<span id="LC1086" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span></span>
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1087
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<pre style="margin: 0;">+<span id="LC1087" class="line" lang="python"></span>
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1088
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<pre style="margin: 0;">+<span id="LC1088" class="line" lang="python"></span>
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1089
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<pre style="margin: 0;">+<span id="LC1089" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1090
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<pre style="margin: 0;">+<span id="LC1090" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sinkhorn_transport_plan</span><span class="p">(</span></span>
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1091
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<pre style="margin: 0;">+<span id="LC1091" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span></span>
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1092
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<pre style="margin: 0;">+<span id="LC1092" class="line" lang="python"> <span class="n" style="color: #333;">y</span><span class="p">,</span></span>
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1093
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<pre style="margin: 0;">+<span id="LC1093" class="line" lang="python"> <span class="n" style="color: #333;">cost</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_dummy_cost</span><span class="p">,</span></span>
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1094
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<pre style="margin: 0;">+<span id="LC1094" class="line" lang="python"> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span></span>
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1095
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<pre style="margin: 0;">+<span id="LC1095" class="line" lang="python"> <span class="n" style="color: #333;">max_iter</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span></span>
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1096
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<pre style="margin: 0;">+<span id="LC1096" class="line" lang="python"> <span class="n" style="color: #333;">error_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-9</span><span class="p">,</span></span>
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1097
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<pre style="margin: 0;">+<span id="LC1097" class="line" lang="python"> <span class="n" style="color: #333;">change_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-9</span><span class="p">,</span></span>
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1098
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<pre style="margin: 0;">+<span id="LC1098" class="line" lang="python"><span class="p">):</span></span>
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1099
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<pre style="margin: 0;">+<span id="LC1099" class="line" lang="python"> <span class="n" style="color: #333;">dim_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1100
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<pre style="margin: 0;">+<span id="LC1100" class="line" lang="python"> <span class="n" style="color: #333;">dim_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1101
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<pre style="margin: 0;">+<span id="LC1101" class="line" lang="python"> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">full</span><span class="p">(</span><span class="n" style="color: #333;">dim_x</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dim_x</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">dtype</span><span class="p">)</span></span>
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1102
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<pre style="margin: 0;">+<span id="LC1102" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">full</span><span class="p">(</span><span class="n" style="color: #333;">dim_y</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dim_y</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">dtype</span><span class="p">)</span></span>
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1103
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<pre style="margin: 0;">+<span id="LC1103" class="line" lang="python"></span>
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1104
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<pre style="margin: 0;">+<span id="LC1104" class="line" lang="python"> <span class="n" style="color: #333;">K</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K_from_cost</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC1105" class="line" lang="python"> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sinkhorn_iterations</span><span class="p">(</span></span>
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1106
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<pre style="margin: 0;">+<span id="LC1106" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span></span>
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1107
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<pre style="margin: 0;">+<span id="LC1107" class="line" lang="python"> <span class="n" style="color: #333;">y</span><span class="p">,</span></span>
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1108
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<pre style="margin: 0;">+<span id="LC1108" class="line" lang="python"> <span class="n" style="color: #333;">u</span><span class="p">,</span></span>
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1109
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<pre style="margin: 0;">+<span id="LC1109" class="line" lang="python"> <span class="n" style="color: #333;">v</span><span class="p">,</span></span>
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1110
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<pre style="margin: 0;">+<span id="LC1110" class="line" lang="python"> <span class="n" style="color: #333;">K</span><span class="p">,</span></span>
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1111
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<pre style="margin: 0;">+<span id="LC1111" class="line" lang="python"> <span class="n" style="color: #333;">max_iter</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">max_iter</span><span class="p">,</span></span>
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1112
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<pre style="margin: 0;">+<span id="LC1112" class="line" lang="python"> <span class="n" style="color: #333;">error_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">error_tolerance</span><span class="p">,</span></span>
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1113
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<pre style="margin: 0;">+<span id="LC1113" class="line" lang="python"> <span class="n" style="color: #333;">change_tolerance</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">change_tolerance</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1114" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC1115" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC1116" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC1117" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC1118" class="line" lang="python"></span>
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1119
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<pre style="margin: 0;">+<span id="LC1119" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1120
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<pre style="margin: 0;">+<span id="LC1120" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sinkhorn_distance</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">cost</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_dummy_cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0</span><span class="p">):</span></span>
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1121
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<pre style="margin: 0;">+<span id="LC1121" class="line" lang="python"> <span class="n" style="color: #333;">transport_plan</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sinkhorn_transport_plan</span><span class="p">(</span></span>
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1122
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<pre style="margin: 0;">+<span id="LC1122" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">cost</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">regularization</span></span>
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1123
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<pre style="margin: 0;">+<span id="LC1123" class="line" lang="python"> <span class="p">)</span></span>
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1124
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<pre style="margin: 0;">+<span id="LC1124" class="line" lang="python"> <span class="n" style="color: #333;">dim_i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1125
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<pre style="margin: 0;">+<span id="LC1125" class="line" lang="python"> <span class="n" style="color: #333;">dim_j</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1126
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<pre style="margin: 0;">+<span id="LC1126" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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1127
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<pre style="margin: 0;">+<span id="LC1127" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim_i</span><span class="p">):</span></span>
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1128
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<pre style="margin: 0;">+<span id="LC1128" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim_j</span><span class="p">):</span></span>
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1129
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<pre style="margin: 0;">+<span id="LC1129" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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1130
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<pre style="margin: 0;">+<span id="LC1130" class="line" lang="python"></span>
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1131
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<pre style="margin: 0;">+<span id="LC1131" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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1132
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<pre style="margin: 0;">+<span id="LC1132" class="line" lang="python"></span>
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1133
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<pre style="margin: 0;">+<span id="LC1133" class="line" lang="python"></span>
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1134
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<pre style="margin: 0;">+<span id="LC1134" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1135
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<pre style="margin: 0;">+<span id="LC1135" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sinkhorn_distance_batch</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">cost</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">_dummy_cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0</span><span class="p">):</span></span>
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1136
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<pre style="margin: 0;">+<span id="LC1136" class="line" lang="python"> <span class="n" style="color: #333;">dim_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1137
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<pre style="margin: 0;">+<span id="LC1137" class="line" lang="python"> <span class="n" style="color: #333;">dim_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1138
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<pre style="margin: 0;">+<span id="LC1138" class="line" lang="python"></span>
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1139
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<pre style="margin: 0;">+<span id="LC1139" class="line" lang="python"> <span class="n" style="color: #333;">batch_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">y</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1140
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<pre style="margin: 0;">+<span id="LC1140" class="line" lang="python"></span>
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1141
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<pre style="margin: 0;">+<span id="LC1141" class="line" lang="python"> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">full</span><span class="p">((</span><span class="n" style="color: #333;">dim_x</span><span class="p">,</span> <span class="n" style="color: #333;">batch_size</span><span class="p">),</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dim_x</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">dtype</span><span class="p">)</span></span>
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1142
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<pre style="margin: 0;">+<span id="LC1142" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">full</span><span class="p">((</span><span class="n" style="color: #333;">dim_y</span><span class="p">,</span> <span class="n" style="color: #333;">batch_size</span><span class="p">),</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dim_y</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">dtype</span><span class="p">)</span></span>
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1143
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<pre style="margin: 0;">+<span id="LC1143" class="line" lang="python"></span>
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1144
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<pre style="margin: 0;">+<span id="LC1144" class="line" lang="python"> <span class="n" style="color: #333;">K</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K_from_cost</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="p">)</span></span>
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1145
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<pre style="margin: 0;">+<span id="LC1145" class="line" lang="python"> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sinkhorn_iterations_batch</span><span class="p">(</span></span>
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1146
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<pre style="margin: 0;">+<span id="LC1146" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span></span>
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1147
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<pre style="margin: 0;">+<span id="LC1147" class="line" lang="python"> <span class="n" style="color: #333;">y</span><span class="p">,</span></span>
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1148
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<pre style="margin: 0;">+<span id="LC1148" class="line" lang="python"> <span class="n" style="color: #333;">u</span><span class="p">,</span></span>
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1149
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<pre style="margin: 0;">+<span id="LC1149" class="line" lang="python"> <span class="n" style="color: #333;">v</span><span class="p">,</span></span>
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1150
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<pre style="margin: 0;">+<span id="LC1150" class="line" lang="python"> <span class="n" style="color: #333;">K</span><span class="p">,</span></span>
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1151
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<pre style="margin: 0;">+<span id="LC1151" class="line" lang="python"> <span class="p">)</span></span>
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1152
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<pre style="margin: 0;">+<span id="LC1152" class="line" lang="python"></span>
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1153
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<pre style="margin: 0;">+<span id="LC1153" class="line" lang="python"> <span class="n" style="color: #333;">i_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1154
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<pre style="margin: 0;">+<span id="LC1154" class="line" lang="python"> <span class="n" style="color: #333;">j_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1155
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<pre style="margin: 0;">+<span id="LC1155" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">(</span><span class="n" style="color: #333;">batch_size</span><span class="p">)</span></span>
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1156
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<pre style="margin: 0;">+<span id="LC1156" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">i_dim</span><span class="p">):</span></span>
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1157
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<pre style="margin: 0;">+<span id="LC1157" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">j_dim</span><span class="p">):</span></span>
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1158
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<pre style="margin: 0;">+<span id="LC1158" class="line" lang="python"> <span class="n" style="color: #333;">K_times_cost</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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1159
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<pre style="margin: 0;">+<span id="LC1159" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">batch</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">batch_size</span><span class="p">):</span></span>
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1160
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<pre style="margin: 0;">+<span id="LC1160" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">[</span><span class="n" style="color: #333;">batch</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">u</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">batch</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">K_times_cost</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">v</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="n" style="color: #333;">batch</span><span class="p">]</span></span>
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1161
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<pre style="margin: 0;">+<span id="LC1161" class="line" lang="python"></span>
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1162
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<pre style="margin: 0;">+<span id="LC1162" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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1163
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<pre style="margin: 0;">+<span id="LC1163" class="line" lang="python"></span>
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1164
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<pre style="margin: 0;">+<span id="LC1164" class="line" lang="python"></span>
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1165
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<pre style="margin: 0;">+<span id="LC1165" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">make_fixed_cost_sinkhorn_distance</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0</span><span class="p">):</span></span>
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1166
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<pre style="margin: 0;">+<span id="LC1166" class="line" lang="python"></span>
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1167
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<pre style="margin: 0;">+<span id="LC1167" class="line" lang="python"> <span class="n" style="color: #333;">K</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K_from_cost</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="p">)</span></span>
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1168
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<pre style="margin: 0;">+<span id="LC1168" class="line" lang="python"> <span class="n" style="color: #333;">dim_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1169
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<pre style="margin: 0;">+<span id="LC1169" class="line" lang="python"> <span class="n" style="color: #333;">dim_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1170
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<pre style="margin: 0;">+<span id="LC1170" class="line" lang="python"></span>
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1171
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<pre style="margin: 0;">+<span id="LC1171" class="line" lang="python"> <span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1172
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<pre style="margin: 0;">+<span id="LC1172" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">closure</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">):</span></span>
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1173
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<pre style="margin: 0;">+<span id="LC1173" class="line" lang="python"> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">full</span><span class="p">(</span><span class="n" style="color: #333;">dim_x</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dim_x</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">dtype</span><span class="p">)</span></span>
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1174
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<pre style="margin: 0;">+<span id="LC1174" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">full</span><span class="p">(</span><span class="n" style="color: #333;">dim_y</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dim_y</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cost</span><span class="p">.</span><span class="n" style="color: #333;">dtype</span><span class="p">)</span></span>
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1175
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<pre style="margin: 0;">+<span id="LC1175" class="line" lang="python"></span>
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1176
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<pre style="margin: 0;">+<span id="LC1176" class="line" lang="python"> <span class="n" style="color: #333;">K</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">K_from_cost</span><span class="p">(</span><span class="n" style="color: #333;">cost</span><span class="p">,</span> <span class="n" style="color: #333;">regularization</span><span class="p">)</span></span>
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1177
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<pre style="margin: 0;">+<span id="LC1177" class="line" lang="python"> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sinkhorn_iterations</span><span class="p">(</span></span>
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1178
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<pre style="margin: 0;">+<span id="LC1178" class="line" lang="python"> <span class="n" style="color: #333;">x</span><span class="p">,</span></span>
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1179
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<pre style="margin: 0;">+<span id="LC1179" class="line" lang="python"> <span class="n" style="color: #333;">y</span><span class="p">,</span></span>
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1180
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<pre style="margin: 0;">+<span id="LC1180" class="line" lang="python"> <span class="n" style="color: #333;">u</span><span class="p">,</span></span>
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1181
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<pre style="margin: 0;">+<span id="LC1181" class="line" lang="python"> <span class="n" style="color: #333;">v</span><span class="p">,</span></span>
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1182
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<pre style="margin: 0;">+<span id="LC1182" class="line" lang="python"> <span class="n" style="color: #333;">K</span><span class="p">,</span></span>
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1183
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<pre style="margin: 0;">+<span id="LC1183" class="line" lang="python"> <span class="p">)</span></span>
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1184
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<pre style="margin: 0;">+<span id="LC1184" class="line" lang="python"></span>
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1185
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<pre style="margin: 0;">+<span id="LC1185" class="line" lang="python"> <span class="n" style="color: #333;">current_plan</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">transport_plan</span><span class="p">(</span><span class="n" style="color: #333;">K</span><span class="p">,</span> <span class="n" style="color: #333;">u</span><span class="p">,</span> <span class="n" style="color: #333;">v</span><span class="p">)</span></span>
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1186
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<pre style="margin: 0;">+<span id="LC1186" class="line" lang="python"></span>
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1187
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<pre style="margin: 0;">+<span id="LC1187" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC1188" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim_x</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC1189" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim_y</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC1190" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">current_plan</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">cost</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC1191" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC1192" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;">+<span id="LC1193" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC1194" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">closure</span></span></pre>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#255f5f1efb78d11f22b1b3b1361f64af54f5eb38"><strong>pynndescent/pynndescent_.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -9,12 +9,7 @@ import numpy as np</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">check_random_state</span><span class="p">,</span> <span class="n" style="color: #333;">check_array</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.preprocessing</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">normalize</span></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.base</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">BaseEstimator</span><span class="p">,</span> <span class="n" style="color: #333;">TransformerMixin</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy.sparse</span> <span class="kn" style="font-weight: 600;">import</span> <span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="python"> <span class="n" style="color: #333;">csr_matrix</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="python"> <span class="n" style="color: #333;">coo_matrix</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="python"> <span class="n" style="color: #333;">isspmatrix_csr</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="python"> <span class="n" style="color: #333;">vstack</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">sparse_vstack</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy.sparse</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">csr_matrix</span><span class="p">,</span> <span class="n" style="color: #333;">coo_matrix</span><span class="p">,</span> <span class="n" style="color: #333;">isspmatrix_csr</span><span class="p">,</span> <span class="n" style="color: #333;">vstack</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">sparse_vstack</span><span class="p">,</span> <span class="n" style="color: #333;">issparse</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">heapq</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -30,7 +25,6 @@ from pynndescent.utils import (</td>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="python"> <span class="n" style="color: #333;">new_build_candidates</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="python"> <span class="n" style="color: #333;">ts</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="python"> <span class="n" style="color: #333;">flagged_heap_push</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"> <span class="n" style="color: #333;">has_been_visited</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">,</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -64,7 +58,12 @@ FLOAT32_EPS = np.finfo(np.float32).eps</td>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="python"><span class="n" style="color: #333;">EMPTY_GRAPH</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">make_heap</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">is_c_contiguous</span><span class="p">(</span><span class="n" style="color: #333;">array_like</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="python"> <span class="n" style="color: #333;">flags</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">getattr</span><span class="p">(</span><span class="n" style="color: #333;">array_like</span><span class="p">,</span> <span class="s" style="color: #d14;">"flags"</span><span class="p">,</span> <span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">flags</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="s" style="color: #d14;">"C_CONTIGUOUS"</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC67" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">generate_leaf_updates</span><span class="p">(</span><span class="n" style="color: #333;">leaf_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[[(</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">inf</span><span class="p">)]</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">leaf_block</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">])]</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="86" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -87,13 +86,7 @@ def generate_leaf_updates(leaf_block, dist_thresholds, data, dist):</td>
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">updates</span></span>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="python"> <span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="python"> <span class="s" style="color: #d14;">"p"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="python"> <span class="s" style="color: #d14;">"q"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"p"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="s" style="color: #d14;">"q"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">},</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">init_rp_tree</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">,</span> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">leaf_array</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="python"> <span class="n" style="color: #333;">n_leaves</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">leaf_array</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -107,12 +100,7 @@ def init_rp_tree(data, dist, current_graph, leaf_array):</td>
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="python"> <span class="n" style="color: #333;">leaf_block</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">leaf_array</span><span class="p">[</span><span class="n" style="color: #333;">block_start</span><span class="p">:</span><span class="n" style="color: #333;">block_end</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][:,</span> <span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">generate_leaf_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="python"> <span class="n" style="color: #333;">leaf_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">generate_leaf_updates</span><span class="p">(</span><span class="n" style="color: #333;">leaf_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">)</span></span>
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104
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<pre style="margin: 0;"> <span id="LC104" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC105" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">updates</span><span class="p">)):</span></span>
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106
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">k</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">updates</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">])):</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="109" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -121,8 +109,6 @@ def init_rp_tree(data, dist, current_graph, leaf_array):</td>
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109
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<pre style="margin: 0;"> <span id="LC109" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">==</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="python"> <span class="k" style="font-weight: 600;">continue</span></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># heap_push(current_graph, p, d, q, 1)</span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># heap_push(current_graph, q, d, p, 1)</span></span>
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC113" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -142,7 +128,9 @@ def init_rp_tree(data, dist, current_graph, leaf_array):</td>
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"idx"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"idx"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">init_random</span><span class="p">(</span><span class="n" style="color: #333;">n_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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148
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136
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="138" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -150,7 +138,6 @@ def init_random(n_neighbors, data, heap, dist, rng_state):</td>
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150
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138
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<pre style="margin: 0;"> <span id="LC138" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.0</span><span class="p">)):</span></span>
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151
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139
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<pre style="margin: 0;"> <span id="LC139" class="line" lang="python"> <span class="n" style="color: #333;">idx</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">tau_rand_int</span><span class="p">(</span><span class="n" style="color: #333;">rng_state</span><span class="p">))</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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152
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140
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<pre style="margin: 0;"> <span id="LC140" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">idx</span><span class="p">],</span> <span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span></span>
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># heap_push(heap, i, d, idx, 1)</span></span>
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154
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141
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<pre style="margin: 0;"> <span id="LC141" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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142
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<pre style="margin: 0;"> <span id="LC142" class="line" lang="python"> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">idx</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">uint8</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC143" class="line" lang="python"> <span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -158,25 +145,20 @@ def init_random(n_neighbors, data, heap, dist, rng_state):</td>
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<pre style="margin: 0;"> <span id="LC145" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span></span>
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<pre style="margin: 0;"> <span id="LC146" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC147" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC161" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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149
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<pre style="margin: 0;"> <span id="LC149" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">init_from_neighbor_graph</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">distances</span><span class="p">):</span></span>
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150
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">p</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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164
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">k</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]):</span></span>
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="python"> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">k</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC153" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distances</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">k</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC167" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># unchecked_heap_push(heap, p, d, q, 0)</span></span>
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<pre style="margin: 0;">-<span id="LC168" class="line" lang="python"> <span class="n" style="color: #333;">flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">q</span><span class="p">,</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">q</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span></span>
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC173" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC160" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">generate_graph_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC175" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC176" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC177" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC178" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC179" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span></span>
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<pre style="margin: 0;"> <span id="LC162" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC163" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC164" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -210,7 +192,7 @@ def generate_graph_updates(</td>
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">updates</span></span>
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193
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<pre style="margin: 0;"> <span id="LC193" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC194" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC213" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC196" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">process_candidates</span><span class="p">(</span></span>
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197
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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198
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -219,6 +201,7 @@ def process_candidates(</td>
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201
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_neighbors</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC202" class="line" lang="python"> <span class="n" style="color: #333;">n_blocks</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC203" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC204" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;"> <span id="LC207" class="line" lang="python"> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_candidate_neighbors</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -232,14 +215,10 @@ def process_candidates(</td>
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][:,</span> <span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC217" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">generate_graph_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC235" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC236" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC237" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC238" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC239" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC218" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span></span>
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<pre style="margin: 0;"> <span id="LC219" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC220" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC242" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">apply_graph_updates_low_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC221" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">apply_graph_updates_low_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">n_threads</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC222" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC223" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">c</span></span>
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<pre style="margin: 0;"> <span id="LC224" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -259,15 +238,14 @@ def nn_descent_internal_low_memory_parallel(</td>
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<pre style="margin: 0;"> <span id="LC238" class="line" lang="python"> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC239" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">16384</span></span>
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<pre style="margin: 0;"> <span id="LC240" class="line" lang="python"> <span class="n" style="color: #333;">n_blocks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">//</span> <span class="n" style="color: #333;">block_size</span></span>
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<pre style="margin: 0;">+<span id="LC241" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">get_num_threads</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC242" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC243" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">n</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_iters</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC244" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">verbose</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC245" class="line" lang="python"> <span class="k" style="font-weight: 600;">print</span><span class="p">(</span><span class="s" style="color: #d14;">"</span><span class="se" style="color: #d14;">\t</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">" / "</span><span class="p">,</span> <span class="n" style="color: #333;">n_iters</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC247" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">new_candidate_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_neighbors</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_build_candidates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC268" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC269" class="line" lang="python"> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC270" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC248" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span> <span class="n" style="color: #333;">n_threads</span></span>
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<pre style="margin: 0;"> <span id="LC249" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC250" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC251" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">process_candidates</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -278,6 +256,7 @@ def nn_descent_internal_low_memory_parallel(</td>
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278
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256
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<pre style="margin: 0;"> <span id="LC256" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_neighbors</span><span class="p">,</span></span>
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257
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<pre style="margin: 0;"> <span id="LC257" class="line" lang="python"> <span class="n" style="color: #333;">n_blocks</span><span class="p">,</span></span>
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258
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC260" class="line" lang="python"> <span class="p">)</span></span>
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261
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="301" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="280" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -301,6 +280,7 @@ def nn_descent_internal_high_memory_parallel(</td>
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301
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280
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<pre style="margin: 0;"> <span id="LC280" class="line" lang="python"> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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302
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<pre style="margin: 0;"> <span id="LC281" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">16384</span></span>
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<pre style="margin: 0;"> <span id="LC282" class="line" lang="python"> <span class="n" style="color: #333;">n_blocks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">//</span> <span class="n" style="color: #333;">block_size</span></span>
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<pre style="margin: 0;">+<span id="LC283" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">get_num_threads</span><span class="p">()</span></span>
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284
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<pre style="margin: 0;"> <span id="LC284" class="line" lang="python"></span>
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285
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<pre style="margin: 0;"> <span id="LC285" class="line" lang="python"> <span class="n" style="color: #333;">in_graph</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span></span>
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306
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286
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<pre style="margin: 0;"> <span id="LC286" class="line" lang="python"> <span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">))</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="292" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -312,9 +292,7 @@ def nn_descent_internal_high_memory_parallel(</td>
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<pre style="margin: 0;"> <span id="LC292" class="line" lang="python"> <span class="k" style="font-weight: 600;">print</span><span class="p">(</span><span class="s" style="color: #d14;">"</span><span class="se" style="color: #d14;">\t</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">" / "</span><span class="p">,</span> <span class="n" style="color: #333;">n_iters</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC293" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC294" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">new_candidate_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_neighbors</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_build_candidates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC315" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC316" class="line" lang="python"> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC317" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC295" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span> <span class="n" style="color: #333;">n_threads</span></span>
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<pre style="margin: 0;"> <span id="LC296" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC297" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC298" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -327,11 +305,7 @@ def nn_descent_internal_high_memory_parallel(</td>
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<pre style="margin: 0;"> <span id="LC305" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][:,</span> <span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC306" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC307" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">generate_graph_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC330" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC331" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC332" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC333" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC334" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC308" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span></span>
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<pre style="margin: 0;"> <span id="LC309" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC310" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">apply_graph_updates_high_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p">,</span> <span class="n" style="color: #333;">in_graph</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="439" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -465,8 +439,7 @@ def diversify_csr(</td>
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<pre style="margin: 0;"> <span id="LC439" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">retained</span><span class="p">[</span><span class="n" style="color: #333;">l</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC440" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC441" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC468" class="line" lang="python"> <span class="n" style="color: #333;">source_data</span><span class="p">[</span><span class="n" style="color: #333;">current_indices</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]],</span></span>
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<pre style="margin: 0;">-<span id="LC469" class="line" lang="python"> <span class="n" style="color: #333;">source_data</span><span class="p">[</span><span class="n" style="color: #333;">current_indices</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="p">]],</span></span>
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<pre style="margin: 0;">+<span id="LC442" class="line" lang="python"> <span class="n" style="color: #333;">source_data</span><span class="p">[</span><span class="n" style="color: #333;">current_indices</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]],</span> <span class="n" style="color: #333;">source_data</span><span class="p">[</span><span class="n" style="color: #333;">current_indices</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="p">]]</span></span>
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<pre style="margin: 0;"> <span id="LC443" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC444" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">current_data</span><span class="p">[</span><span class="n" style="color: #333;">l</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">FLOAT32_EPS</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">current_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]:</span></span>
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<pre style="margin: 0;"> <span id="LC445" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">tau_rand</span><span class="p">(</span><span class="n" style="color: #333;">rng_state</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">prune_probability</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -528,7 +501,7 @@ def resort_tree_indices(tree, tree_order):</td>
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<pre style="margin: 0;"> <span id="LC501" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">new_tree</span></span>
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<pre style="margin: 0;"> <span id="LC502" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC503" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC531" class="line" lang="python"><span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">NNDescent</span><span class="p"><span class="idiff left">(</span></span><span class="nb" style="color: #0086b3;"><span class="idiff">object</span></span><span class="p"><span class="idiff right">)</span>:</span></span>
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<pre style="margin: 0;">+<span id="LC504" class="line" lang="python"><span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">NNDescent</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC505" class="line" lang="python"> <span class="s" style="color: #d14;">"""NNDescent for fast approximate nearest neighbor queries. NNDescent is</span></span>
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<pre style="margin: 0;"> <span id="LC506" class="line" lang="python"><span class="s" style="color: #d14;"> very flexible and supports a wide variety of distances, including</span></span>
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<pre style="margin: 0;"> <span id="LC507" class="line" lang="python"><span class="s" style="color: #d14;"> non-metric distances. NNDescent also scales well against high dimensional</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -537,7 +510,7 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC510" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC511" class="line" lang="python"><span class="s" style="color: #d14;"> Parameters</span></span>
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<pre style="margin: 0;"> <span id="LC512" class="line" lang="python"><span class="s" style="color: #d14;"> ----------</span></span>
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<pre style="margin: 0;">-<span id="LC540" class="line" lang="python"><span class="s" style="color: #d14;"> data: array o<span class="idiff left right">s</span> shape (n_samples, n_features)</span></span>
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<pre style="margin: 0;">+<span id="LC513" class="line" lang="python"><span class="s" style="color: #d14;"> data: array o<span class="idiff left right">f</span> shape (n_samples, n_features)</span></span>
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<pre style="margin: 0;"> <span id="LC514" class="line" lang="python"><span class="s" style="color: #d14;"> The training graph_data set to find nearest neighbors in.</span></span>
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515
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<pre style="margin: 0;"> <span id="LC515" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC516" class="line" lang="python"><span class="s" style="color: #d14;"> metric: string or callable (optional, default='euclidean')</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -566,6 +539,7 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC539" class="line" lang="python"><span class="s" style="color: #d14;"> * sokalsneath</span></span>
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540
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="python"><span class="s" style="color: #d14;"> * yule</span></span>
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541
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<pre style="margin: 0;"> <span id="LC541" class="line" lang="python"><span class="s" style="color: #d14;"> * hellinger</span></span>
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<pre style="margin: 0;">+<span id="LC542" class="line" lang="python"><span class="s" style="color: #d14;"> * wasserstein-1d</span></span>
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569
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543
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<pre style="margin: 0;"> <span id="LC543" class="line" lang="python"><span class="s" style="color: #d14;"> Metrics that take arguments (such as minkowski, mahalanobis etc.)</span></span>
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570
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544
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="python"><span class="s" style="color: #d14;"> can have arguments passed via the metric_kwds dictionary. At this</span></span>
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545
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<pre style="margin: 0;"> <span id="LC545" class="line" lang="python"><span class="s" style="color: #d14;"> time care must be taken and dictionary elements must be ordered</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -605,6 +579,12 @@ class NNDescent(object):</td>
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579
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<pre style="margin: 0;"> <span id="LC579" class="line" lang="python"><span class="s" style="color: #d14;"> that no edges get removed, and larger values result in significantly more</span></span>
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606
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580
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<pre style="margin: 0;"> <span id="LC580" class="line" lang="python"><span class="s" style="color: #d14;"> aggressive edge removal. A value of 1.0 will prune all edges that it can.</span></span>
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607
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581
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<pre style="margin: 0;"> <span id="LC581" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC582" class="line" lang="python"><span class="s" style="color: #d14;"> n_search_trees: int (optional, default=1)</span></span>
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583
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<pre style="margin: 0;">+<span id="LC583" class="line" lang="python"><span class="s" style="color: #d14;"> The number of random projection trees to use in initializing searching or</span></span>
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584
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<pre style="margin: 0;">+<span id="LC584" class="line" lang="python"><span class="s" style="color: #d14;"> querying.</span></span>
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585
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<pre style="margin: 0;">+<span id="LC585" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC586" class="line" lang="python"><span class="s" style="color: #d14;"> .. deprecated:: 0.5.5</span></span>
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587
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<pre style="margin: 0;">+<span id="LC587" class="line" lang="python"></span>
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608
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588
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<pre style="margin: 0;"> <span id="LC588" class="line" lang="python"><span class="s" style="color: #d14;"> tree_init: bool (optional, default=True)</span></span>
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609
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589
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<pre style="margin: 0;"> <span id="LC589" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to use random projection trees for initialization.</span></span>
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610
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590
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<pre style="margin: 0;"> <span id="LC590" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -621,14 +601,11 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC601" class="line" lang="python"><span class="s" style="color: #d14;"> The``'alternative'`` algorithm has been deprecated and is no longer</span></span>
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<pre style="margin: 0;"> <span id="LC602" class="line" lang="python"><span class="s" style="color: #d14;"> available.</span></span>
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<pre style="margin: 0;"> <span id="LC603" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC624" class="line" lang="python"><span class="s" style="color: #d14;"> low_memory: boolean (optional, default=<span class="idiff left right">Fals</span>e)</span></span>
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<pre style="margin: 0;">+<span id="LC604" class="line" lang="python"><span class="s" style="color: #d14;"> low_memory: boolean (optional, default=<span class="idiff left right">Tru</span>e)</span></span>
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<pre style="margin: 0;"> <span id="LC605" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to use a lower memory, but more computationally expensive</span></span>
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<pre style="margin: 0;">-<span id="LC626" class="line" lang="python"><span class="s" style="color: #d14;"> approach to index construction. This defaults to false as for most</span></span>
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<pre style="margin: 0;">-<span id="LC627" class="line" lang="python"><span class="s" style="color: #d14;"> cases it speeds index construction, but if you are having issues</span></span>
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<pre style="margin: 0;">-<span id="LC628" class="line" lang="python"><span class="s" style="color: #d14;"> with excessive memory use for your dataset consider setting this</span></span>
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<pre style="margin: 0;">-<span id="LC629" class="line" lang="python"><span class="s" style="color: #d14;"> to True.</span></span>
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<pre style="margin: 0;">+<span id="LC606" class="line" lang="python"><span class="s" style="color: #d14;"> approach to index construction.</span></span>
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<pre style="margin: 0;"> <span id="LC607" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC631" class="line" lang="python"><span class="s" style="color: #d14;"> max_candidates: int (optional, default=<span class="idiff left right">20</span>)</span></span>
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<pre style="margin: 0;">+<span id="LC608" class="line" lang="python"><span class="s" style="color: #d14;"> max_candidates: int (optional, default=<span class="idiff left right">None</span>)</span></span>
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<pre style="margin: 0;"> <span id="LC609" class="line" lang="python"><span class="s" style="color: #d14;"> Internally each "self-join" keeps a maximum number of candidates (</span></span>
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<pre style="margin: 0;"> <span id="LC610" class="line" lang="python"><span class="s" style="color: #d14;"> nearest neighbors and reverse nearest neighbors) to be considered.</span></span>
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<pre style="margin: 0;"> <span id="LC611" class="line" lang="python"><span class="s" style="color: #d14;"> This value controls this aspect of the algorithm. Larger values will</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -659,6 +636,11 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC636" class="line" lang="python"><span class="s" style="color: #d14;"> result in a significantly smaller index, particularly useful for saving,</span></span>
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<pre style="margin: 0;"> <span id="LC637" class="line" lang="python"><span class="s" style="color: #d14;"> but will remove information that might otherwise be useful.</span></span>
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<pre style="margin: 0;"> <span id="LC638" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC639" class="line" lang="python"><span class="s" style="color: #d14;"> parallel_batch_queries: bool (optional, default=False)</span></span>
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<pre style="margin: 0;">+<span id="LC640" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to use parallelism of batched queries. This can be useful for large</span></span>
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<pre style="margin: 0;">+<span id="LC641" class="line" lang="python"><span class="s" style="color: #d14;"> batches of queries on multicore machines, but results in performance degradation</span></span>
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<pre style="margin: 0;">+<span id="LC642" class="line" lang="python"><span class="s" style="color: #d14;"> for single queries, so is poor for streaming use.</span></span>
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<pre style="margin: 0;">+<span id="LC643" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC644" class="line" lang="python"><span class="s" style="color: #d14;"> verbose: bool (optional, default=False)</span></span>
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<pre style="margin: 0;"> <span id="LC645" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to print status graph_data during the computation.</span></span>
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<pre style="margin: 0;"> <span id="LC646" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -682,7 +664,8 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC664" class="line" lang="python"> <span class="n" style="color: #333;">n_iters</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC665" class="line" lang="python"> <span class="n" style="color: #333;">delta</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.001</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC666" class="line" lang="python"> <span class="n" style="color: #333;">n_jobs</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC685" class="line" lang="python"> <span class="n" style="color: #333;">compressed</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC667" class="line" lang="python"> <span class="n" style="color: #333;">compressed</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC668" class="line" lang="python"> <span class="n" style="color: #333;">parallel_batch_queries</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC669" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC670" class="line" lang="python"> <span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC671" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -707,8 +690,14 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC690" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC691" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_jobs</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_jobs</span></span>
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<pre style="margin: 0;"> <span id="LC692" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">compressed</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">compressed</span></span>
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<pre style="margin: 0;">+<span id="LC693" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">parallel_batch_queries</span></span>
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<pre style="margin: 0;"> <span id="LC694" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">verbose</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">verbose</span></span>
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<pre style="margin: 0;"> <span id="LC695" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC696" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">getattr</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="s" style="color: #d14;">"dtype"</span><span class="p">,</span> <span class="bp" style="color: #999;">None</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span> <span class="ow" style="font-weight: 600;">and</span> <span class="p">(</span><span class="n" style="color: #333;">issparse</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">is_c_contiguous</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">)):</span></span>
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<pre style="margin: 0;">+<span id="LC697" class="line" lang="python"> <span class="n" style="color: #333;">copy_on_normalize</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">True</span></span>
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<pre style="margin: 0;">+<span id="LC698" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC699" class="line" lang="python"> <span class="n" style="color: #333;">copy_on_normalize</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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<pre style="margin: 0;">+<span id="LC700" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC701" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">check_array</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="n" style="color: #333;">accept_sparse</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"csr"</span><span class="p">,</span> <span class="n" style="color: #333;">order</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"C"</span><span class="p">)</span></span>
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702
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<pre style="margin: 0;"> <span id="LC702" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_raw_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span></span>
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703
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<pre style="margin: 0;"> <span id="LC703" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="754" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -765,7 +754,7 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC754" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_angular_trees</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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755
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<pre style="margin: 0;"> <span id="LC755" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC756" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"dot"</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC768" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l2"</span><span class="p">,</span> <span class="n" style="color: #333;">copy</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;"><span class="idiff left right">Fals</span>e</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC757" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l2"</span><span class="p">,</span> <span class="n" style="color: #333;">copy</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;"><span class="idiff left right">copy_on_normaliz</span>e</span><span class="p">)</span></span>
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758
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<pre style="margin: 0;"> <span id="LC758" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC759" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">rng_state</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_random_state</span><span class="p">.</span><span class="n" style="color: #333;">randint</span><span class="p">(</span><span class="n" style="color: #333;">INT32_MIN</span><span class="p">,</span> <span class="n" style="color: #333;">INT32_MAX</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">).</span><span class="n" style="color: #333;">astype</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC760" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int64</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="829" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -840,13 +829,7 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC829" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC830" class="line" lang="python"> <span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC831" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">_partial_dist_func</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC843" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">_distance_func</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC844" class="line" lang="python"> <span class="n" style="color: #333;">ind1</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC845" class="line" lang="python"> <span class="n" style="color: #333;">data1</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC846" class="line" lang="python"> <span class="n" style="color: #333;">ind2</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC847" class="line" lang="python"> <span class="n" style="color: #333;">data2</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC848" class="line" lang="python"> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">dist_args</span><span class="p">,</span></span>
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849
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<pre style="margin: 0;">-<span id="LC849" class="line" lang="python"> <span class="p">)</span></span>
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832
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<pre style="margin: 0;">+<span id="LC832" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">_distance_func</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">dist_args</span><span class="p">)</span></span>
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850
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833
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<pre style="margin: 0;"> <span id="LC833" class="line" lang="python"></span>
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851
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834
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<pre style="margin: 0;"> <span id="LC834" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_distance_func</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">_partial_dist_func</span></span>
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852
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835
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<pre style="margin: 0;"> <span id="LC835" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="932" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="915" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -932,7 +915,10 @@ class NNDescent(object):</td>
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932
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915
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<pre style="margin: 0;"> <span id="LC915" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="s" style="color: #d14;">"_search_graph"</span><span class="p">):</span></span>
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933
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916
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<pre style="margin: 0;"> <span id="LC916" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_search_graph</span><span class="p">()</span></span>
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934
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917
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<pre style="margin: 0;"> <span id="LC917" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="s" style="color: #d14;">"_search_function"</span><span class="p">):</span></span>
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935
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<pre style="margin: 0;">-<span id="LC935" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_search_function</span><span class="p">()</span></span>
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918
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<pre style="margin: 0;">+<span id="LC918" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_is_sparse</span><span class="p">:</span></span>
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919
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<pre style="margin: 0;">+<span id="LC919" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_sparse_search_function</span><span class="p">()</span></span>
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920
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<pre style="margin: 0;">+<span id="LC920" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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921
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<pre style="margin: 0;">+<span id="LC921" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_search_function</span><span class="p">()</span></span>
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936
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922
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<pre style="margin: 0;"> <span id="LC922" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__dict__</span><span class="p">.</span><span class="n" style="color: #333;">copy</span><span class="p">()</span></span>
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937
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923
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<pre style="margin: 0;"> <span id="LC923" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="s" style="color: #d14;">"_rp_forest"</span><span class="p">):</span></span>
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<td class="old_line diff-line-num" data-linenumber="938" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
938
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924
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<pre style="margin: 0;"> <span id="LC924" class="line" lang="python"> <span class="k" style="font-weight: 600;">del</span> <span class="n" style="color: #333;">result</span><span class="p">[</span><span class="s" style="color: #d14;">"_rp_forest"</span><span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="946" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="932" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -946,7 +932,10 @@ class NNDescent(object):</td>
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946
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<pre style="margin: 0;"> <span id="LC932" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_forest</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">tuple</span><span class="p">(</span></span>
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933
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<pre style="margin: 0;"> <span id="LC933" class="line" lang="python"> <span class="p">[</span><span class="n" style="color: #333;">renumbaify_tree</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">)</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">tree</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">d</span><span class="p">[</span><span class="s" style="color: #d14;">"_search_forest"</span><span class="p">]]</span></span>
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934
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<pre style="margin: 0;"> <span id="LC934" class="line" lang="python"> <span class="p">)</span></span>
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949
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<pre style="margin: 0;">-<span id="LC949" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_search_function</span><span class="p">()</span></span>
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935
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<pre style="margin: 0;">+<span id="LC935" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_is_sparse</span><span class="p">:</span></span>
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936
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<pre style="margin: 0;">+<span id="LC936" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_sparse_search_function</span><span class="p">()</span></span>
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937
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<pre style="margin: 0;">+<span id="LC937" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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938
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<pre style="margin: 0;">+<span id="LC938" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_search_function</span><span class="p">()</span></span>
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939
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<pre style="margin: 0;"> <span id="LC939" class="line" lang="python"></span>
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940
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<pre style="margin: 0;"> <span id="LC940" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">_init_search_graph</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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941
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<pre style="margin: 0;"> <span id="LC941" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1118" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1107" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1118,8 +1107,7 @@ class NNDescent(object):</td>
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1107
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<pre style="margin: 0;"> <span id="LC1107" class="line" lang="python"> <span class="k" style="font-weight: 600;">print</span><span class="p">(</span></span>
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1108
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<pre style="margin: 0;"> <span id="LC1108" class="line" lang="python"> <span class="n" style="color: #333;">ts</span><span class="p">(),</span></span>
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1109
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<pre style="margin: 0;"> <span id="LC1109" class="line" lang="python"> <span class="s" style="color: #d14;">"Degree pruning reduced edges from {} to {}"</span><span class="p">.</span><span class="nb" style="color: #0086b3;">format</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC1121" class="line" lang="python"> <span class="n" style="color: #333;">pre_prune_nnz</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1122" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_graph</span><span class="p">.</span><span class="n" style="color: #333;">nnz</span><span class="p">,</span></span>
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1110
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<pre style="margin: 0;">+<span id="LC1110" class="line" lang="python"> <span class="n" style="color: #333;">pre_prune_nnz</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_graph</span><span class="p">.</span><span class="n" style="color: #333;">nnz</span></span>
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1111
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<pre style="margin: 0;"> <span id="LC1111" class="line" lang="python"> <span class="p">),</span></span>
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1112
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<pre style="margin: 0;"> <span id="LC1112" class="line" lang="python"> <span class="p">)</span></span>
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1113
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<pre style="margin: 0;"> <span id="LC1113" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1171,7 +1159,7 @@ class NNDescent(object):</td>
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1171
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1159
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<pre style="margin: 0;"> <span id="LC1159" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)(</span></span>
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1172
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1160
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<pre style="margin: 0;"> <span id="LC1160" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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1173
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1161
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<pre style="margin: 0;"> <span id="LC1161" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">),</span></span>
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1174
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<pre style="margin: 0;">-<span id="LC1174" class="line" lang="python"> <span class="p">)<span class="idiff left right">,</span></span></span>
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1162
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<pre style="margin: 0;">+<span id="LC1162" class="line" lang="python"> <span class="p">)</span></span>
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1175
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1163
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<pre style="margin: 0;"> <span id="LC1163" class="line" lang="python"> <span class="p">],</span></span>
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1176
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1164
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<pre style="margin: 0;"> <span id="LC1164" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span> <span class="s" style="color: #d14;">"side"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">boolean</span><span class="p">},</span></span>
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1177
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1165
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<pre style="margin: 0;"> <span id="LC1165" class="line" lang="python"> <span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1198" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1186" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1198,6 +1186,7 @@ class NNDescent(object):</td>
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1198
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1186
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<pre style="margin: 0;"> <span id="LC1186" class="line" lang="python"> <span class="n" style="color: #333;">indices</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_graph</span><span class="p">.</span><span class="n" style="color: #333;">indices</span></span>
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1199
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1187
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<pre style="margin: 0;"> <span id="LC1187" class="line" lang="python"> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_distance_func</span></span>
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1200
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1188
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<pre style="margin: 0;"> <span id="LC1188" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_neighbors</span></span>
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1189
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<pre style="margin: 0;">+<span id="LC1189" class="line" lang="python"> <span class="n" style="color: #333;">parallel_search</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span></span>
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1201
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1190
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<pre style="margin: 0;"> <span id="LC1190" class="line" lang="python"></span>
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1202
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1191
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<pre style="margin: 0;"> <span id="LC1191" class="line" lang="python"> <span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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1203
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1192
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<pre style="margin: 0;"> <span id="LC1192" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1220" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1209" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1220,21 +1209,22 @@ class NNDescent(object):</td>
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1220
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1209
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<pre style="margin: 0;"> <span id="LC1209" class="line" lang="python"> <span class="s" style="color: #d14;">"distance_bound"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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1221
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1210
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<pre style="margin: 0;"> <span id="LC1210" class="line" lang="python"> <span class="s" style="color: #d14;">"seed_scale"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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1222
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1211
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<pre style="margin: 0;"> <span id="LC1211" class="line" lang="python"> <span class="p">},</span></span>
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1212
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<pre style="margin: 0;">+<span id="LC1212" class="line" lang="python"> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span><span class="p">,</span></span>
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1223
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1213
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<pre style="margin: 0;"> <span id="LC1213" class="line" lang="python"> <span class="p">)</span></span>
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1224
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<pre style="margin: 0;">-<span id="LC1224" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">search_closure</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC1225" class="line" lang="python"> <span class="n" style="color: #333;">query_points</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1226" class="line" lang="python"> <span class="n" style="color: #333;">k</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1227" class="line" lang="python"> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1228" class="line" lang="python"> <span class="n" style="color: #333;">visited</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1229" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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1230
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<pre style="margin: 0;">-<span id="LC1230" class="line" lang="python"> <span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC1214" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">search_closure</span><span class="p">(</span><span class="n" style="color: #333;">query_points</span><span class="p">,</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span> <span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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1215
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<pre style="margin: 0;"> <span id="LC1215" class="line" lang="python"></span>
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1232
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<pre style="margin: 0;"> <span id="LC1216" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">make_heap</span><span class="p">(</span><span class="n" style="color: #333;">query_points</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">k</span><span class="p">)</span></span>
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1233
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<pre style="margin: 0;"> <span id="LC1217" class="line" lang="python"> <span class="n" style="color: #333;">distance_scale</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">epsilon</span></span>
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<pre style="margin: 0;"> <span id="LC1218" class="line" lang="python"> <span class="n" style="color: #333;">internal_rng_state</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">copy</span><span class="p">(</span><span class="n" style="color: #333;">rng_state</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC1219" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC1236" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">query_points</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">-<span id="LC1237" class="line" lang="python"> <span class="n" style="color: #333;">visited</span><span class="p">[:]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1220
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<pre style="margin: 0;">+<span id="LC1220" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">query_points</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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1221
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<pre style="margin: 0;">+<span id="LC1221" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Avoid races on visited if parallel</span></span>
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1222
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<pre style="margin: 0;">+<span id="LC1222" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">parallel_search</span><span class="p">:</span></span>
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1223
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<pre style="margin: 0;">+<span id="LC1223" class="line" lang="python"> <span class="n" style="color: #333;">visited_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros_like</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">)</span></span>
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1224
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<pre style="margin: 0;">+<span id="LC1224" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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1225
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<pre style="margin: 0;">+<span id="LC1225" class="line" lang="python"> <span class="n" style="color: #333;">visited_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">visited</span></span>
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1226
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<pre style="margin: 0;">+<span id="LC1226" class="line" lang="python"> <span class="n" style="color: #333;">visited_nodes</span><span class="p">[:]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1227
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<pre style="margin: 0;">+<span id="LC1227" class="line" lang="python"></span>
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1238
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1228
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<pre style="margin: 0;"> <span id="LC1228" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">alternative_dot</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">alternative_cosine</span><span class="p">:</span></span>
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1239
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1229
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<pre style="margin: 0;"> <span id="LC1229" class="line" lang="python"> <span class="n" style="color: #333;">norm</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">((</span><span class="n" style="color: #333;">query_points</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">**</span> <span class="mi" style="color: #099;">2</span><span class="p">).</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">())</span></span>
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1240
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1230
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<pre style="margin: 0;"> <span id="LC1230" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">norm</span> <span class="o" style="font-weight: 600;">></span> <span class="mf" style="color: #099;">0.0</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1248" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1258,24 +1248,24 @@ class NNDescent(object):</td>
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1258
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1248
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<pre style="margin: 0;"> <span id="LC1248" class="line" lang="python"></span>
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1259
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1249
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<pre style="margin: 0;"> <span id="LC1249" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_initial_points</span><span class="p">):</span></span>
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1260
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1250
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<pre style="margin: 0;"> <span id="LC1250" class="line" lang="python"> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">candidate_indices</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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1261
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<td class="new_line diff-line-num old" data-linenumber="1251" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1261" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">],</span> <span class="n" style="color: #333;">current_query</span><span class="p">)</span></span>
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1251
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<pre style="margin: 0;">+<span id="LC1251" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">float32</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">],</span> <span class="n" style="color: #333;">current_query</span><span class="p">)<span class="idiff right">)</span></span></span>
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1262
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1252
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<pre style="margin: 0;"> <span id="LC1252" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># indices are guaranteed different</span></span>
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1263
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1253
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<pre style="margin: 0;"> <span id="LC1253" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap_priorities</span><span class="p">,</span> <span class="n" style="color: #333;">heap_indices</span><span class="p">,</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1264
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1254
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<pre style="margin: 0;"> <span id="LC1254" class="line" lang="python"> <span class="n" style="color: #333;">heapq</span><span class="p">.</span><span class="n" style="color: #333;">heappush</span><span class="p">(</span><span class="n" style="color: #333;">seed_set</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">))</span></span>
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1265
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<td class="new_line diff-line-num old" data-linenumber="1255" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1265" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1255
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<pre style="margin: 0;">+<span id="LC1255" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1266
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1256
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<pre style="margin: 0;"> <span id="LC1256" class="line" lang="python"></span>
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1267
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1257
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<pre style="margin: 0;"> <span id="LC1257" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">n_random_samples</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1268
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1258
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<pre style="margin: 0;"> <span id="LC1258" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_random_samples</span><span class="p">):</span></span>
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1269
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1259
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<pre style="margin: 0;"> <span id="LC1259" class="line" lang="python"> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span></span>
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1270
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1260
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<pre style="margin: 0;"> <span id="LC1260" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">tau_rand_int</span><span class="p">(</span><span class="n" style="color: #333;">internal_rng_state</span><span class="p">))</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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1271
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1261
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<pre style="margin: 0;"> <span id="LC1261" class="line" lang="python"> <span class="p">)</span></span>
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1272
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<pre style="margin: 0;">-<span id="LC1272" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1273
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<pre style="margin: 0;">-<span id="LC1273" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">],</span> <span class="n" style="color: #333;">current_query</span><span class="p">)</span></span>
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1262
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<pre style="margin: 0;">+<span id="LC1262" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1263
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<pre style="margin: 0;">+<span id="LC1263" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">float32</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">],</span> <span class="n" style="color: #333;">current_query</span><span class="p">)<span class="idiff right">)</span></span></span>
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1274
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1264
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<pre style="margin: 0;"> <span id="LC1264" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">(</span></span>
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1275
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1265
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<pre style="margin: 0;"> <span id="LC1265" class="line" lang="python"> <span class="n" style="color: #333;">heap_priorities</span><span class="p">,</span> <span class="n" style="color: #333;">heap_indices</span><span class="p">,</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span></span>
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1276
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1266
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<pre style="margin: 0;"> <span id="LC1266" class="line" lang="python"> <span class="p">)</span></span>
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1277
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<td class="new_line diff-line-num" data-linenumber="1267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1267
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<pre style="margin: 0;"> <span id="LC1267" class="line" lang="python"> <span class="n" style="color: #333;">heapq</span><span class="p">.</span><span class="n" style="color: #333;">heappush</span><span class="p">(</span><span class="n" style="color: #333;">seed_set</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">))</span></span>
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1278
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<pre style="margin: 0;">-<span id="LC1278" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1268
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<pre style="margin: 0;">+<span id="LC1268" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1279
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1269
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<pre style="margin: 0;"> <span id="LC1269" class="line" lang="python"></span>
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1280
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1270
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<pre style="margin: 0;"> <span id="LC1270" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">############ Search ##############</span></span>
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1281
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1271
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<pre style="margin: 0;"> <span id="LC1271" class="line" lang="python"> <span class="n" style="color: #333;">distance_bound</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distance_scale</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">heap_priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1289" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1289,10 +1279,10 @@ class NNDescent(object):</td>
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1289
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1279
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<pre style="margin: 0;"> <span id="LC1279" class="line" lang="python"></span>
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1290
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1280
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<pre style="margin: 0;"> <span id="LC1280" class="line" lang="python"> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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1291
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1281
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<pre style="margin: 0;"> <span id="LC1281" class="line" lang="python"></span>
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1292
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<pre style="margin: 0;">-<span id="LC1292" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1293
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<pre style="margin: 0;">-<span id="LC1293" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1282
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<pre style="margin: 0;">+<span id="LC1282" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1283
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<pre style="margin: 0;">+<span id="LC1283" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC1284" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC1295" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">],</span> <span class="n" style="color: #333;">current_query</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC1285" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">float32</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">],</span> <span class="n" style="color: #333;">current_query</span><span class="p">)<span class="idiff right">)</span></span></span>
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1286
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<pre style="margin: 0;"> <span id="LC1286" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC1287" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">distance_bound</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC1288" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">(</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1304" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1314,11 +1304,7 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC1304" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Force compilation of the search function (hardcoded k, epsilon)</span></span>
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<pre style="margin: 0;"> <span id="LC1305" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_raw_data</span><span class="p">[:</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC1306" class="line" lang="python"> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_function</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC1317" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1318" class="line" lang="python"> <span class="mi" style="color: #099;">5</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1319" class="line" lang="python"> <span class="mf" style="color: #099;">0.0</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1320" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_visited</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1321" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">search_rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1307" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">,</span> <span class="mf" style="color: #099;">0.0</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_visited</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">search_rng_state</span></span>
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1322
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1308
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<pre style="margin: 0;"> <span id="LC1308" class="line" lang="python"> <span class="p">)</span></span>
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1323
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1309
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<pre style="margin: 0;"> <span id="LC1309" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC1310" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">_init_sparse_search_function</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1337" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1323" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1337,7 +1323,7 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC1323" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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1324
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<pre style="margin: 0;"> <span id="LC1324" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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1325
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<pre style="margin: 0;"> <span id="LC1325" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">),</span></span>
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<pre style="margin: 0;">-<span id="LC1340" class="line" lang="python"> <span class="p">)<span class="idiff left right">,</span></span></span>
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1326
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<pre style="margin: 0;">+<span id="LC1326" class="line" lang="python"> <span class="p">)</span></span>
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1327
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<pre style="margin: 0;"> <span id="LC1327" class="line" lang="python"> <span class="p">],</span></span>
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1328
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<pre style="margin: 0;"> <span id="LC1328" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span> <span class="s" style="color: #d14;">"side"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">boolean</span><span class="p">},</span></span>
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1329
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<pre style="margin: 0;"> <span id="LC1329" class="line" lang="python"> <span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1369" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1355" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1369,6 +1355,7 @@ class NNDescent(object):</td>
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1369
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1355
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<pre style="margin: 0;"> <span id="LC1355" class="line" lang="python"> <span class="n" style="color: #333;">indices</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_graph</span><span class="p">.</span><span class="n" style="color: #333;">indices</span></span>
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1370
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1356
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<pre style="margin: 0;"> <span id="LC1356" class="line" lang="python"> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_distance_func</span></span>
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1371
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1357
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<pre style="margin: 0;"> <span id="LC1357" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_neighbors</span></span>
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1358
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<pre style="margin: 0;">+<span id="LC1358" class="line" lang="python"> <span class="n" style="color: #333;">parallel_search</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span></span>
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1359
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<pre style="margin: 0;"> <span id="LC1359" class="line" lang="python"></span>
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1373
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1360
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<pre style="margin: 0;"> <span id="LC1360" class="line" lang="python"> <span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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1374
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1361
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<pre style="margin: 0;"> <span id="LC1361" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1374" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1387,15 +1374,10 @@ class NNDescent(object):</td>
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1387
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1374
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<pre style="margin: 0;"> <span id="LC1374" class="line" lang="python"> <span class="s" style="color: #d14;">"distance_scale"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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1388
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1375
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<pre style="margin: 0;"> <span id="LC1375" class="line" lang="python"> <span class="s" style="color: #d14;">"seed_scale"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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1389
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1376
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<pre style="margin: 0;"> <span id="LC1376" class="line" lang="python"> <span class="p">},</span></span>
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1377
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<pre style="margin: 0;">+<span id="LC1377" class="line" lang="python"> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span><span class="p">,</span></span>
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1390
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1378
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<pre style="margin: 0;"> <span id="LC1378" class="line" lang="python"> <span class="p">)</span></span>
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1391
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1379
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<pre style="margin: 0;"> <span id="LC1379" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">search_closure</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC1392" class="line" lang="python"> <span class="n" style="color: #333;">query_inds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1393" class="line" lang="python"> <span class="n" style="color: #333;">query_indptr</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1394" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1395" class="line" lang="python"> <span class="n" style="color: #333;">k</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1396" class="line" lang="python"> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1397" class="line" lang="python"> <span class="n" style="color: #333;">visited</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1398" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1380" class="line" lang="python"> <span class="n" style="color: #333;">query_inds</span><span class="p">,</span> <span class="n" style="color: #333;">query_indptr</span><span class="p">,</span> <span class="n" style="color: #333;">query_data</span><span class="p">,</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span> <span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span></span>
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1381
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<pre style="margin: 0;"> <span id="LC1381" class="line" lang="python"> <span class="p">):</span></span>
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1382
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<pre style="margin: 0;"> <span id="LC1382" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC1383" class="line" lang="python"> <span class="n" style="color: #333;">n_query_points</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">query_indptr</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1404,8 +1386,13 @@ class NNDescent(object):</td>
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<pre style="margin: 0;"> <span id="LC1386" class="line" lang="python"> <span class="n" style="color: #333;">distance_scale</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">epsilon</span></span>
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<pre style="margin: 0;"> <span id="LC1387" class="line" lang="python"> <span class="n" style="color: #333;">internal_rng_state</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">copy</span><span class="p">(</span><span class="n" style="color: #333;">rng_state</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC1388" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC1407" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_query_points</span><span class="p">):</span></span>
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1408
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<pre style="margin: 0;">-<span id="LC1408" class="line" lang="python"> <span class="n" style="color: #333;">visited</span><span class="p">[:]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1389
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<pre style="margin: 0;">+<span id="LC1389" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">n_query_points</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC1390" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Avoid races on visited if parallel</span></span>
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1391
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<pre style="margin: 0;">+<span id="LC1391" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">parallel_search</span><span class="p">:</span></span>
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1392
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<pre style="margin: 0;">+<span id="LC1392" class="line" lang="python"> <span class="n" style="color: #333;">visited_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros_like</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">)</span></span>
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1393
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<pre style="margin: 0;">+<span id="LC1393" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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1394
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<pre style="margin: 0;">+<span id="LC1394" class="line" lang="python"> <span class="n" style="color: #333;">visited_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">visited</span></span>
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<pre style="margin: 0;">+<span id="LC1395" class="line" lang="python"> <span class="n" style="color: #333;">visited_nodes</span><span class="p">[:]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1396
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<pre style="margin: 0;"> <span id="LC1396" class="line" lang="python"></span>
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1410
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<pre style="margin: 0;"> <span id="LC1397" class="line" lang="python"> <span class="n" style="color: #333;">current_query_inds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">query_inds</span><span class="p">[</span><span class="n" style="color: #333;">query_indptr</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">query_indptr</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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1411
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1398
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<pre style="margin: 0;"> <span id="LC1398" class="line" lang="python"> <span class="n" style="color: #333;">current_query_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">query_data</span><span class="p">[</span><span class="n" style="color: #333;">query_indptr</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">query_indptr</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1411" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1424,9 +1411,7 @@ class NNDescent(object):</td>
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1424
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1411
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<pre style="margin: 0;"> <span id="LC1411" class="line" lang="python"></span>
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1425
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1412
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<pre style="margin: 0;"> <span id="LC1412" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">############ Init ################</span></span>
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1426
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1413
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<pre style="margin: 0;"> <span id="LC1413" class="line" lang="python"> <span class="n" style="color: #333;">index_bounds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_tree_search_closure</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC1427" class="line" lang="python"> <span class="n" style="color: #333;">current_query_inds</span><span class="p">,</span></span>
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1428
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<pre style="margin: 0;">-<span id="LC1428" class="line" lang="python"> <span class="n" style="color: #333;">current_query_data</span><span class="p">,</span></span>
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1429
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<pre style="margin: 0;">-<span id="LC1429" class="line" lang="python"> <span class="n" style="color: #333;">internal_rng_state</span><span class="p">,</span></span>
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1414
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<pre style="margin: 0;">+<span id="LC1414" class="line" lang="python"> <span class="n" style="color: #333;">current_query_inds</span><span class="p">,</span> <span class="n" style="color: #333;">current_query_data</span><span class="p">,</span> <span class="n" style="color: #333;">internal_rng_state</span></span>
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1430
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1415
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<pre style="margin: 0;"> <span id="LC1415" class="line" lang="python"> <span class="p">)</span></span>
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1431
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1416
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<pre style="margin: 0;"> <span id="LC1416" class="line" lang="python"> <span class="n" style="color: #333;">candidate_indices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tree_indices</span><span class="p">[</span><span class="n" style="color: #333;">index_bounds</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">index_bounds</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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1432
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1417
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<pre style="margin: 0;"> <span id="LC1417" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1443" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1428" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1443,20 +1428,20 @@ class NNDescent(object):</td>
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1443
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1428
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<pre style="margin: 0;"> <span id="LC1428" class="line" lang="python"> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1444
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1429
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<pre style="margin: 0;"> <span id="LC1429" class="line" lang="python"> <span class="p">]</span></span>
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1430
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<pre style="margin: 0;"> <span id="LC1430" class="line" lang="python"></span>
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1446
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<pre style="margin: 0;">-<span id="LC1446" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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1431
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<pre style="margin: 0;">+<span id="LC1431" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">float32</span></span><span class="p"><span class="idiff right">(</span></span><span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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1447
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1432
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<pre style="margin: 0;"> <span id="LC1432" class="line" lang="python"> <span class="n" style="color: #333;">from_inds</span><span class="p">,</span> <span class="n" style="color: #333;">from_data</span><span class="p">,</span> <span class="n" style="color: #333;">current_query_inds</span><span class="p">,</span> <span class="n" style="color: #333;">current_query_data</span></span>
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1448
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<pre style="margin: 0;">-<span id="LC1448" class="line" lang="python"> <span class="p">)</span></span>
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1433
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<pre style="margin: 0;">+<span id="LC1433" class="line" lang="python"> <span class="p">)<span class="idiff left right">)</span></span></span>
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1449
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<td class="new_line diff-line-num" data-linenumber="1434" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1434
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<pre style="margin: 0;"> <span id="LC1434" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># indices are guaranteed different</span></span>
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1450
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1435
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<pre style="margin: 0;"> <span id="LC1435" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap_priorities</span><span class="p">,</span> <span class="n" style="color: #333;">heap_indices</span><span class="p">,</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1451
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<td class="new_line diff-line-num" data-linenumber="1436" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1436
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<pre style="margin: 0;"> <span id="LC1436" class="line" lang="python"> <span class="n" style="color: #333;">heapq</span><span class="p">.</span><span class="n" style="color: #333;">heappush</span><span class="p">(</span><span class="n" style="color: #333;">seed_set</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">))</span></span>
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1452
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<td class="new_line diff-line-num old" data-linenumber="1437" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1452" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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<td class="new_line diff-line-num new" data-linenumber="1437" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1437
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<pre style="margin: 0;">+<span id="LC1437" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1453
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1438
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<pre style="margin: 0;"> <span id="LC1438" class="line" lang="python"></span>
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1454
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<td class="new_line diff-line-num" data-linenumber="1439" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1439
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<pre style="margin: 0;"> <span id="LC1439" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">n_random_samples</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1455
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<td class="new_line diff-line-num" data-linenumber="1440" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1440
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<pre style="margin: 0;"> <span id="LC1440" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_random_samples</span><span class="p">):</span></span>
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1456
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<td class="new_line diff-line-num" data-linenumber="1441" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1441
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<pre style="margin: 0;"> <span id="LC1441" class="line" lang="python"> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span></span>
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1457
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<td class="new_line diff-line-num" data-linenumber="1442" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1442
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<pre style="margin: 0;"> <span id="LC1442" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">tau_rand_int</span><span class="p">(</span><span class="n" style="color: #333;">internal_rng_state</span><span class="p">))</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_index_points</span></span>
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1458
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1443
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<pre style="margin: 0;"> <span id="LC1443" class="line" lang="python"> <span class="p">)</span></span>
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1459
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<td class="new_line diff-line-num old" data-linenumber="1444" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1459" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<td class="old_line diff-line-num new" data-linenumber="1460" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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1444
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<pre style="margin: 0;">+<span id="LC1444" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1460
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<td class="new_line diff-line-num" data-linenumber="1445" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1445
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<pre style="margin: 0;"> <span id="LC1445" class="line" lang="python"> <span class="n" style="color: #333;">from_inds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data_inds</span><span class="p">[</span></span>
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1461
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<td class="new_line diff-line-num" data-linenumber="1446" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1446
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<pre style="margin: 0;"> <span id="LC1446" class="line" lang="python"> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1462
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1447
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<pre style="margin: 0;"> <span id="LC1447" class="line" lang="python"> <span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1464" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1449" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1464,18 +1449,18 @@ class NNDescent(object):</td>
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1464
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1449
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<pre style="margin: 0;"> <span id="LC1449" class="line" lang="python"> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1465
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1450
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<pre style="margin: 0;"> <span id="LC1450" class="line" lang="python"> <span class="p">]</span></span>
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1466
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1451
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<pre style="margin: 0;"> <span id="LC1451" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC1467" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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1452
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<pre style="margin: 0;">+<span id="LC1452" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">float32</span></span><span class="p"><span class="idiff right">(</span></span><span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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1468
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1453
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<pre style="margin: 0;"> <span id="LC1453" class="line" lang="python"> <span class="n" style="color: #333;">from_inds</span><span class="p">,</span></span>
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1469
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1454
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<pre style="margin: 0;"> <span id="LC1454" class="line" lang="python"> <span class="n" style="color: #333;">from_data</span><span class="p">,</span></span>
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1470
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1455
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<pre style="margin: 0;"> <span id="LC1455" class="line" lang="python"> <span class="n" style="color: #333;">current_query_inds</span><span class="p">,</span></span>
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1471
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1456
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<pre style="margin: 0;"> <span id="LC1456" class="line" lang="python"> <span class="n" style="color: #333;">current_query_data</span><span class="p">,</span></span>
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1472
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<pre style="margin: 0;">-<span id="LC1472" class="line" lang="python"> <span class="p">)</span></span>
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1457
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<pre style="margin: 0;">+<span id="LC1457" class="line" lang="python"> <span class="p">)<span class="idiff left right">)</span></span></span>
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1473
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1458
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<pre style="margin: 0;"> <span id="LC1458" class="line" lang="python"></span>
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1474
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1459
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<pre style="margin: 0;"> <span id="LC1459" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">(</span></span>
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1475
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1460
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<pre style="margin: 0;"> <span id="LC1460" class="line" lang="python"> <span class="n" style="color: #333;">heap_priorities</span><span class="p">,</span> <span class="n" style="color: #333;">heap_indices</span><span class="p">,</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span></span>
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1476
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1461
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<pre style="margin: 0;"> <span id="LC1461" class="line" lang="python"> <span class="p">)</span></span>
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1477
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1462
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<pre style="margin: 0;"> <span id="LC1462" class="line" lang="python"> <span class="n" style="color: #333;">heapq</span><span class="p">.</span><span class="n" style="color: #333;">heappush</span><span class="p">(</span><span class="n" style="color: #333;">seed_set</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">))</span></span>
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1478
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<pre style="margin: 0;">-<span id="LC1478" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1463
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<pre style="margin: 0;">+<span id="LC1463" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1479
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1464
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<pre style="margin: 0;"> <span id="LC1464" class="line" lang="python"></span>
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1480
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1465
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<pre style="margin: 0;"> <span id="LC1465" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">############ Search ##############</span></span>
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1481
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1466
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<pre style="margin: 0;"> <span id="LC1466" class="line" lang="python"> <span class="n" style="color: #333;">distance_bound</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distance_scale</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">heap_priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1489" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1474" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1489,8 +1474,8 @@ class NNDescent(object):</td>
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1489
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1474
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<pre style="margin: 0;"> <span id="LC1474" class="line" lang="python"></span>
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1490
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1475
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<pre style="margin: 0;"> <span id="LC1475" class="line" lang="python"> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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1491
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1476
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<pre style="margin: 0;"> <span id="LC1476" class="line" lang="python"></span>
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1492
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<pre style="margin: 0;">-<span id="LC1492" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC1493" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1477
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<pre style="margin: 0;">+<span id="LC1477" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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1478
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<pre style="margin: 0;">+<span id="LC1478" class="line" lang="python"> <span class="n" style="color: #333;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">visited<span class="idiff left right">_nodes</span></span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">)</span></span>
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1479
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<pre style="margin: 0;"> <span id="LC1479" class="line" lang="python"></span>
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1495
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1480
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<pre style="margin: 0;"> <span id="LC1480" class="line" lang="python"> <span class="n" style="color: #333;">from_inds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data_inds</span><span class="p">[</span></span>
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1496
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1481
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<pre style="margin: 0;"> <span id="LC1481" class="line" lang="python"> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1499" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1484" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1499,12 +1484,12 @@ class NNDescent(object):</td>
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1499
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1484
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<pre style="margin: 0;"> <span id="LC1484" class="line" lang="python"> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1500
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1485
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<pre style="margin: 0;"> <span id="LC1485" class="line" lang="python"> <span class="p">]</span></span>
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1501
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1486
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<pre style="margin: 0;"> <span id="LC1486" class="line" lang="python"></span>
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1502
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<pre style="margin: 0;">-<span id="LC1502" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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1487
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<pre style="margin: 0;">+<span id="LC1487" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">float32</span></span><span class="p"><span class="idiff right">(</span></span><span class="n" style="color: #333;">dist</span><span class="p">(</span></span>
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1503
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1488
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<pre style="margin: 0;"> <span id="LC1488" class="line" lang="python"> <span class="n" style="color: #333;">from_inds</span><span class="p">,</span></span>
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1504
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1489
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<pre style="margin: 0;"> <span id="LC1489" class="line" lang="python"> <span class="n" style="color: #333;">from_data</span><span class="p">,</span></span>
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1505
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1490
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<pre style="margin: 0;"> <span id="LC1490" class="line" lang="python"> <span class="n" style="color: #333;">current_query_inds</span><span class="p">,</span></span>
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1506
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1491
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<pre style="margin: 0;"> <span id="LC1491" class="line" lang="python"> <span class="n" style="color: #333;">current_query_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1507" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC1492" class="line" lang="python"> <span class="p">)<span class="idiff left right">)</span></span></span>
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1493
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<pre style="margin: 0;"> <span id="LC1493" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC1494" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">distance_bound</span><span class="p">:</span></span>
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1495
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<pre style="margin: 0;"> <span id="LC1495" class="line" lang="python"> <span class="n" style="color: #333;">simple_heap_push</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1616,11 +1601,7 @@ class NNDescent(object):</td>
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1601
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<pre style="margin: 0;"> <span id="LC1601" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC1602" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">asarray</span><span class="p">(</span><span class="n" style="color: #333;">query_data</span><span class="p">).</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="n" style="color: #333;">order</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"C"</span><span class="p">)</span></span>
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1603
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<pre style="margin: 0;"> <span id="LC1603" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_search_function</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC1619" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1620" class="line" lang="python"> <span class="n" style="color: #333;">k</span><span class="p">,</span></span>
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1621
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<pre style="margin: 0;">-<span id="LC1621" class="line" lang="python"> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span></span>
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1622
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<pre style="margin: 0;">-<span id="LC1622" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_visited</span><span class="p">,</span></span>
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1623
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<pre style="margin: 0;">-<span id="LC1623" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">search_rng_state</span><span class="p">,</span></span>
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1604
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<pre style="margin: 0;">+<span id="LC1604" class="line" lang="python"> <span class="n" style="color: #333;">query_data</span><span class="p">,</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_visited</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">search_rng_state</span></span>
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1624
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1605
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<pre style="margin: 0;"> <span id="LC1605" class="line" lang="python"> <span class="p">)</span></span>
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1625
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1606
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<pre style="margin: 0;"> <span id="LC1606" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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1626
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1607
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<pre style="margin: 0;"> <span id="LC1607" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Sparse case</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1653" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1653,6 +1634,9 @@ class NNDescent(object):</td>
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1634
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<pre style="margin: 0;"> <span id="LC1634" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">dists</span></span>
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1635
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<pre style="margin: 0;"> <span id="LC1635" class="line" lang="python"></span>
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1655
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1636
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<pre style="margin: 0;"> <span id="LC1636" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">update</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">X</span><span class="p">):</span></span>
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1637
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<pre style="margin: 0;">+<span id="LC1637" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="s" style="color: #d14;">"_search_graph"</span><span class="p">):</span></span>
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1638
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<pre style="margin: 0;">+<span id="LC1638" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">_init_search_graph</span><span class="p">()</span></span>
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1639
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<pre style="margin: 0;">+<span id="LC1639" class="line" lang="python"></span>
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1656
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1640
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<pre style="margin: 0;"> <span id="LC1640" class="line" lang="python"> <span class="n" style="color: #333;">current_random_state</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">check_random_state</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">random_state</span><span class="p">)</span></span>
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1657
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1641
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<pre style="margin: 0;"> <span id="LC1641" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_random_state</span><span class="p">.</span><span class="n" style="color: #333;">randint</span><span class="p">(</span><span class="n" style="color: #333;">INT32_MIN</span><span class="p">,</span> <span class="n" style="color: #333;">INT32_MAX</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">).</span><span class="n" style="color: #333;">astype</span><span class="p">(</span></span>
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1658
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1642
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<pre style="margin: 0;"> <span id="LC1642" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int64</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1738" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1754,6 +1738,8 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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1754
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1738
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<pre style="margin: 0;"> <span id="LC1738" class="line" lang="python"><span class="s" style="color: #d14;"> * sokalmichener</span></span>
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1755
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1739
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<pre style="margin: 0;"> <span id="LC1739" class="line" lang="python"><span class="s" style="color: #d14;"> * sokalsneath</span></span>
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1756
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1740
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<pre style="margin: 0;"> <span id="LC1740" class="line" lang="python"><span class="s" style="color: #d14;"> * yule</span></span>
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1741
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<pre style="margin: 0;">+<span id="LC1741" class="line" lang="python"><span class="s" style="color: #d14;"> * hellinger</span></span>
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1742
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<pre style="margin: 0;">+<span id="LC1742" class="line" lang="python"><span class="s" style="color: #d14;"> * wasserstein-1d</span></span>
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1757
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1743
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<pre style="margin: 0;"> <span id="LC1743" class="line" lang="python"><span class="s" style="color: #d14;"> Metrics that take arguments (such as minkowski, mahalanobis etc.)</span></span>
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1758
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1744
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<pre style="margin: 0;"> <span id="LC1744" class="line" lang="python"><span class="s" style="color: #d14;"> can have arguments passed via the metric_kwds dictionary. At this</span></span>
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1759
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1745
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<pre style="margin: 0;"> <span id="LC1745" class="line" lang="python"><span class="s" style="color: #d14;"> time care must be taken and dictionary elements must be ordered</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1787" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1773" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1787,10 +1773,12 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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1787
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1773
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<pre style="margin: 0;"> <span id="LC1773" class="line" lang="python"><span class="s" style="color: #d14;"> that no edges get removed, and larger values result in significantly more</span></span>
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1788
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1774
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<pre style="margin: 0;"> <span id="LC1774" class="line" lang="python"><span class="s" style="color: #d14;"> aggressive edge removal. A value of 1.0 will prune all edges that it can.</span></span>
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1789
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1775
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<pre style="margin: 0;"> <span id="LC1775" class="line" lang="python"></span>
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1790
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<pre style="margin: 0;">-<span id="LC1790" class="line" lang="python"><span class="s" style="color: #d14;"> n_search_trees: <span class="idiff left right">floa</span>t (optional, default=1)</span></span>
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1776
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<pre style="margin: 0;">+<span id="LC1776" class="line" lang="python"><span class="s" style="color: #d14;"> n_search_trees: <span class="idiff left right">in</span>t (optional, default=1)</span></span>
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1791
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1777
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<pre style="margin: 0;"> <span id="LC1777" class="line" lang="python"><span class="s" style="color: #d14;"> The number of random projection trees to use in initializing searching or</span></span>
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1792
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1778
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<pre style="margin: 0;"> <span id="LC1778" class="line" lang="python"><span class="s" style="color: #d14;"> querying.</span></span>
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1793
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1779
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<pre style="margin: 0;"> <span id="LC1779" class="line" lang="python"></span>
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1780
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<pre style="margin: 0;">+<span id="LC1780" class="line" lang="python"><span class="s" style="color: #d14;"> .. deprecated:: 0.5.5</span></span>
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1781
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<pre style="margin: 0;">+<span id="LC1781" class="line" lang="python"></span>
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1794
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1782
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<pre style="margin: 0;"> <span id="LC1782" class="line" lang="python"><span class="s" style="color: #d14;"> search_epsilon: float (optional, default=0.1)</span></span>
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1795
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1783
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<pre style="margin: 0;"> <span id="LC1783" class="line" lang="python"><span class="s" style="color: #d14;"> When searching for nearest neighbors of a query point this values</span></span>
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1796
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1784
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<pre style="margin: 0;"> <span id="LC1784" class="line" lang="python"><span class="s" style="color: #d14;"> controls the trade-off between accuracy and search cost. Larger values</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1841" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1829" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1841,6 +1829,11 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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1841
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1829
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<pre style="margin: 0;"> <span id="LC1829" class="line" lang="python"><span class="s" style="color: #d14;"> and less accurate searching. Don't tweak this value unless you know</span></span>
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1842
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1830
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<pre style="margin: 0;"> <span id="LC1830" class="line" lang="python"><span class="s" style="color: #d14;"> what you're doing.</span></span>
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1843
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<pre style="margin: 0;"> <span id="LC1831" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC1832" class="line" lang="python"><span class="s" style="color: #d14;"> parallel_batch_queries: bool (optional, default=False)</span></span>
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<pre style="margin: 0;">+<span id="LC1833" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to use parallelism of batched queries. This can be useful for large</span></span>
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1834
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<pre style="margin: 0;">+<span id="LC1834" class="line" lang="python"><span class="s" style="color: #d14;"> batches of queries on multicore machines, but results in performance degradation</span></span>
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<pre style="margin: 0;">+<span id="LC1835" class="line" lang="python"><span class="s" style="color: #d14;"> for single queries, so is poor for streaming use.</span></span>
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1836
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<pre style="margin: 0;">+<span id="LC1836" class="line" lang="python"></span>
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1837
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<pre style="margin: 0;"> <span id="LC1837" class="line" lang="python"><span class="s" style="color: #d14;"> verbose: bool (optional, default=False)</span></span>
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1838
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<pre style="margin: 0;"> <span id="LC1838" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to print status graph_data during the computation.</span></span>
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1839
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<pre style="margin: 0;"> <span id="LC1839" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1872" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1865" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1872,6 +1865,7 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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<pre style="margin: 0;"> <span id="LC1865" class="line" lang="python"> <span class="n" style="color: #333;">max_candidates</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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1873
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1866
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<pre style="margin: 0;"> <span id="LC1866" class="line" lang="python"> <span class="n" style="color: #333;">n_iters</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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1874
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1867
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<pre style="margin: 0;"> <span id="LC1867" class="line" lang="python"> <span class="n" style="color: #333;">early_termination_value</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.001</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1868" class="line" lang="python"> <span class="n" style="color: #333;">parallel_batch_queries</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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1869
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<pre style="margin: 0;"> <span id="LC1869" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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1876
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1870
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<pre style="margin: 0;"> <span id="LC1870" class="line" lang="python"> <span class="p">):</span></span>
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1877
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1871
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<pre style="margin: 0;"> <span id="LC1871" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1885" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1891,6 +1885,7 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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1891
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1885
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<pre style="margin: 0;"> <span id="LC1885" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_iters</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_iters</span></span>
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1892
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1886
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<pre style="margin: 0;"> <span id="LC1886" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">early_termination_value</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">early_termination_value</span></span>
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1893
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1887
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<pre style="margin: 0;"> <span id="LC1887" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_jobs</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_jobs</span></span>
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1888
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<pre style="margin: 0;">+<span id="LC1888" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">parallel_batch_queries</span></span>
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1894
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1889
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<pre style="margin: 0;"> <span id="LC1889" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">verbose</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">verbose</span></span>
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1895
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1890
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<pre style="margin: 0;"> <span id="LC1890" class="line" lang="python"></span>
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1891
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<pre style="margin: 0;"> <span id="LC1891" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">fit</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">X</span><span class="p">,</span> <span class="n" style="color: #333;">compress_index</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1939,6 +1934,7 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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1939
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1934
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<pre style="margin: 0;"> <span id="LC1934" class="line" lang="python"> <span class="n" style="color: #333;">delta</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">early_termination_value</span><span class="p">,</span></span>
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1940
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1935
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<pre style="margin: 0;"> <span id="LC1935" class="line" lang="python"> <span class="n" style="color: #333;">n_jobs</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_jobs</span><span class="p">,</span></span>
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1941
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1936
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<pre style="margin: 0;"> <span id="LC1936" class="line" lang="python"> <span class="n" style="color: #333;">compressed</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">compress_index</span><span class="p">,</span></span>
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1937
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<pre style="margin: 0;">+<span id="LC1937" class="line" lang="python"> <span class="n" style="color: #333;">parallel_batch_queries</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">parallel_batch_queries</span><span class="p">,</span></span>
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1942
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1938
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<pre style="margin: 0;"> <span id="LC1938" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">verbose</span><span class="p">,</span></span>
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1943
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1939
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<pre style="margin: 0;"> <span id="LC1939" class="line" lang="python"> <span class="p">)</span></span>
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1944
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1940
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<pre style="margin: 0;"> <span id="LC1940" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1975,8 +1971,7 @@ class PyNNDescentTransformer(BaseEstimator, TransformerMixin):</td>
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1975
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1971
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<pre style="margin: 0;"> <span id="LC1971" class="line" lang="python"> <span class="k" style="font-weight: 600;">print</span><span class="p">(</span><span class="n" style="color: #333;">ts</span><span class="p">(),</span> <span class="s" style="color: #d14;">"Constructing neighbor matrix"</span><span class="p">)</span></span>
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1976
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1972
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<pre style="margin: 0;"> <span id="LC1972" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coo_matrix</span><span class="p">((</span><span class="n" style="color: #333;">n_samples_transform</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">n_samples_fit</span><span class="p">),</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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1977
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1973
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<pre style="margin: 0;"> <span id="LC1973" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">row</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">repeat</span><span class="p">(</span></span>
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1978
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<pre style="margin: 0;">-<span id="LC1978" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arange</span><span class="p">(</span><span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">),</span></span>
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1979
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<pre style="margin: 0;">-<span id="LC1979" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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1974
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<pre style="margin: 0;">+<span id="LC1974" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arange</span><span class="p">(</span><span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">),</span> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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1980
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1975
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<pre style="margin: 0;"> <span id="LC1975" class="line" lang="python"> <span class="p">)</span></span>
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1981
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1976
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<pre style="margin: 0;"> <span id="LC1976" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">col</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">ravel</span><span class="p">()</span></span>
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1982
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1977
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<pre style="margin: 0;"> <span id="LC1977" class="line" lang="python"> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distances</span><span class="p">.</span><span class="n" style="color: #333;">ravel</span><span class="p">()</span></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#885448843ac2f66159a855652c2b9de14f19503c"><strong>pynndescent/rp_trees.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -6,11 +6,9 @@ from warnings import warn</td>
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">locale</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numba</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numba.core</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">types</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numba.experimental</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">structref</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">scipy.sparse</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.sparse</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">sparse_mul</span><span class="p">,</span> <span class="n" style="color: #333;">sparse_diff</span><span class="p">,</span> <span class="n" style="color: #333;">sparse_sum</span><span class="p">,</span> <span class="n" style="color: #333;">arr_intersect</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.sparse</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">sparse_mul</span><span class="p">,</span> <span class="n" style="color: #333;">sparse_diff</span><span class="p">,</span> <span class="n" style="color: #333;">sparse_sum</span><span class="p">,</span> <span class="n" style="color: #333;">arr_intersect</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">sparse_dot_product</span></span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">tau_rand_int</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">joblib</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -548,13 +546,11 @@ def make_euclidean_tree(</td>
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<pre style="margin: 0;"> <span id="LC546" class="line" lang="python"> <span class="n" style="color: #333;">offsets</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">offset</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC547" class="line" lang="python"> <span class="n" style="color: #333;">children</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">((</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span><span class="n" style="color: #333;">left_node_num</span><span class="p">),</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span><span class="n" style="color: #333;">right_node_num</span><span class="p">)))</span></span>
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<pre style="margin: 0;"> <span id="LC548" class="line" lang="python"> <span class="n" style="color: #333;">point_indices</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC551" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># print("Made a node in tree with", len(point_indices), "nodes")</span></span>
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<pre style="margin: 0;"> <span id="LC549" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC550" class="line" lang="python"> <span class="n" style="color: #333;">hyperplanes</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="o" style="font-weight: 600;">-</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC551" class="line" lang="python"> <span class="n" style="color: #333;">offsets</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">inf</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC552" class="line" lang="python"> <span class="n" style="color: #333;">children</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">((</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">),</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)))</span></span>
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<pre style="margin: 0;"> <span id="LC553" class="line" lang="python"> <span class="n" style="color: #333;">point_indices</span><span class="p">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">indices</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC557" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># print("Made a leaf in tree with", len(point_indices), "nodes")</span></span>
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<pre style="margin: 0;"> <span id="LC554" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC555" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span></span>
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<pre style="margin: 0;"> <span id="LC556" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="791" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -795,9 +791,7 @@ def make_dense_tree(data, rng_state, leaf_size=30, angular=False):</td>
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791
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<pre style="margin: 0;"> <span id="LC791" class="line" lang="python"> <span class="n" style="color: #333;">leaf_size</span><span class="p">,</span></span>
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792
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<pre style="margin: 0;"> <span id="LC792" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC793" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC798" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># print("Completed a tree")</span></span>
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<pre style="margin: 0;"> <span id="LC794" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">FlatTree</span><span class="p">(</span><span class="n" style="color: #333;">hyperplanes</span><span class="p">,</span> <span class="n" style="color: #333;">offsets</span><span class="p">,</span> <span class="n" style="color: #333;">children</span><span class="p">,</span> <span class="n" style="color: #333;">point_indices</span><span class="p">,</span> <span class="n" style="color: #333;">leaf_size</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC800" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># print("Tree type is:", numba.typeof(result))</span></span>
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<pre style="margin: 0;"> <span id="LC795" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC796" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC797" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="850" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -856,6 +850,7 @@ def make_sparse_tree(inds, indptr, spdata, rng_state, leaf_size=30, angular=Fals</td>
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850
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<pre style="margin: 0;"> <span id="LC850" class="line" lang="python"> <span class="s" style="color: #d14;">"dim"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC851" class="line" lang="python"> <span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC852" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC853" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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854
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<pre style="margin: 0;"> <span id="LC854" class="line" lang="python"><span class="p">)</span></span>
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855
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<pre style="margin: 0;"> <span id="LC855" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">select_side</span><span class="p">(</span><span class="n" style="color: #333;">hyperplane</span><span class="p">,</span> <span class="n" style="color: #333;">offset</span><span class="p">,</span> <span class="n" style="color: #333;">point</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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856
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<pre style="margin: 0;"> <span id="LC856" class="line" lang="python"> <span class="n" style="color: #333;">margin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">offset</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="883" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -888,6 +883,7 @@ def select_side(hyperplane, offset, point, rng_state):</td>
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<pre style="margin: 0;"> <span id="LC883" class="line" lang="python"> <span class="p">),</span></span>
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884
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<pre style="margin: 0;"> <span id="LC884" class="line" lang="python"> <span class="p">],</span></span>
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885
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<pre style="margin: 0;"> <span id="LC885" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span> <span class="s" style="color: #d14;">"side"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">boolean</span><span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC886" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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887
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<pre style="margin: 0;"> <span id="LC887" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC888" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">search_flat_tree</span><span class="p">(</span><span class="n" style="color: #333;">point</span><span class="p">,</span> <span class="n" style="color: #333;">hyperplanes</span><span class="p">,</span> <span class="n" style="color: #333;">offsets</span><span class="p">,</span> <span class="n" style="color: #333;">children</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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889
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<pre style="margin: 0;"> <span id="LC889" class="line" lang="python"> <span class="n" style="color: #333;">node</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="901" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="897" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -901,7 +897,7 @@ def search_flat_tree(point, hyperplanes, offsets, children, indices, rng_state):</td>
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901
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<pre style="margin: 0;"> <span id="LC897" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">children</span><span class="p">[</span><span class="n" style="color: #333;">node</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="p">:</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">children</span><span class="p">[</span><span class="n" style="color: #333;">node</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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898
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<pre style="margin: 0;"> <span id="LC898" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC899" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC904" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC900" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC901" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_select_side</span><span class="p">(</span><span class="n" style="color: #333;">hyperplane</span><span class="p">,</span> <span class="n" style="color: #333;">offset</span><span class="p">,</span> <span class="n" style="color: #333;">point_inds</span><span class="p">,</span> <span class="n" style="color: #333;">point_data</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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902
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<pre style="margin: 0;"> <span id="LC902" class="line" lang="python"> <span class="n" style="color: #333;">margin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">offset</span></span>
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<pre style="margin: 0;"> <span id="LC903" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="912" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -912,10 +908,7 @@ def sparse_select_side(hyperplane, offset, point_inds, point_data, rng_state):</td>
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912
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908
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<pre style="margin: 0;"> <span id="LC908" class="line" lang="python"> <span class="n" style="color: #333;">hyperplane_inds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">hyperplane</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="p">:</span><span class="n" style="color: #333;">hyperplane_size</span><span class="p">].</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">)</span></span>
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909
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<pre style="margin: 0;"> <span id="LC909" class="line" lang="python"> <span class="n" style="color: #333;">hyperplane_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">hyperplane</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="p">:</span><span class="n" style="color: #333;">hyperplane_size</span><span class="p">]</span></span>
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910
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<pre style="margin: 0;"> <span id="LC910" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC915" class="line" lang="python"> <span class="n" style="color: #333;">_</span><span class="p">,</span> <span class="n" style="color: #333;">aux_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_mul</span><span class="p">(</span><span class="n" style="color: #333;">hyperplane_inds</span><span class="p">,</span> <span class="n" style="color: #333;">hyperplane_data</span><span class="p">,</span> <span class="n" style="color: #333;">point_inds</span><span class="p">,</span> <span class="n" style="color: #333;">point_data</span><span class="p">)</span></span>
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916
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<pre style="margin: 0;">-<span id="LC916" class="line" lang="python"></span>
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917
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<td class="new_line diff-line-num old" data-linenumber="911" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC917" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">val</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">aux_data</span><span class="p">:</span></span>
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918
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<td class="new_line diff-line-num old" data-linenumber="911" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC918" class="line" lang="python"> <span class="n" style="color: #333;">margin</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">val</span></span>
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911
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<pre style="margin: 0;">+<span id="LC911" class="line" lang="python"> <span class="n" style="color: #333;">margin</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">sparse_dot_product</span><span class="p">(</span><span class="n" style="color: #333;">hyperplane_inds</span><span class="p">,</span> <span class="n" style="color: #333;">hyperplane_data</span><span class="p">,</span> <span class="n" style="color: #333;">point_inds</span><span class="p">,</span> <span class="n" style="color: #333;">point_data</span><span class="p">)</span></span>
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919
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912
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<pre style="margin: 0;"> <span id="LC912" class="line" lang="python"></span>
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920
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913
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<pre style="margin: 0;"> <span id="LC913" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">margin</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">EPS</span><span class="p">:</span></span>
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921
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914
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<pre style="margin: 0;"> <span id="LC914" class="line" lang="python"> <span class="n" style="color: #333;">side</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tau_rand_int</span><span class="p">(</span><span class="n" style="color: #333;">rng_state</span><span class="p">)</span> <span class="o" style="font-weight: 600;">%</span> <span class="mi" style="color: #099;">2</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="929" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="922" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -929,7 +922,7 @@ def sparse_select_side(hyperplane, offset, point_inds, point_data, rng_state):</td>
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929
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922
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<pre style="margin: 0;"> <span id="LC922" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span></span>
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930
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923
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<pre style="margin: 0;"> <span id="LC923" class="line" lang="python"></span>
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931
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924
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<pre style="margin: 0;"> <span id="LC924" class="line" lang="python"></span>
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932
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<pre style="margin: 0;">-<span id="LC932" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">})</span></span>
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925
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<pre style="margin: 0;">+<span id="LC925" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">}<span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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933
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926
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<pre style="margin: 0;"> <span id="LC926" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">search_sparse_flat_tree</span><span class="p">(</span></span>
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934
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927
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<pre style="margin: 0;"> <span id="LC927" class="line" lang="python"> <span class="n" style="color: #333;">point_inds</span><span class="p">,</span> <span class="n" style="color: #333;">point_data</span><span class="p">,</span> <span class="n" style="color: #333;">hyperplanes</span><span class="p">,</span> <span class="n" style="color: #333;">offsets</span><span class="p">,</span> <span class="n" style="color: #333;">children</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span></span>
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935
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928
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<pre style="margin: 0;"> <span id="LC928" class="line" lang="python"><span class="p">):</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="975" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="968" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -975,7 +968,7 @@ def make_forest(</td>
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975
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968
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<pre style="margin: 0;"> <span id="LC968" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># print(ts(), "Started forest construction")</span></span>
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976
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969
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<pre style="margin: 0;"> <span id="LC969" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[]</span></span>
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977
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970
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<pre style="margin: 0;"> <span id="LC970" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">leaf_size</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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978
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<pre style="margin: 0;">-<span id="LC978" class="line" lang="python"> <span class="n" style="color: #333;">leaf_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">max</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">n_neighbors</span><span class="p">)</span></span>
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971
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<pre style="margin: 0;">+<span id="LC971" class="line" lang="python"> <span class="n" style="color: #333;">leaf_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">max</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;"><span class="idiff left">np</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">int32</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">n_neighbors</span><span class="p">)<span class="idiff right">)</span></span></span>
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979
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972
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<pre style="margin: 0;"> <span id="LC972" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">n_jobs</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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980
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973
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<pre style="margin: 0;"> <span id="LC973" class="line" lang="python"> <span class="n" style="color: #333;">n_jobs</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span></span>
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981
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974
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<pre style="margin: 0;"> <span id="LC974" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1010,7 +1003,7 @@ def make_forest(</td>
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1003
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<pre style="margin: 0;"> <span id="LC1003" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">tuple</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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1011
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1004
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<pre style="margin: 0;"> <span id="LC1004" class="line" lang="python"></span>
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1005
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<pre style="margin: 0;"> <span id="LC1005" class="line" lang="python"></span>
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1013
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<pre style="margin: 0;">-<span id="LC1013" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">nogil</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1006
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<pre style="margin: 0;">+<span id="LC1006" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">nogil</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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1014
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1007
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<pre style="margin: 0;"> <span id="LC1007" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">get_leaves_from_tree</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">):</span></span>
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1008
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<pre style="margin: 0;"> <span id="LC1008" class="line" lang="python"> <span class="n" style="color: #333;">n_leaves</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1009
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<pre style="margin: 0;"> <span id="LC1009" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">.</span><span class="n" style="color: #333;">children</span><span class="p">)):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1124,7 +1117,7 @@ def recursive_convert_sparse(</td>
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1124
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1117
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<pre style="margin: 0;"> <span id="LC1117" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">node_num</span><span class="p">,</span> <span class="n" style="color: #333;">leaf_start</span></span>
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1125
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1118
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<pre style="margin: 0;"> <span id="LC1118" class="line" lang="python"></span>
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1119
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<pre style="margin: 0;"> <span id="LC1119" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC1127" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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1120
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<pre style="margin: 0;">+<span id="LC1120" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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1128
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1121
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<pre style="margin: 0;"> <span id="LC1121" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">num_nodes_and_leaves</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">):</span></span>
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1129
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1122
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<pre style="margin: 0;"> <span id="LC1122" class="line" lang="python"> <span class="n" style="color: #333;">n_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1123
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<pre style="margin: 0;"> <span id="LC1123" class="line" lang="python"> <span class="n" style="color: #333;">n_leaves</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1138,7 +1131,7 @@ def num_nodes_and_leaves(tree):</td>
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1138
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1131
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<pre style="margin: 0;"> <span id="LC1131" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">n_nodes</span><span class="p">,</span> <span class="n" style="color: #333;">n_leaves</span></span>
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1139
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1132
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<pre style="margin: 0;"> <span id="LC1132" class="line" lang="python"></span>
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1140
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1133
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<pre style="margin: 0;"> <span id="LC1133" class="line" lang="python"></span>
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1141
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<pre style="margin: 0;">-<span id="LC1141" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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1134
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<pre style="margin: 0;">+<span id="LC1134" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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1142
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1135
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<pre style="margin: 0;"> <span id="LC1135" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">dense_hyperplane_dim</span><span class="p">(</span><span class="n" style="color: #333;">hyperplanes</span><span class="p">):</span></span>
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1143
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1136
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<pre style="margin: 0;"> <span id="LC1136" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">hyperplanes</span><span class="p">)):</span></span>
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1144
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1137
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<pre style="margin: 0;"> <span id="LC1137" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">hyperplanes</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">1</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1147" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1140" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1147,7 +1140,7 @@ def dense_hyperplane_dim(hyperplanes):</td>
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1147
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1140
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<pre style="margin: 0;"> <span id="LC1140" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span> <span class="nb" style="color: #0086b3;">ValueError</span><span class="p">(</span><span class="s" style="color: #d14;">"No hyperplanes of adequate size were found!"</span><span class="p">)</span></span>
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1148
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1141
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<pre style="margin: 0;"> <span id="LC1141" class="line" lang="python"></span>
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1149
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1142
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<pre style="margin: 0;"> <span id="LC1142" class="line" lang="python"></span>
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1150
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<pre style="margin: 0;">-<span id="LC1150" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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1143
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<pre style="margin: 0;">+<span id="LC1143" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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1151
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1144
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<pre style="margin: 0;"> <span id="LC1144" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_hyperplane_dim</span><span class="p">(</span><span class="n" style="color: #333;">hyperplanes</span><span class="p">):</span></span>
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1152
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1145
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<pre style="margin: 0;"> <span id="LC1145" class="line" lang="python"> <span class="n" style="color: #333;">max_dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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1153
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1146
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<pre style="margin: 0;"> <span id="LC1146" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">hyperplanes</span><span class="p">)):</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1219" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1226,6 +1219,7 @@ def renumbaify_tree(tree):</td>
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1226
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1219
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<pre style="margin: 0;"> <span id="LC1219" class="line" lang="python"> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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1227
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1220
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<pre style="margin: 0;"> <span id="LC1220" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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1228
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1221
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<pre style="margin: 0;"> <span id="LC1221" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC1222" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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1223
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<pre style="margin: 0;"> <span id="LC1223" class="line" lang="python"><span class="p">)</span></span>
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1224
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<pre style="margin: 0;"> <span id="LC1224" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">score_tree</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">,</span> <span class="n" style="color: #333;">neighbor_indices</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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1225
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<pre style="margin: 0;"> <span id="LC1225" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1237" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1243,7 +1237,7 @@ def score_tree(tree, neighbor_indices, data, rng_state):</td>
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<pre style="margin: 0;"> <span id="LC1237" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">(</span><span class="n" style="color: #333;">neighbor_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">])</span></span>
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1244
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1238
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<pre style="margin: 0;"> <span id="LC1238" class="line" lang="python"></span>
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1239
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<pre style="margin: 0;"> <span id="LC1239" class="line" lang="python"></span>
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1246
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<pre style="margin: 0;">-<span id="LC1246" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">nogil</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">})</span></span>
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<pre style="margin: 0;">+<span id="LC1240" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">nogil</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"node"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">}<span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC1241" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">score_linked_tree</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">,</span> <span class="n" style="color: #333;">neighbor_indices</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC1242" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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1243
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<pre style="margin: 0;"> <span id="LC1243" class="line" lang="python"> <span class="n" style="color: #333;">n_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">tree</span><span class="p">.</span><span class="n" style="color: #333;">children</span><span class="p">)</span></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#ba635fefc1186a7b2c54329edce850410eb15c6e"><strong>pynndescent/sparse.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,7 +8,11 @@ import numpy as np</td>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numba</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">norm</span><span class="p">,</span> <span class="n" style="color: #333;">tau_rand</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.distances</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">kantorovich</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.distances</span> <span class="kn" style="font-weight: 600;">import</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"> <span class="n" style="color: #333;">kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"> <span class="n" style="color: #333;">jensen_shannon_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="python"> <span class="n" style="color: #333;">symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="python"><span class="n" style="color: #333;">locale</span><span class="p">.</span><span class="n" style="color: #333;">setlocale</span><span class="p">(</span><span class="n" style="color: #333;">locale</span><span class="p">.</span><span class="n" style="color: #333;">LC_NUMERIC</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -16,14 +20,14 @@ FLOAT32_EPS = np.finfo(np.float32).eps</td>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="python"><span class="n" style="color: #333;">FLOAT32_MAX</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">finfo</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">).</span><span class="nb" style="color: #0086b3;">max</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Just reproduce a simpler version of numpy isclose (not numba supported yet)</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">isclose</span><span class="p">(</span><span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="n" style="color: #333;">rtol</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0e-5</span><span class="p">,</span> <span class="n" style="color: #333;">atol</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1.0e-8</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="python"> <span class="n" style="color: #333;">diff</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">a</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">b</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">diff</span> <span class="o" style="font-weight: 600;"><=</span> <span class="p">(</span><span class="n" style="color: #333;">atol</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">rtol</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">b</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Just reproduce a simpler version of numpy unique (not numba supported yet)</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">arr_unique</span><span class="p">(</span><span class="n" style="color: #333;">arr</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="python"> <span class="n" style="color: #333;">aux</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sort</span><span class="p">(</span><span class="n" style="color: #333;">arr</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"> <span class="n" style="color: #333;">flag</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">concatenate</span><span class="p">((</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">ones</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">bool_</span><span class="p">),</span> <span class="n" style="color: #333;">aux</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">:]</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">aux</span><span class="p">[:</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -31,7 +35,7 @@ def arr_unique(arr):</td>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Just reproduce a simpler version of numpy union1d (not numba supported yet)</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">arr_union</span><span class="p">(</span><span class="n" style="color: #333;">ar1</span><span class="p">,</span> <span class="n" style="color: #333;">ar2</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">ar1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">ar2</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -43,12 +47,66 @@ def arr_union(ar1, ar2):</td>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Just reproduce a simpler version of numpy intersect1d (not numba supported</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># yet)</span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">arr_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ar1</span><span class="p">,</span> <span class="n" style="color: #333;">ar2</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="python"> <span class="n" style="color: #333;">aux</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">concatenate</span><span class="p">((</span><span class="n" style="color: #333;">ar1</span><span class="p">,</span> <span class="n" style="color: #333;">ar2</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="python"> <span class="n" style="color: #333;">aux</span><span class="p">.</span><span class="n" style="color: #333;">sort</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">aux</span><span class="p">[:</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">aux</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">:]</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">aux</span><span class="p">[:</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Some things require size of intersection; do this quickly; assume sorted arrays for speed</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="python"> <span class="s" style="color: #d14;">"i4(i4[:],i4[:])"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="python"> <span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="python"> <span class="s" style="color: #d14;">"i1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="python"> <span class="s" style="color: #d14;">"i2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">fast_intersection_size</span><span class="p">(</span><span class="n" style="color: #333;">ar1</span><span class="p">,</span> <span class="n" style="color: #333;">ar2</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">ar1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">ar2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># NOTE: We assume arrays are sorted; if they are not this will break</span></span>
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="python"> <span class="n" style="color: #333;">limit1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="python"> <span class="n" style="color: #333;">limit2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span></span>
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79
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<pre style="margin: 0;">+<span id="LC79" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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80
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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81
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="python"></span>
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82
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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83
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="python"></span>
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84
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="bp" style="color: #999;">True</span><span class="p">:</span></span>
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85
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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86
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<pre style="margin: 0;">+<span id="LC86" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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87
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<pre style="margin: 0;">+<span id="LC87" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">limit1</span><span class="p">:</span></span>
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88
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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89
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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90
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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91
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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92
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="python"></span>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">limit2</span><span class="p">:</span></span>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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95
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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97
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="python"></span>
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99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">j2</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">limit1</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">j1</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">limit2</span><span class="p">:</span></span>
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103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ar2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="python"></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="python"></span>
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110
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="python"></span>
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111
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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112
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="python"> <span class="p">[</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="62" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="120" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -62,7 +120,7 @@ def arr_intersect(ar1, ar2):</td>
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120
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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63
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121
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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122
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<pre style="margin: 0;"> <span id="LC122" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="python"> <span class="p">)<span class="idiff left right">,</span></span></span>
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123
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="python"> <span class="p">)</span></span>
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124
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="python"> <span class="p">],</span></span>
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125
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<pre style="margin: 0;"> <span id="LC125" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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126
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<pre style="margin: 0;"> <span id="LC126" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="74" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="132" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -74,6 +132,7 @@ def arr_intersect(ar1, ar2):</td>
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<pre style="margin: 0;"> <span id="LC132" class="line" lang="python"> <span class="s" style="color: #d14;">"j1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="python"> <span class="s" style="color: #d14;">"j2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC137" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_sum</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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138
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<pre style="margin: 0;"> <span id="LC138" class="line" lang="python"> <span class="n" style="color: #333;">result_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="197" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -138,11 +197,10 @@ def sparse_sum(ind1, data1, ind2, data2):</td>
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138
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197
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result_ind</span><span class="p">,</span> <span class="n" style="color: #333;">result_data</span></span>
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198
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_diff</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC202" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">sparse_sum</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC203" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># "Tuple((i4[::1],f4[::1]))(i4[::1],f4[::1],i4[::1],f4[::1])",</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -156,7 +214,7 @@ def sparse_diff(ind1, data1, ind2, data2):</td>
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<pre style="margin: 0;"> <span id="LC214" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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215
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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216
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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<pre style="margin: 0;">-<span id="LC159" class="line" lang="python"> <span class="p">)<span class="idiff left right">,</span></span></span>
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217
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<pre style="margin: 0;">+<span id="LC217" class="line" lang="python"> <span class="p">)</span></span>
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218
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<pre style="margin: 0;"> <span id="LC218" class="line" lang="python"> <span class="p">],</span></span>
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219
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<pre style="margin: 0;"> <span id="LC219" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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220
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<pre style="margin: 0;"> <span id="LC220" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="166" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="224" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -166,6 +224,7 @@ def sparse_diff(ind1, data1, ind2, data2):</td>
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166
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224
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<pre style="margin: 0;"> <span id="LC224" class="line" lang="python"> <span class="s" style="color: #d14;">"j1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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167
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225
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<pre style="margin: 0;"> <span id="LC225" class="line" lang="python"> <span class="s" style="color: #d14;">"j2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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168
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226
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC227" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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169
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228
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<pre style="margin: 0;"> <span id="LC228" class="line" lang="python"><span class="p">)</span></span>
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229
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<pre style="margin: 0;"> <span id="LC229" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_mul</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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171
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230
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<pre style="margin: 0;"> <span id="LC230" class="line" lang="python"> <span class="n" style="color: #333;">result_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">typed</span><span class="p">.</span><span class="n" style="color: #333;">List</span><span class="p">.</span><span class="n" style="color: #333;">empty_list</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="252" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -193,8 +252,124 @@ def sparse_mul(ind1, data1, ind2, data2):</td>
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193
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252
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<pre style="margin: 0;"> <span id="LC252" class="line" lang="python"></span>
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194
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<pre style="margin: 0;"> <span id="LC253" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result_ind</span><span class="p">,</span> <span class="n" style="color: #333;">result_data</span></span>
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254
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<pre style="margin: 0;"> <span id="LC254" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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256
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<pre style="margin: 0;">+<span id="LC256" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC257" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># "Tuple((i4[::1],f4[::1]))(i4[::1],f4[::1],i4[::1],f4[::1])",</span></span>
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258
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<pre style="margin: 0;">+<span id="LC258" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">(</span></span>
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259
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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260
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<pre style="margin: 0;">+<span id="LC260" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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261
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<pre style="margin: 0;">+<span id="LC261" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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262
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<pre style="margin: 0;">+<span id="LC262" class="line" lang="python"> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">Array</span><span class="p">(</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"C"</span><span class="p">,</span> <span class="n" style="color: #333;">readonly</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">),</span></span>
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263
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<pre style="margin: 0;">+<span id="LC263" class="line" lang="python"> <span class="p">)</span></span>
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264
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<pre style="margin: 0;">+<span id="LC264" class="line" lang="python"> <span class="p">],</span></span>
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265
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<pre style="margin: 0;">+<span id="LC265" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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266
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<pre style="margin: 0;">+<span id="LC266" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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267
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<pre style="margin: 0;">+<span id="LC267" class="line" lang="python"> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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268
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<pre style="margin: 0;">+<span id="LC268" class="line" lang="python"> <span class="s" style="color: #d14;">"val"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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269
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<pre style="margin: 0;">+<span id="LC269" class="line" lang="python"> <span class="s" style="color: #d14;">"i1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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270
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<pre style="margin: 0;">+<span id="LC270" class="line" lang="python"> <span class="s" style="color: #d14;">"i2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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271
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<pre style="margin: 0;">+<span id="LC271" class="line" lang="python"> <span class="s" style="color: #d14;">"j1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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272
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<pre style="margin: 0;">+<span id="LC272" class="line" lang="python"> <span class="s" style="color: #d14;">"j2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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273
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<pre style="margin: 0;">+<span id="LC273" class="line" lang="python"> <span class="p">},</span></span>
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274
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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275
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<pre style="margin: 0;">+<span id="LC275" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC276" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_dot_product</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC277" class="line" lang="python"> <span class="n" style="color: #333;">dim1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC278" class="line" lang="python"> <span class="n" style="color: #333;">dim2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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279
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<pre style="margin: 0;">+<span id="LC279" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC280" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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281
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<pre style="margin: 0;">+<span id="LC281" class="line" lang="python"></span>
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282
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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283
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<pre style="margin: 0;">+<span id="LC283" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC284" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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285
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<pre style="margin: 0;">+<span id="LC285" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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286
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<pre style="margin: 0;"> <span id="LC286" class="line" lang="python"></span>
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287
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<pre style="margin: 0;">+<span id="LC287" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># pass through both index lists</span></span>
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288
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<pre style="margin: 0;">+<span id="LC288" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="bp" style="color: #999;">True</span><span class="p">:</span></span>
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289
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<pre style="margin: 0;">+<span id="LC289" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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290
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<pre style="margin: 0;">+<span id="LC290" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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291
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<pre style="margin: 0;">+<span id="LC291" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">val</span></span>
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292
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<pre style="margin: 0;">+<span id="LC292" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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293
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<pre style="margin: 0;">+<span id="LC293" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">dim1</span><span class="p">:</span></span>
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294
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<pre style="margin: 0;">+<span id="LC294" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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295
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<pre style="margin: 0;">+<span id="LC295" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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296
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<pre style="margin: 0;">+<span id="LC296" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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297
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<pre style="margin: 0;">+<span id="LC297" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">dim2</span><span class="p">:</span></span>
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298
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<pre style="margin: 0;">+<span id="LC298" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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299
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<pre style="margin: 0;">+<span id="LC299" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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300
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<pre style="margin: 0;">+<span id="LC300" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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301
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<pre style="margin: 0;">+<span id="LC301" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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302
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<pre style="margin: 0;">+<span id="LC302" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">dim1</span><span class="p">:</span></span>
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303
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<pre style="margin: 0;">+<span id="LC303" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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304
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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305
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<pre style="margin: 0;">+<span id="LC305" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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306
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<pre style="margin: 0;">+<span id="LC306" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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307
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<pre style="margin: 0;">+<span id="LC307" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">dim2</span><span class="p">:</span></span>
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308
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<pre style="margin: 0;">+<span id="LC308" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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309
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<pre style="margin: 0;">+<span id="LC309" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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310
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<pre style="margin: 0;">+<span id="LC310" class="line" lang="python"></span>
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311
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<pre style="margin: 0;">+<span id="LC311" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span> <span class="c1" style="color: #998; font-style: italic;"># unreachable</span></span>
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312
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<pre style="margin: 0;">+<span id="LC312" class="line" lang="python"></span>
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313
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<pre style="margin: 0;">+<span id="LC313" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Return dense vectors supported on the union of the non-zero valued indices</span></span>
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197
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314
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<pre style="margin: 0;"> <span id="LC314" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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315
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<pre style="margin: 0;">+<span id="LC315" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">dense_union</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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316
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<pre style="margin: 0;">+<span id="LC316" class="line" lang="python"> <span class="n" style="color: #333;">result_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">arr_union</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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317
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<pre style="margin: 0;">+<span id="LC317" class="line" lang="python"> <span class="n" style="color: #333;">result_data1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">(</span><span class="n" style="color: #333;">result_ind</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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<td class="new_line diff-line-num new" data-linenumber="318" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
318
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<pre style="margin: 0;">+<span id="LC318" class="line" lang="python"> <span class="n" style="color: #333;">result_data2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">(</span><span class="n" style="color: #333;">result_ind</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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319
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<pre style="margin: 0;">+<span id="LC319" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC320" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC321" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC322" class="line" lang="python"> <span class="n" style="color: #333;">nnz</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC323" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC324" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># pass through both index lists</span></span>
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<pre style="margin: 0;">+<span id="LC325" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">+<span id="LC326" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC327" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC328" class="line" lang="python"></span>
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329
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<pre style="margin: 0;">+<span id="LC329" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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330
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<pre style="margin: 0;">+<span id="LC330" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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331
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<pre style="margin: 0;">+<span id="LC331" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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332
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<pre style="margin: 0;">+<span id="LC332" class="line" lang="python"> <span class="n" style="color: #333;">result_data1</span><span class="p">[</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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333
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<pre style="margin: 0;">+<span id="LC333" class="line" lang="python"> <span class="n" style="color: #333;">result_data2</span><span class="p">[</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="python"> <span class="n" style="color: #333;">nnz</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC335" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC336" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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337
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<pre style="margin: 0;">+<span id="LC337" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC338" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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339
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<pre style="margin: 0;">+<span id="LC339" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="python"> <span class="n" style="color: #333;">result_data1</span><span class="p">[</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC341" class="line" lang="python"> <span class="n" style="color: #333;">nnz</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC342" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC343" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC344" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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345
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<pre style="margin: 0;">+<span id="LC345" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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346
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<pre style="margin: 0;">+<span id="LC346" class="line" lang="python"> <span class="n" style="color: #333;">result_data2</span><span class="p">[</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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347
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<pre style="margin: 0;">+<span id="LC347" class="line" lang="python"> <span class="n" style="color: #333;">nnz</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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348
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<pre style="margin: 0;">+<span id="LC348" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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349
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<pre style="margin: 0;">+<span id="LC349" class="line" lang="python"></span>
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350
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<pre style="margin: 0;">+<span id="LC350" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># pass over the tails</span></span>
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351
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<pre style="margin: 0;">+<span id="LC351" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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352
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<pre style="margin: 0;">+<span id="LC352" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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353
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<pre style="margin: 0;">+<span id="LC353" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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354
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<pre style="margin: 0;">+<span id="LC354" class="line" lang="python"> <span class="n" style="color: #333;">result_data1</span><span class="p">[</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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355
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<pre style="margin: 0;">+<span id="LC355" class="line" lang="python"> <span class="n" style="color: #333;">nnz</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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356
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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357
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<pre style="margin: 0;">+<span id="LC357" class="line" lang="python"></span>
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358
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<pre style="margin: 0;">+<span id="LC358" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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359
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<pre style="margin: 0;">+<span id="LC359" class="line" lang="python"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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360
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<pre style="margin: 0;">+<span id="LC360" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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361
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<pre style="margin: 0;">+<span id="LC361" class="line" lang="python"> <span class="n" style="color: #333;">result_data2</span><span class="p">[</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC362" class="line" lang="python"> <span class="n" style="color: #333;">nnz</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC363" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC364" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC365" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># truncate to the correct length in case there were zeros</span></span>
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<pre style="margin: 0;">+<span id="LC366" class="line" lang="python"> <span class="n" style="color: #333;">result_data1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">result_data1</span><span class="p">[:</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC367" class="line" lang="python"> <span class="n" style="color: #333;">result_data2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">result_data2</span><span class="p">[:</span><span class="n" style="color: #333;">nnz</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC368" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC369" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result_data1</span><span class="p">,</span> <span class="n" style="color: #333;">result_data2</span></span>
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<pre style="margin: 0;">+<span id="LC370" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC371" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC372" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC373" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_euclidean</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC374" class="line" lang="python"> <span class="n" style="color: #333;">_</span><span class="p">,</span> <span class="n" style="color: #333;">aux_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_diff</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC375" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -315,8 +490,8 @@ def sparse_bray_curtis(ind1, data1, ind2, data2): # pragma: no cover</td>
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<pre style="margin: 0;"> <span id="LC490" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC491" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC492" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_jaccard</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC318" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">non_zero</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">arr_union</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC319" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">equal</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">arr_intersect</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC493" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">equal</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">fast_intersection_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC494" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">non_zero</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_equal</span></span></span>
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<pre style="margin: 0;"> <span id="LC495" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC496" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC497" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -335,30 +510,31 @@ def sparse_jaccard(ind1, data1, ind2, data2):</td>
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<pre style="margin: 0;"> <span id="LC510" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;"> <span id="LC511" class="line" lang="python"> <span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC512" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC338" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC339" class="line" lang="python"> <span class="s" style="color: #d14;">"num_non_zero"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC340" class="line" lang="python"> <span class="s" style="color: #d14;">"num_equal"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC341" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC513" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"num_non_zero"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span> <span class="s" style="color: #d14;">"num_equal"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC514" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC515" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_alternative_jaccard</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC344" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">non_zero</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">arr_union</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC345" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">equal</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">arr_intersect</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC516" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">equal</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">fast_intersection_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC517" class="line" lang="python"> <span class="n" style="color: #333;">num_<span class="idiff left">non_zero</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_equal</span></span></span>
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<pre style="margin: 0;"> <span id="LC518" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC519" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC520" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC521" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">num_equal</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC522" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">FLOAT32_MAX</span></span>
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349
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<pre style="margin: 0;"> <span id="LC523" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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350
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<pre style="margin: 0;"> <span id="LC524" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log2</span><span class="p">(</span><span class="n" style="color: #333;">num_equal</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">num_non_zero</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC525" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># return (num_non_zero - num_equal) / num_equal</span></span>
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<pre style="margin: 0;"> <span id="LC526" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC527" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC528" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">vectorize</span><span class="p">(</span><span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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354
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529
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<pre style="margin: 0;"> <span id="LC529" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">correct_alternative_jaccard</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC530" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">-</span> <span class="nb" style="color: #0086b3;">pow</span><span class="p">(</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">v</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC531" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># return v / (v + 1)</span></span>
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<pre style="margin: 0;"> <span id="LC532" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC533" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC534" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC535" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_matching</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="n" style="color: #333;">n_features</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC360" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC361" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr_union</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC536" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC537" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_true_true</span></span></span>
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<pre style="margin: 0;"> <span id="LC538" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span></span>
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<pre style="margin: 0;"> <span id="LC539" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">float</span><span class="p">(</span><span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">n_features</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -366,8 +542,8 @@ def sparse_matching(ind1, data1, ind2, data2, n_features):</td>
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<pre style="margin: 0;"> <span id="LC542" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC543" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_dice</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC369" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC370" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr_union</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC545" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC546" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_true_true</span></span></span>
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<pre style="margin: 0;"> <span id="LC547" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span></span>
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<pre style="margin: 0;"> <span id="LC548" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC549" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">==</span> <span class="mf" style="color: #099;">0.0</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="378" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="554" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -378,8 +554,8 @@ def sparse_dice(ind1, data1, ind2, data2):</td>
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<pre style="margin: 0;"> <span id="LC554" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC555" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC556" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_kulsinski</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="n" style="color: #333;">n_features</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC381" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC382" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr_union</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC557" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC558" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_true_true</span></span></span>
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<pre style="margin: 0;"> <span id="LC559" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span></span>
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560
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<pre style="margin: 0;"> <span id="LC560" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC561" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="568" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -392,8 +568,8 @@ def sparse_kulsinski(ind1, data1, ind2, data2, n_features):</td>
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392
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568
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<pre style="margin: 0;"> <span id="LC568" class="line" lang="python"></span>
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569
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<pre style="margin: 0;"> <span id="LC569" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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394
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570
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<pre style="margin: 0;"> <span id="LC570" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_rogers_tanimoto</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="n" style="color: #333;">n_features</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC395" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC396" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr_union</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC571" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC572" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_true_true</span></span></span>
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<pre style="margin: 0;"> <span id="LC573" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span></span>
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574
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<pre style="margin: 0;"> <span id="LC574" class="line" lang="python"></span>
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575
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<pre style="margin: 0;"> <span id="LC575" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="p">(</span><span class="mf" style="color: #099;">2.0</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">n_features</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="580" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -404,7 +580,7 @@ def sparse_russellrao(ind1, data1, ind2, data2, n_features):</td>
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404
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580
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<pre style="margin: 0;"> <span id="LC580" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">all</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">ind2</span><span class="p">):</span></span>
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581
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<pre style="margin: 0;"> <span id="LC581" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;"> <span id="LC582" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC407" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">+<span id="LC583" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC584" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC585" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">data1</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">data2</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC586" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="590" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -414,8 +590,8 @@ def sparse_russellrao(ind1, data1, ind2, data2, n_features):</td>
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<pre style="margin: 0;"> <span id="LC590" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC591" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC592" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_sokal_michener</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="n" style="color: #333;">n_features</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC417" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC418" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr_union</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC593" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC594" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_true_true</span></span></span>
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<pre style="margin: 0;"> <span id="LC595" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span></span>
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<pre style="margin: 0;"> <span id="LC596" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC597" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="p">(</span><span class="mf" style="color: #099;">2.0</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">n_features</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">num_not_equal</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -423,8 +599,8 @@ def sparse_sokal_michener(ind1, data1, ind2, data2, n_features):</td>
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<pre style="margin: 0;"> <span id="LC599" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC600" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC601" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_sokal_sneath</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC426" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr</span>_intersect</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)<span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff right">]</span></span></span>
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<pre style="margin: 0;">-<span id="LC427" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">arr_union</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ind1</span></span><span class="p"><span class="idiff">,</span></span> <span class="n" style="color: #333;">ind2</span><span class="p"><span class="idiff right">)</span>.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC602" class="line" lang="python"> <span class="n" style="color: #333;">num_true_true</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">fast</span>_intersect<span class="idiff right">ion_size</span></span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC603" class="line" lang="python"> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">ind1</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">shape</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">num_true_true</span></span></span>
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<pre style="margin: 0;"> <span id="LC604" class="line" lang="python"> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_non_zero</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">num_true_true</span></span>
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<pre style="margin: 0;"> <span id="LC605" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC606" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">num_not_equal</span> <span class="o" style="font-weight: 600;">==</span> <span class="mf" style="color: #099;">0.0</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -491,11 +667,7 @@ def sparse_correct_alternative_cosine(d):</td>
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<pre style="margin: 0;"> <span id="LC667" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC668" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC669" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_dot</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC494" class="line" lang="python"> <span class="n" style="color: #333;">_</span><span class="p">,</span> <span class="n" style="color: #333;">aux_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_mul</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC495" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">-<span id="LC496" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC497" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">val</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">aux_data</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC498" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">val</span></span>
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<pre style="margin: 0;">+<span id="LC670" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_dot_product</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC671" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC672" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC673" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -505,16 +677,10 @@ def sparse_dot(ind1, data1, ind2, data2):</td>
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<pre style="margin: 0;"> <span id="LC677" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC678" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC679" class="line" lang="python"> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC508" class="line" lang="python"> <span class="s" style="color: #d14;">"dim"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC509" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC680" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC681" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC682" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_alternative_dot</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC513" class="line" lang="python"> <span class="n" style="color: #333;">_</span><span class="p">,</span> <span class="n" style="color: #333;">aux_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_mul</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC514" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">-<span id="LC515" class="line" lang="python"> <span class="n" style="color: #333;">dim</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">aux_data</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC516" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">dim</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC517" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">aux_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC683" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse_dot_product</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC684" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC685" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;"><=</span> <span class="mf" style="color: #099;">0.0</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC686" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">FLOAT32_MAX</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="862" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -696,7 +862,83 @@ def sparse_kantorovich(ind1, data1, ind2, data2, ground_metric=dummy_ground_metr</td>
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<pre style="margin: 0;"> <span id="LC862" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">kantorovich</span><span class="p">(</span><span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="n" style="color: #333;">cost_matrix</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC863" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC864" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC699" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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865
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<pre style="margin: 0;">+<span id="LC865" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC866" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_wasserstein_1d</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC867" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC868" class="line" lang="python"> <span class="n" style="color: #333;">old_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC869" class="line" lang="python"> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC870" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC871" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">+<span id="LC872" class="line" lang="python"> <span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC873" class="line" lang="python"> <span class="n" style="color: #333;">cdf2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC874" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">data1</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC875" class="line" lang="python"> <span class="n" style="color: #333;">l1_norm_y</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC876" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC877" class="line" lang="python"> <span class="n" style="color: #333;">norm</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">lambda</span> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">:</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">power</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">),</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC878" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC879" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># pass through both index lists</span></span>
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<pre style="margin: 0;">+<span id="LC880" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">+<span id="LC881" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC882" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC884" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC885" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">old_ind</span><span class="p">)</span></span>
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886
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<pre style="margin: 0;">+<span id="LC886" class="line" lang="python"> <span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_x</span></span>
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887
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<pre style="margin: 0;">+<span id="LC887" class="line" lang="python"> <span class="n" style="color: #333;">cdf2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_y</span></span>
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<pre style="margin: 0;">+<span id="LC888" class="line" lang="python"> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">norm</span><span class="p">(</span><span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">cdf2</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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889
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<pre style="margin: 0;">+<span id="LC889" class="line" lang="python"> <span class="n" style="color: #333;">old_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">j1</span></span>
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<pre style="margin: 0;">+<span id="LC890" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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891
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<pre style="margin: 0;">+<span id="LC891" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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892
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<pre style="margin: 0;">+<span id="LC892" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">j2</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC893" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">old_ind</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC894" class="line" lang="python"> <span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_x</span></span>
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<pre style="margin: 0;">+<span id="LC895" class="line" lang="python"> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">norm</span><span class="p">(</span><span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">cdf2</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC896" class="line" lang="python"> <span class="n" style="color: #333;">old_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">j1</span></span>
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<pre style="margin: 0;">+<span id="LC897" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC898" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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899
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<pre style="margin: 0;">+<span id="LC899" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">old_ind</span><span class="p">)</span></span>
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900
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<pre style="margin: 0;">+<span id="LC900" class="line" lang="python"> <span class="n" style="color: #333;">cdf2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_y</span></span>
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<pre style="margin: 0;">+<span id="LC901" class="line" lang="python"> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">norm</span><span class="p">(</span><span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">cdf2</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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902
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<pre style="margin: 0;">+<span id="LC902" class="line" lang="python"> <span class="n" style="color: #333;">old_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">j2</span></span>
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903
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<pre style="margin: 0;">+<span id="LC903" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC904" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># pass over the tails</span></span>
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<pre style="margin: 0;">+<span id="LC905" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind1</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">+<span id="LC906" class="line" lang="python"> <span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC907" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">j1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">old_ind</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC908" class="line" lang="python"> <span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">data1</span><span class="p">[</span><span class="n" style="color: #333;">i1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_x</span></span>
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909
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<pre style="margin: 0;">+<span id="LC909" class="line" lang="python"> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">norm</span><span class="p">(</span><span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">cdf2</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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910
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<pre style="margin: 0;">+<span id="LC910" class="line" lang="python"> <span class="n" style="color: #333;">old_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">j1</span></span>
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911
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<pre style="margin: 0;">+<span id="LC911" class="line" lang="python"> <span class="n" style="color: #333;">i1</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">+<span id="LC912" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC913" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">ind2</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">+<span id="LC914" class="line" lang="python"> <span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ind2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span></span>
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915
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<pre style="margin: 0;">+<span id="LC915" class="line" lang="python"> <span class="n" style="color: #333;">result</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">j2</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">old_ind</span><span class="p">)</span></span>
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916
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<pre style="margin: 0;">+<span id="LC916" class="line" lang="python"> <span class="n" style="color: #333;">cdf2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">data2</span><span class="p">[</span><span class="n" style="color: #333;">i2</span><span class="p">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">l1_norm_y</span></span>
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917
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<pre style="margin: 0;">+<span id="LC917" class="line" lang="python"> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">norm</span><span class="p">(</span><span class="n" style="color: #333;">cdf1</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">cdf2</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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918
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<pre style="margin: 0;">+<span id="LC918" class="line" lang="python"> <span class="n" style="color: #333;">old_ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">j2</span></span>
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919
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<pre style="margin: 0;">+<span id="LC919" class="line" lang="python"> <span class="n" style="color: #333;">i2</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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920
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<pre style="margin: 0;">+<span id="LC920" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC921" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">power</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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922
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<pre style="margin: 0;">+<span id="LC922" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC924" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Because of the EPS values and the need to normalize after adding them (and then average those for jensen_shannon)</span></span>
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<pre style="margin: 0;">+<span id="LC925" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># it seems like we might as well just take the dense union (dense vectors supported on the union of indices)</span></span>
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<pre style="margin: 0;">+<span id="LC926" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># and call the dense distance functions</span></span>
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<pre style="margin: 0;">+<span id="LC929" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC930" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_jensen_shannon_divergence</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC931" class="line" lang="python"> <span class="n" style="color: #333;">dense_data1</span><span class="p">,</span> <span class="n" style="color: #333;">dense_data2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dense_union</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC932" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">jensen_shannon_divergence</span><span class="p">(</span><span class="n" style="color: #333;">dense_data1</span><span class="p">,</span> <span class="n" style="color: #333;">dense_data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC933" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC935" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC936" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_symmetric_kl_divergence</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC937" class="line" lang="python"> <span class="n" style="color: #333;">dense_data1</span><span class="p">,</span> <span class="n" style="color: #333;">dense_data2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dense_union</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC938" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">symmetric_kl_divergence</span><span class="p">(</span><span class="n" style="color: #333;">dense_data1</span><span class="p">,</span> <span class="n" style="color: #333;">dense_data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC939" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC941" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC942" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">diversify</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC943" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC944" class="line" lang="python"> <span class="n" style="color: #333;">distances</span><span class="p">,</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -751,7 +993,7 @@ def diversify(</td>
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<pre style="margin: 0;"> <span id="LC993" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">distances</span></span>
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<pre style="margin: 0;"> <span id="LC994" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC995" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC754" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC996" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC997" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">diversify_csr</span><span class="p">(</span></span>
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998
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<pre style="margin: 0;"> <span id="LC998" class="line" lang="python"> <span class="n" style="color: #333;">graph_indptr</span><span class="p">,</span></span>
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999
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<pre style="margin: 0;"> <span id="LC999" class="line" lang="python"> <span class="n" style="color: #333;">graph_indices</span><span class="p">,</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -821,8 +1063,6 @@ sparse_named_distances = {</td>
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<pre style="margin: 0;"> <span id="LC1063" class="line" lang="python"> <span class="s" style="color: #d14;">"minkowski"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_minkowski</span><span class="p">,</span></span>
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822
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<pre style="margin: 0;"> <span id="LC1064" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Other distances</span></span>
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1065
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<pre style="margin: 0;"> <span id="LC1065" class="line" lang="python"> <span class="s" style="color: #d14;">"canberra"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_canberra</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC824" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC825" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC1066" class="line" lang="python"> <span class="s" style="color: #d14;">"braycurtis"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_bray_curtis</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC1067" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Binary distances</span></span>
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1068
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<pre style="margin: 0;"> <span id="LC1068" class="line" lang="python"> <span class="s" style="color: #d14;">"hamming"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_hamming</span><span class="p">,</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1077" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -837,7 +1077,19 @@ sparse_named_distances = {</td>
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1077
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<pre style="margin: 0;"> <span id="LC1077" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Angular distances</span></span>
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1078
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<pre style="margin: 0;"> <span id="LC1078" class="line" lang="python"> <span class="s" style="color: #d14;">"cosine"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_cosine</span><span class="p">,</span></span>
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839
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1079
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<pre style="margin: 0;"> <span id="LC1079" class="line" lang="python"> <span class="s" style="color: #d14;">"correlation"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_correlation</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1080" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Distribution distances</span></span>
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<pre style="margin: 0;">+<span id="LC1081" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1082" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_kantorovich</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1083" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein_1d"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_wasserstein_1d</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1084" class="line" lang="python"> <span class="s" style="color: #d14;">"wasserstein-1d"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_wasserstein_1d</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1085" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich-1d"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_wasserstein_1d</span><span class="p">,</span></span>
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1086
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<pre style="margin: 0;">+<span id="LC1086" class="line" lang="python"> <span class="s" style="color: #d14;">"kantorovich-1d"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_wasserstein_1d</span><span class="p">,</span></span>
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1087
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<pre style="margin: 0;"> <span id="LC1087" class="line" lang="python"> <span class="s" style="color: #d14;">"hellinger"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_hellinger</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1088" class="line" lang="python"> <span class="s" style="color: #d14;">"jensen-shannon"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_jensen_shannon_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1089" class="line" lang="python"> <span class="s" style="color: #d14;">"jensen_shannon"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_jensen_shannon_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1090" class="line" lang="python"> <span class="s" style="color: #d14;">"symmetric-kl"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1091" class="line" lang="python"> <span class="s" style="color: #d14;">"symmetric_kl"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC1092" class="line" lang="python"> <span class="s" style="color: #d14;">"symmetric_kullback_liebler"</span><span class="p">:</span> <span class="n" style="color: #333;">sparse_symmetric_kl_divergence</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC1093" class="line" lang="python"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC1094" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC1095" class="line" lang="python"><span class="n" style="color: #333;">sparse_need_n_features</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -24,15 +24,8 @@ locale.setlocale(locale.LC_NUMERIC, "C")</td>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="python"><span class="n" style="color: #333;">EMPTY_GRAPH</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">make_heap</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">generate_leaf_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="python"> <span class="n" style="color: #333;">leaf_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="python"> <span class="n" style="color: #333;">inds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="python"> <span class="n" style="color: #333;">indptr</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">generate_leaf_updates</span><span class="p">(</span><span class="n" style="color: #333;">leaf_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">inds</span><span class="p">,</span> <span class="n" style="color: #333;">indptr</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[[(</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">inf</span><span class="p">)]</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">leaf_block</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">])]</span></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -60,13 +53,7 @@ def generate_leaf_updates(</td>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">updates</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="python"> <span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="python"> <span class="s" style="color: #d14;">"p"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="python"> <span class="s" style="color: #d14;">"q"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"p"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="s" style="color: #d14;">"q"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">},</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">init_rp_tree</span><span class="p">(</span><span class="n" style="color: #333;">inds</span><span class="p">,</span> <span class="n" style="color: #333;">indptr</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">,</span> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">leaf_array</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="python"> <span class="n" style="color: #333;">n_leaves</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">leaf_array</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -81,12 +68,7 @@ def init_rp_tree(inds, indptr, data, dist, current_graph, leaf_array):</td>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][:,</span> <span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="python"> <span class="n" style="color: #333;">updates</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">generate_leaf_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="python"> <span class="n" style="color: #333;">leaf_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC85" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="python"> <span class="n" style="color: #333;">inds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="python"> <span class="n" style="color: #333;">indptr</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC88" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC89" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="python"> <span class="n" style="color: #333;">leaf_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">inds</span><span class="p">,</span> <span class="n" style="color: #333;">indptr</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span></span>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">updates</span><span class="p">)):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -96,8 +78,6 @@ def init_rp_tree(inds, indptr, data, dist, current_graph, leaf_array):</td>
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">==</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="python"> <span class="k" style="font-weight: 600;">continue</span></span>
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># heap_push(current_graph, p, d, q, 1)</span></span>
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># heap_push(current_graph, q, d, p, 1)</span></span>
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -118,11 +98,8 @@ def init_rp_tree(inds, indptr, data, dist, current_graph, leaf_array):</td>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC122" class="line" lang="python"> <span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC123" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="python"> <span class="s" style="color: #d14;">"idx"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"d"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">,</span> <span class="s" style="color: #d14;">"idx"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC103" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC104" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">init_random</span><span class="p">(</span><span class="n" style="color: #333;">n_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">inds</span><span class="p">,</span> <span class="n" style="color: #333;">indptr</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC105" class="line" lang="python"> <span class="n" style="color: #333;">n_samples</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indptr</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="115" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -138,7 +115,6 @@ def init_random(n_neighbors, inds, indptr, data, heap, dist, rng_state):</td>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="python"> <span class="n" style="color: #333;">to_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">indptr</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">indptr</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">(</span><span class="n" style="color: #333;">from_inds</span><span class="p">,</span> <span class="n" style="color: #333;">from_data</span><span class="p">,</span> <span class="n" style="color: #333;">to_inds</span><span class="p">,</span> <span class="n" style="color: #333;">to_data</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC117" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># heap_push(heap, i, d, idx, 1)</span></span>
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="python"> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">idx</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">uint8</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="python"> <span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -146,15 +122,9 @@ def init_random(n_neighbors, inds, indptr, data, heap, dist, rng_state):</td>
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<pre style="margin: 0;"> <span id="LC122" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span></span>
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<pre style="margin: 0;"> <span id="LC123" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC126" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">generate_graph_updates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC151" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC152" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="python"> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="python"> <span class="n" style="color: #333;">inds</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="python"> <span class="n" style="color: #333;">indptr</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC156" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC157" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_block</span><span class="p">,</span> <span class="n" style="color: #333;">dist_thresholds</span><span class="p">,</span> <span class="n" style="color: #333;">inds</span><span class="p">,</span> <span class="n" style="color: #333;">indptr</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dist</span></span>
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_candidate_block</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="186" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -216,15 +186,14 @@ def nn_descent_internal_low_memory_parallel(</td>
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<pre style="margin: 0;"> <span id="LC186" class="line" lang="python"> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indptr</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span></span>
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187
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">16384</span></span>
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218
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188
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<pre style="margin: 0;"> <span id="LC188" class="line" lang="python"> <span class="n" style="color: #333;">n_blocks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">//</span> <span class="n" style="color: #333;">block_size</span></span>
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189
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">get_num_threads</span><span class="p">()</span></span>
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190
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="python"></span>
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191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">n</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_iters</span><span class="p">):</span></span>
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221
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">verbose</span><span class="p">:</span></span>
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193
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<pre style="margin: 0;"> <span id="LC193" class="line" lang="python"> <span class="k" style="font-weight: 600;">print</span><span class="p">(</span><span class="s" style="color: #d14;">"</span><span class="se" style="color: #d14;">\t</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">" / "</span><span class="p">,</span> <span class="n" style="color: #333;">n_iters</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC194" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC195" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">new_candidate_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_neighbors</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_build_candidates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC225" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC226" class="line" lang="python"> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC227" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC196" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span> <span class="n" style="color: #333;">n_threads</span></span>
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -246,7 +215,7 @@ def nn_descent_internal_low_memory_parallel(</td>
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="python"> <span class="n" style="color: #333;">dist</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC217" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC249" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">apply_graph_updates_low_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC218" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">apply_graph_updates_low_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">n_threads</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC219" class="line" lang="python"></span>
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220
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<pre style="margin: 0;"> <span id="LC220" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n_vertices</span><span class="p">:</span></span>
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252
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221
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<pre style="margin: 0;"> <span id="LC221" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">verbose</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -271,6 +240,7 @@ def nn_descent_internal_high_memory_parallel(</td>
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271
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240
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<pre style="margin: 0;"> <span id="LC240" class="line" lang="python"> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indptr</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">-</span> <span class="mi" style="color: #099;">1</span></span>
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272
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241
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<pre style="margin: 0;"> <span id="LC241" class="line" lang="python"> <span class="n" style="color: #333;">block_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">16384</span></span>
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273
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242
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<pre style="margin: 0;"> <span id="LC242" class="line" lang="python"> <span class="n" style="color: #333;">n_blocks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n_vertices</span> <span class="o" style="font-weight: 600;">//</span> <span class="n" style="color: #333;">block_size</span></span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">get_num_threads</span><span class="p">()</span></span>
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274
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244
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<pre style="margin: 0;"> <span id="LC244" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC245" class="line" lang="python"> <span class="n" style="color: #333;">in_graph</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span></span>
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246
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="python"> <span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">))</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -282,9 +252,7 @@ def nn_descent_internal_high_memory_parallel(</td>
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<pre style="margin: 0;"> <span id="LC252" class="line" lang="python"> <span class="k" style="font-weight: 600;">print</span><span class="p">(</span><span class="s" style="color: #d14;">"</span><span class="se" style="color: #d14;">\t</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">" / "</span><span class="p">,</span> <span class="n" style="color: #333;">n_iters</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC253" class="line" lang="python"></span>
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254
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<pre style="margin: 0;"> <span id="LC254" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">new_candidate_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_neighbors</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">new_build_candidates</span><span class="p">(</span></span>
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285
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<pre style="margin: 0;">-<span id="LC285" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC286" class="line" lang="python"> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC287" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span> <span class="n" style="color: #333;">n_threads</span></span>
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<pre style="margin: 0;"> <span id="LC256" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC257" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="python"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#309fcf4228aff2b3b6e57e44d29e84746c42fd7c"><strong>pynndescent/tests/conftest.py</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">os</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pytest</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">sparse</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Making Random Seed as a fixture in case it would be</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># needed in tests for random states</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">seed</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">189212</span> <span class="c1" style="color: #998; font-style: italic;"># 0b101110001100011100</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">seed</span><span class="p">(</span><span class="mi" style="color: #099;">189212</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">spatial_data</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="python"> <span class="n" style="color: #333;">sp_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">randn</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="python"> <span class="n" style="color: #333;">sp_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">([</span><span class="n" style="color: #333;">sp_data</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">))]).</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="n" style="color: #333;">order</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"C"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">sp_data</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">binary_data</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="python"> <span class="n" style="color: #333;">bin_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">choice</span><span class="p">(</span><span class="n" style="color: #333;">a</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span><span class="bp" style="color: #999;">False</span><span class="p">,</span> <span class="bp" style="color: #999;">True</span><span class="p">],</span> <span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">),</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span><span class="mf" style="color: #099;">0.66</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;">-</span> <span class="mf" style="color: #099;">0.66</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="python"> <span class="n" style="color: #333;">bin_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">([</span><span class="n" style="color: #333;">bin_data</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">),</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"bool"</span><span class="p">)])</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">bin_data</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_spatial_data</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">binary_data</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="python"> <span class="n" style="color: #333;">sp_sparse_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse</span><span class="p">.</span><span class="n" style="color: #333;">csr_matrix</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">binary_data</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="python"> <span class="n" style="color: #333;">sp_sparse_data</span><span class="p">.</span><span class="n" style="color: #333;">sort_indices</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">sp_sparse_data</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_binary_data</span><span class="p">(</span><span class="n" style="color: #333;">binary_data</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="python"> <span class="n" style="color: #333;">bin_sparse_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse</span><span class="p">.</span><span class="n" style="color: #333;">csr_matrix</span><span class="p">(</span><span class="n" style="color: #333;">binary_data</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="python"> <span class="n" style="color: #333;">bin_sparse_data</span><span class="p">.</span><span class="n" style="color: #333;">sort_indices</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">bin_sparse_data</span></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">nn_data</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="python"> <span class="n" style="color: #333;">nndata</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">uniform</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="python"> <span class="n" style="color: #333;">nndata</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">([</span><span class="n" style="color: #333;">nndata</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">))])</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">nndata</span></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_nn_data</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">sparse</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">,</span> <span class="n" style="color: #333;">density</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.5</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">format</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"csr"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">fixture</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">cosine_hang_data</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="python"> <span class="n" style="color: #333;">this_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">dirname</span><span class="p">(</span><span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">abspath</span><span class="p">(</span><span class="n" style="color: #333;">__file__</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="python"> <span class="n" style="color: #333;">data_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">this_dir</span><span class="p">,</span> <span class="s" style="color: #d14;">"test_data/cosine_hang.npy"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">data_path</span><span class="p">)</span></span></pre>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#b18dc095c827a7b0b2c653fa1e7e4a705361cccf"><strong>pynndescent/tests/test_distances.py</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pytest</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numpy.testing</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">assert_array_equal</span><span class="p">,</span> <span class="n" style="color: #333;">assert_array_almost_equal</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pynndescent.distances</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">dist</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pynndescent.sparse</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">spdist</span></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">sparse</span><span class="p">,</span> <span class="n" style="color: #333;">stats</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">stats</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy.sparse</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">csr_matrix</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.metrics</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">pairwise_distances</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.neighbors</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">BallTree</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="python"><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">seed</span><span class="p">(</span><span class="mi" style="color: #099;">42</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="python"><span class="n" style="color: #333;">spatial_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">randn</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="python"><span class="n" style="color: #333;">spatial_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">([</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">))]).</span><span class="n" style="color: #333;">astype</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span> <span class="n" style="color: #333;">order</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"C"</span></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="python"><span class="p">)</span> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="python"><span class="n" style="color: #333;">binary_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">choice</span><span class="p">(</span><span class="n" style="color: #333;">a</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span><span class="bp" style="color: #999;">False</span><span class="p">,</span> <span class="bp" style="color: #999;">True</span><span class="p">],</span> <span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">),</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span><span class="mf" style="color: #099;">0.66</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;">-</span> <span class="mf" style="color: #099;">0.66</span><span class="p">])</span></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="python"><span class="n" style="color: #333;">binary_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="python"> <span class="p">[</span><span class="n" style="color: #333;">binary_data</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">),</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"bool"</span><span class="p">)]</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="python"><span class="p">)</span> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="python"><span class="n" style="color: #333;">sparse_spatial_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse</span><span class="p">.</span><span class="n" style="color: #333;">csr_matrix</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">binary_data</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="python"><span class="n" style="color: #333;">sparse_spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">sort_indices</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="python"><span class="n" style="color: #333;">sparse_binary_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse</span><span class="p">.</span><span class="n" style="color: #333;">csr_matrix</span><span class="p">(</span><span class="n" style="color: #333;">binary_data</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="python"><span class="n" style="color: #333;">sparse_binary_data</span><span class="p">.</span><span class="n" style="color: #333;">sort_indices</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">spatial_check</span><span class="p">(</span><span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.preprocessing</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">normalize</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">parametrize</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="python"> <span class="s" style="color: #d14;">"metric"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="python"> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="python"> <span class="s" style="color: #d14;">"manhattan"</span><span class="p">,</span></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="python"> <span class="s" style="color: #d14;">"chebyshev"</span><span class="p">,</span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"> <span class="s" style="color: #d14;">"minkowski"</span><span class="p">,</span></span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="python"> <span class="s" style="color: #d14;">"hamming"</span><span class="p">,</span></span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="python"> <span class="s" style="color: #d14;">"canberra"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="python"> <span class="s" style="color: #d14;">"braycurtis"</span><span class="p">,</span></span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="python"> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span></span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="python"> <span class="s" style="color: #d14;">"correlation"</span><span class="p">,</span></span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="python"> <span class="p">],</span></span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_spatial_check</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">metric</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># scipy is bad sometimes</span></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"braycurtis"</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -48,7 +51,21 @@ def spatial_check(metric):</td>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">binary_check</span><span class="p">(</span><span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">parametrize</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="python"> <span class="s" style="color: #d14;">"metric"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="python"> <span class="s" style="color: #d14;">"jaccard"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="python"> <span class="s" style="color: #d14;">"matching"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="python"> <span class="s" style="color: #d14;">"dice"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="python"> <span class="s" style="color: #d14;">"kulsinski"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="python"> <span class="s" style="color: #d14;">"rogerstanimoto"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="python"> <span class="s" style="color: #d14;">"russellrao"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="python"> <span class="s" style="color: #d14;">"sokalmichener"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="python"> <span class="s" style="color: #d14;">"sokalsneath"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="python"> <span class="s" style="color: #d14;">"yule"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="python"> <span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_binary_check</span><span class="p">(</span><span class="n" style="color: #333;">binary_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span><span class="n" style="color: #333;">binary_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">metric</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="s" style="color: #d14;">"jaccard"</span><span class="p">,</span> <span class="s" style="color: #d14;">"dice"</span><span class="p">,</span> <span class="s" style="color: #d14;">"sokalsneath"</span><span class="p">,</span> <span class="s" style="color: #d14;">"yule"</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span><span class="p">[</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">where</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">dist_matrix</span><span class="p">))]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -74,7 +91,21 @@ def binary_check(metric):</td>
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91
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_spatial_check</span><span class="p">(</span><span class="n" style="color: #333;">metric</span><span class="p">,</span> <span class="n" style="color: #333;">decimal</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">6</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">parametrize</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="python"> <span class="s" style="color: #d14;">"metric"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="python"> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="python"> <span class="s" style="color: #d14;">"manhattan"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="python"> <span class="s" style="color: #d14;">"chebyshev"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="python"> <span class="s" style="color: #d14;">"minkowski"</span><span class="p">,</span></span>
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101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="python"> <span class="s" style="color: #d14;">"hamming"</span><span class="p">,</span></span>
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102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="python"> <span class="s" style="color: #d14;">"canberra"</span><span class="p">,</span></span>
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103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="python"> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span></span>
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104
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="python"> <span class="s" style="color: #d14;">"braycurtis"</span><span class="p">,</span></span>
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105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="python"> <span class="s" style="color: #d14;">"correlation"</span><span class="p">,</span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="python"> <span class="p">],</span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="python"><span class="p">)</span></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_spatial_check</span><span class="p">(</span><span class="n" style="color: #333;">sparse_spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="p">,</span> <span class="n" style="color: #333;">decimal</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">6</span><span class="p">):</span></span>
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78
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109
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<pre style="margin: 0;"> <span id="LC109" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">spdist</span><span class="p">.</span><span class="n" style="color: #333;">sparse_named_distances</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">todense</span><span class="p">().</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">),</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">metric</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -127,10 +158,23 @@ def sparse_spatial_check(metric, decimal=6):</td>
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="python"> <span class="p">)</span></span>
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159
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<pre style="margin: 0;"> <span id="LC159" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC160" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_binary_check</span><span class="p">(</span><span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">parametrize</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="python"> <span class="s" style="color: #d14;">"metric"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="python"> <span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="python"> <span class="s" style="color: #d14;">"jaccard"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="python"> <span class="s" style="color: #d14;">"matching"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="python"> <span class="s" style="color: #d14;">"dice"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="python"> <span class="s" style="color: #d14;">"kulsinski"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="python"> <span class="s" style="color: #d14;">"rogerstanimoto"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="python"> <span class="s" style="color: #d14;">"russellrao"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="python"> <span class="s" style="color: #d14;">"sokalmichener"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="python"> <span class="s" style="color: #d14;">"sokalsneath"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="python"> <span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="python"><span class="p">)</span></span>
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174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_binary_check</span><span class="p">(</span><span class="n" style="color: #333;">sparse_binary_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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131
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175
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">spdist</span><span class="p">.</span><span class="n" style="color: #333;">sparse_named_distances</span><span class="p">:</span></span>
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176
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<pre style="margin: 0;"> <span id="LC176" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span><span class="n" style="color: #333;">sparse_binary_data</span><span class="p">.</span><span class="n" style="color: #333;">todense</span><span class="p">(),</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">metric</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC133" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="s" style="color: #d14;">"jaccard"</span><span class="p">,</span> <span class="s" style="color: #d14;">"dice"</span><span class="p">,</span> <span class="s" style="color: #d14;">"sokalsneath"</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">"yule"</span></span><span class="p">):</span></span>
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177
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="s" style="color: #d14;">"jaccard"</span><span class="p">,</span> <span class="s" style="color: #d14;">"dice"</span><span class="p">,</span> <span class="s" style="color: #d14;">"sokalsneath"</span><span class="p">):</span></span>
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178
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<pre style="margin: 0;"> <span id="LC178" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span><span class="p">[</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">where</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">dist_matrix</span><span class="p">))]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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179
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<pre style="margin: 0;"> <span id="LC179" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">metric</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="s" style="color: #d14;">"kulsinski"</span><span class="p">,</span> <span class="s" style="color: #d14;">"russellrao"</span><span class="p">):</span></span>
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136
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180
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<pre style="margin: 0;"> <span id="LC180" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span><span class="p">[</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">where</span><span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isfinite</span><span class="p">(</span><span class="n" style="color: #333;">dist_matrix</span><span class="p">))]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">1.0</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -178,147 +222,7 @@ def sparse_binary_check(metric):</td>
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<pre style="margin: 0;"> <span id="LC222" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC223" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC224" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC181" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_euclidean</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC182" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"euclidean"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC183" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC184" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC185" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_manhattan</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC186" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"manhattan"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC187" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC188" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC189" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_chebyshev</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC190" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"chebyshev"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC191" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC192" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC193" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_minkowski</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC194" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"minkowski"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC195" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC196" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC197" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_hamming</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC198" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"hamming"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC199" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC200" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC201" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_canberra</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC202" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"canberra"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC203" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC204" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC205" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_braycurtis</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC206" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"braycurtis"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC207" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC208" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC209" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_cosine</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC210" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"cosine"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC211" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC212" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC213" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_correlation</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC214" class="line" lang="python"> <span class="n" style="color: #333;">spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"correlation"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC215" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC216" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC217" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_jaccard</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC218" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"jaccard"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC219" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC220" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC221" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_matching</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC222" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"matching"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC223" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC224" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC225" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_dice</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC226" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"dice"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC227" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC228" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC229" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_kulsinski</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC230" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"kulsinski"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC231" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC232" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC233" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_rogerstanimoto</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC234" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"rogerstanimoto"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC235" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC236" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC237" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_russellrao</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC238" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"russellrao"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC239" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC240" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC241" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sokalmichener</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC242" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"sokalmichener"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC243" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC244" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC245" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sokalsneath</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC246" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"sokalsneath"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC247" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC248" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC249" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_yule</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC250" class="line" lang="python"> <span class="n" style="color: #333;">binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"yule"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC251" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC252" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC253" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_euclidean</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC254" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"euclidean"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC255" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC256" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC257" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_manhattan</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC258" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"manhattan"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC259" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC260" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC261" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_chebyshev</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC262" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"chebyshev"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC263" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC264" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC265" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_minkowski</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC266" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"minkowski"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC267" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC268" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC269" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_hamming</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC270" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"hamming"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC271" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC272" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC273" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_canberra</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC274" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"canberra"</span><span class="p">)</span> <span class="c1" style="color: #998; font-style: italic;"># Be a little forgiving</span></span>
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<pre style="margin: 0;">-<span id="LC275" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC276" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC277" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_cosine</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC278" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"cosine"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC279" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC280" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC281" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_correlation</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC282" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"correlation"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC283" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC284" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC285" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_jaccard</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC286" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"jaccard"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC287" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC288" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC289" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_matching</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC290" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"matching"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC291" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC292" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC293" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_dice</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC294" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"dice"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC295" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC296" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC297" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_kulsinski</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC298" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"kulsinski"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC299" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC300" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC301" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_rogerstanimoto</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC302" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"rogerstanimoto"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC303" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC304" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC305" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_russellrao</span><span class="p">():</span></span>
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306
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<pre style="margin: 0;">-<span id="LC306" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"russellrao"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC307" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC308" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC309" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_sokalmichener</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC310" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"sokalmichener"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC311" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC312" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC313" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_sokalsneath</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC314" class="line" lang="python"> <span class="n" style="color: #333;">sparse_binary_check</span><span class="p">(</span><span class="s" style="color: #d14;">"sokalsneath"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC315" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC316" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC317" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_braycurtis</span><span class="p">():</span></span>
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318
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<pre style="margin: 0;">-<span id="LC318" class="line" lang="python"> <span class="n" style="color: #333;">sparse_spatial_check</span><span class="p">(</span><span class="s" style="color: #d14;">"braycurtis"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC319" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC320" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC321" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_seuclidean</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_seuclidean</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">randn</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"seuclidean"</span><span class="p">,</span> <span class="n" style="color: #333;">V</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">v</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC228" class="line" lang="python"> <span class="n" style="color: #333;">test_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -337,7 +241,7 @@ def test_seuclidean():</td>
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<pre style="margin: 0;"> <span id="LC241" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC242" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC243" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC340" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_weighted_minkowski</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_weighted_minkowski</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">spatial_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC245" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">abs</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">randn</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"wminkowski"</span><span class="p">,</span> <span class="n" style="color: #333;">w</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">v</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">3</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC247" class="line" lang="python"> <span class="n" style="color: #333;">test_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -356,7 +260,7 @@ def test_weighted_minkowski():</td>
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<pre style="margin: 0;"> <span id="LC260" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC359" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_mahalanobis</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC263" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_mahalanobis</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">spatial_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC264" class="line" lang="python"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">cov</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">transpose</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC265" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pairwise_distances</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"mahalanobis"</span><span class="p">,</span> <span class="n" style="color: #333;">VI</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">v</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC266" class="line" lang="python"> <span class="n" style="color: #333;">test_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -375,7 +279,7 @@ def test_mahalanobis():</td>
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279
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<pre style="margin: 0;"> <span id="LC279" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC280" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC281" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC378" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_haversine</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_haversine</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">spatial_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC283" class="line" lang="python"> <span class="n" style="color: #333;">tree</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BallTree</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">[:,</span> <span class="p">:</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"haversine"</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC284" class="line" lang="python"> <span class="n" style="color: #333;">dist_matrix</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tree</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">[:,</span> <span class="p">:</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">])</span></span>
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<pre style="margin: 0;"> <span id="LC285" class="line" lang="python"> <span class="n" style="color: #333;">test_matrix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -422,3 +326,69 @@ def test_alternative_distances():</td>
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<pre style="margin: 0;"> <span id="LC326" class="line" lang="python"> <span class="n" style="color: #333;">corrected_alt_distance</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">correction</span><span class="p">(</span><span class="n" style="color: #333;">alt_dist</span><span class="p">(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC327" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC328" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isclose</span><span class="p">(</span><span class="n" style="color: #333;">true_distance</span><span class="p">,</span> <span class="n" style="color: #333;">corrected_alt_distance</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC329" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC330" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC331" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_jensen_shannon</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC332" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">(</span><span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC333" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l1"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC335" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">test_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC336" class="line" lang="python"> <span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">])</span> <span class="o" style="font-weight: 600;">/</span> <span class="mf" style="color: #099;">2.0</span></span>
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<pre style="margin: 0;">+<span id="LC337" class="line" lang="python"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC338" class="line" lang="python"> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC339" class="line" lang="python"> <span class="n" style="color: #333;">d1</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="python"> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">m</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC341" class="line" lang="python"> <span class="o" style="font-weight: 600;">+</span> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">))</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">q</span><span class="p">)))</span> <span class="o" style="font-weight: 600;">/</span> <span class="mf" style="color: #099;">2.0</span></span>
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<pre style="margin: 0;">+<span id="LC342" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC343" class="line" lang="python"> <span class="n" style="color: #333;">d2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">.</span><span class="n" style="color: #333;">jensen_shannon_divergence</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">q</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC344" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isclose</span><span class="p">(</span><span class="n" style="color: #333;">d1</span><span class="p">,</span> <span class="n" style="color: #333;">d2</span><span class="p">,</span> <span class="n" style="color: #333;">rtol</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-4</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC345" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC346" class="line" lang="python"></span>
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347
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<pre style="margin: 0;">+<span id="LC347" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_jensen_shannon</span><span class="p">():</span></span>
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348
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<pre style="margin: 0;">+<span id="LC348" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">(</span><span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC349" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># sparsify</span></span>
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350
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<pre style="margin: 0;">+<span id="LC350" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;"><=</span> <span class="mf" style="color: #099;">0.5</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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351
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<pre style="margin: 0;">+<span id="LC351" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">csr_matrix</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">)</span></span>
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352
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<pre style="margin: 0;">+<span id="LC352" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">sparse_test_data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l1"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC353" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l1"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC354" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC355" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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356
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">test_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC357" class="line" lang="python"> <span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">])</span> <span class="o" style="font-weight: 600;">/</span> <span class="mf" style="color: #099;">2.0</span></span>
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<pre style="margin: 0;">+<span id="LC358" class="line" lang="python"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC359" class="line" lang="python"> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC360" class="line" lang="python"> <span class="n" style="color: #333;">d1</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC361" class="line" lang="python"> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">m</span><span class="p">[</span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">m</span><span class="p">[</span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">]))</span></span>
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<pre style="margin: 0;">+<span id="LC362" class="line" lang="python"> <span class="o" style="font-weight: 600;">+</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC363" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">[</span><span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">[</span><span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">]))</span></span>
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<pre style="margin: 0;">+<span id="LC364" class="line" lang="python"> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">q</span><span class="p">[</span><span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">log</span><span class="p">(</span><span class="n" style="color: #333;">q</span><span class="p">[</span><span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">]))</span></span>
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<pre style="margin: 0;">+<span id="LC365" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC366" class="line" lang="python"> <span class="o" style="font-weight: 600;">/</span> <span class="mf" style="color: #099;">2.0</span></span>
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<pre style="margin: 0;">+<span id="LC367" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC368" class="line" lang="python"> <span class="n" style="color: #333;">d2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">spdist</span><span class="p">.</span><span class="n" style="color: #333;">sparse_jensen_shannon_divergence</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC369" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">indices</span><span class="p">,</span></span>
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370
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<pre style="margin: 0;">+<span id="LC370" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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371
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<pre style="margin: 0;">+<span id="LC371" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">indices</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC372" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC373" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC374" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isclose</span><span class="p">(</span><span class="n" style="color: #333;">d1</span><span class="p">,</span> <span class="n" style="color: #333;">d2</span><span class="p">,</span> <span class="n" style="color: #333;">rtol</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">1e-3</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC375" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC376" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC377" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">parametrize</span><span class="p">(</span><span class="s" style="color: #d14;">"p"</span><span class="p">,</span> <span class="p">[</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">0.5</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC378" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_wasserstein_1d</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC379" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">(</span><span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC380" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># sparsify</span></span>
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<pre style="margin: 0;">+<span id="LC381" class="line" lang="python"> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">test_data</span> <span class="o" style="font-weight: 600;"><=</span> <span class="mf" style="color: #099;">0.5</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">+<span id="LC382" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">csr_matrix</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">)</span></span>
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383
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<pre style="margin: 0;">+<span id="LC383" class="line" lang="python"></span>
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384
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<pre style="margin: 0;">+<span id="LC384" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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385
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<pre style="margin: 0;">+<span id="LC385" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">j</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">test_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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386
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="python"> <span class="n" style="color: #333;">d1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">.</span><span class="n" style="color: #333;">wasserstein_1d</span><span class="p">(</span><span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">],</span> <span class="n" style="color: #333;">p</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC387" class="line" lang="python"> <span class="n" style="color: #333;">d2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">spdist</span><span class="p">.</span><span class="n" style="color: #333;">sparse_wasserstein_1d</span><span class="p">(</span></span>
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388
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<pre style="margin: 0;">+<span id="LC388" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">indices</span><span class="p">,</span></span>
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389
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<pre style="margin: 0;">+<span id="LC389" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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390
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<pre style="margin: 0;">+<span id="LC390" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">indices</span><span class="p">,</span></span>
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391
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<pre style="margin: 0;">+<span id="LC391" class="line" lang="python"> <span class="n" style="color: #333;">sparse_test_data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC392" class="line" lang="python"> <span class="n" style="color: #333;">p</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC393" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC394" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">isclose</span><span class="p">(</span><span class="n" style="color: #333;">d1</span><span class="p">,</span> <span class="n" style="color: #333;">d2</span><span class="p">)</span></span></pre>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#5f98067e4e19540c775b7312cd847ca28c53ff43"><strong>pynndescent/tests/test_pynndescent_.py</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">os</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">io</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">re</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pytest</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">contextlib</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">redirect_stdout</span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">nose.tools</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">,</span> <span class="n" style="color: #333;">assert_true</span><span class="p">,</span> <span class="n" style="color: #333;">assert_equal</span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">nose</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">SkipTest</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">scipy</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">sparse</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.neighbors</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">KDTree</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.neighbors</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">NearestNeighbors</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">sklearn.preprocessing</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">normalize</span></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pickle</span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">joblib</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">scipy</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">,</span> <span class="n" style="color: #333;">PyNNDescentTransformer</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="python"><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">seed</span><span class="p">(</span><span class="mi" style="color: #099;">42</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="python"><span class="n" style="color: #333;">spatial_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">randn</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="python"><span class="n" style="color: #333;">spatial_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="python"> <span class="p">[</span><span class="n" style="color: #333;">spatial_data</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">20</span><span class="p">))]</span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="python"><span class="p">)</span> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="python"><span class="n" style="color: #333;">nn_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">uniform</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">size</span><span class="o" style="font-weight: 600;">=</span><span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="python"><span class="n" style="color: #333;">nn_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">vstack</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="python"> <span class="p">[</span><span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">zeros</span><span class="p">((</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">))]</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="python"><span class="p">)</span> <span class="c1" style="color: #998; font-style: italic;"># Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># for_sparse_nn_data = np.random.uniform(0, 1, size=(1002, 500))</span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># binary_nn_data = np.random.choice(a=[False, True], size=(1000, 500), p=[0.1, 1 - 0.1])</span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># binary_nn_data = np.vstack(</span></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># [binary_nn_data, np.zeros((2, 500))]</span></span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># ) # Add some all zero graph_data for corner case test</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># sparse_nn_data = sparse.csr_matrix(for_sparse_nn_data * binary_nn_data)</span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="python"><span class="n" style="color: #333;">sparse_nn_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sparse</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">,</span> <span class="n" style="color: #333;">density</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.5</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">format</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"csr"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># sparse_nn_data = sparse.csr_matrix(nn_data)</span></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_nn_descent_neighbor_accuracy</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_nn_descent_neighbor_accuracy</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="n" style="color: #333;">seed</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="python"> <span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="python"> <span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p"><span class="idiff left">.</span></span><span class="n" style="color: #333;"><span class="idiff">RandomState</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">seed</span></span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="python"> <span class="n" style="color: #333;">tree</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">KDTree</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -49,16 +28,14 @@ def test_nn_descent_neighbor_accuracy():</td>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="python"> <span class="mf" style="color: #099;">0.98</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 99% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.98</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 99% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_angular_nn_descent_neighbor_accuracy</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_angular_nn_descent_neighbor_accuracy</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">nn_data</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">seed</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="python"> <span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="python"> <span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p"><span class="idiff left">.</span></span><span class="n" style="color: #333;"><span class="idiff">RandomState</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">seed</span></span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="python"> <span class="n" style="color: #333;">angular_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l2"</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -70,14 +47,16 @@ def test_angular_nn_descent_neighbor_accuracy():</td>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="python"> <span class="mf" style="color: #099;">0.98</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 99% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.98</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 99% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_nn_descent_neighbor_accuracy</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">skipif</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="python"> <span class="nb" style="color: #0086b3;">list</span><span class="p">(</span><span class="nb" style="color: #0086b3;">map</span><span class="p">(</span><span class="nb" style="color: #0086b3;">int</span><span class="p">,</span> <span class="n" style="color: #333;">scipy</span><span class="p">.</span><span class="n" style="color: #333;">version</span><span class="p">.</span><span class="n" style="color: #333;">version</span><span class="p">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">"."</span><span class="p">)))</span> <span class="o" style="font-weight: 600;"><</span> <span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="python"> <span class="n" style="color: #333;">reason</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"requires scipy >= 1.3.0"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_nn_descent_neighbor_accuracy</span><span class="p">(</span><span class="n" style="color: #333;">sparse_nn_data</span><span class="p">,</span> <span class="n" style="color: #333;">seed</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC61" class="line" lang="python"> <span class="n" style="color: #333;">sparse_nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">20</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span></span>
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -90,14 +69,16 @@ def test_sparse_nn_descent_neighbor_accuracy():</td>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">sparse_nn_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="python"> <span class="mf" style="color: #099;">0.85</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse NN-descent did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.85</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse NN-descent did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC76" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_angular_nn_descent_neighbor_accuracy</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">skipif</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="python"> <span class="nb" style="color: #0086b3;">list</span><span class="p">(</span><span class="nb" style="color: #0086b3;">map</span><span class="p">(</span><span class="nb" style="color: #0086b3;">int</span><span class="p">,</span> <span class="n" style="color: #333;">scipy</span><span class="p">.</span><span class="n" style="color: #333;">version</span><span class="p">.</span><span class="n" style="color: #333;">version</span><span class="p">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">"."</span><span class="p">)))</span> <span class="o" style="font-weight: 600;"><</span> <span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC79" class="line" lang="python"> <span class="n" style="color: #333;">reason</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"requires scipy >= 1.3.0"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_angular_nn_descent_neighbor_accuracy</span><span class="p">(</span><span class="n" style="color: #333;">sparse_nn_data</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="python"> <span class="n" style="color: #333;">sparse_nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">20</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span></span>
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -111,14 +92,12 @@ def test_sparse_angular_nn_descent_neighbor_accuracy():</td>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">sparse_nn_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC116" class="line" lang="python"> <span class="mf" style="color: #099;">0.85</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse angular NN-descent did not get 98% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.85</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse angular NN-descent did not get 98% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_nn_descent_query_accuracy</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_nn_descent_query_accuracy</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">nn_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="python"> <span class="n" style="color: #333;">nnd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">[</span><span class="mi" style="color: #099;">200</span><span class="p">:],</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">nnd</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">[:</span><span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC103" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -130,14 +109,12 @@ def test_nn_descent_query_accuracy():</td>
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<pre style="margin: 0;"> <span id="LC109" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC133" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC135" class="line" lang="python"> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC136" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_nn_descent_query_accuracy_angular</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_nn_descent_query_accuracy_angular</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">nn_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="python"> <span class="n" style="color: #333;">nnd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">[</span><span class="mi" style="color: #099;">200</span><span class="p">:],</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">30</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">nnd</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">nn_data</span><span class="p">[:</span><span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.32</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -149,14 +126,12 @@ def test_nn_descent_query_accuracy_angular():</td>
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<pre style="margin: 0;"> <span id="LC126" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC127" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC152" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="python"> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC129" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC132" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC159" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_nn_descent_query_accuracy</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_nn_descent_query_accuracy</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">sparse_nn_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="python"> <span class="n" style="color: #333;">nnd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="python"> <span class="n" style="color: #333;">sparse_nn_data</span><span class="p">[</span><span class="mi" style="color: #099;">200</span><span class="p">:],</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">15</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span></span>
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<pre style="margin: 0;"> <span id="LC137" class="line" lang="python"> <span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -170,14 +145,12 @@ def test_sparse_nn_descent_query_accuracy():</td>
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<pre style="margin: 0;"> <span id="LC145" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC146" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC147" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC173" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC174" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC175" class="line" lang="python"> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC176" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC180" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_nn_descent_query_accuracy_angular</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_sparse_nn_descent_query_accuracy_angular</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">sparse_nn_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="python"> <span class="n" style="color: #333;">nnd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span><span class="n" style="color: #333;">sparse_nn_data</span><span class="p">[</span><span class="mi" style="color: #099;">200</span><span class="p">:],</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">50</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">nnd</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">sparse_nn_data</span><span class="p">[:</span><span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">epsilon</span><span class="o" style="font-weight: 600;">=</span><span class="mf" style="color: #099;">0.36</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -191,14 +164,12 @@ def test_sparse_nn_descent_query_accuracy_angular():</td>
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<pre style="margin: 0;"> <span id="LC164" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC165" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC166" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC194" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC195" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC196" class="line" lang="python"> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC197" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="python"> <span class="s" style="color: #d14;">"Sparse NN-descent query did not get 95% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC169" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC201" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_transformer_equivalence</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_transformer_equivalence</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">nn_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC173" class="line" lang="python"> <span class="n" style="color: #333;">N_NEIGHBORS</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">15</span></span>
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<pre style="margin: 0;"> <span id="LC174" class="line" lang="python"> <span class="n" style="color: #333;">EPSILON</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.15</span></span>
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="python"> <span class="n" style="color: #333;">train</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">nn_data</span><span class="p">[:</span><span class="mi" style="color: #099;">400</span><span class="p">]</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -225,7 +196,7 @@ def test_transformer_equivalence():</td>
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<pre style="margin: 0;"> <span id="LC196" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">allclose</span><span class="p">(</span><span class="n" style="color: #333;">Xt</span><span class="p">.</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">dists_sorted</span><span class="p">.</span><span class="n" style="color: #333;">flat</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC228" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_random_state_none</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC199" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_random_state_none</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">nn_data</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">spatial_data</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC200" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"> <span class="n" style="color: #333;">nn_data</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span></span>
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<pre style="margin: 0;"> <span id="LC202" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -238,10 +209,8 @@ def test_random_state_none():</td>
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<pre style="margin: 0;"> <span id="LC209" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC210" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC211" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC241" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC242" class="line" lang="python"> <span class="n" style="color: #333;">percent_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC243" class="line" lang="python"> <span class="mf" style="color: #099;">0.99</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC244" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 99% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">percent_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.99</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 99% "</span> <span class="s" style="color: #d14;">"accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC214" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -265,42 +234,44 @@ def test_deterministic():</td>
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<pre style="margin: 0;"> <span id="LC234" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># https://github.com/lmcinnes/umap/issues/99</span></span>
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<pre style="margin: 0;"> <span id="LC235" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># graph_data used is a cut-down version of that provided by @scharron</span></span>
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<pre style="margin: 0;"> <span id="LC236" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># It contains lots of all-zero vectors and some other duplicates</span></span>
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<pre style="margin: 0;">-<span id="LC268" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_rp_trees_should_not_stack_overflow_with_duplicate_data</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC269" class="line" lang="python"> <span class="n" style="color: #333;">this_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">dirname</span><span class="p">(</span><span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">abspath</span><span class="p">(</span><span class="n" style="color: #333;">__file__</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC270" class="line" lang="python"> <span class="n" style="color: #333;">data_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">this_dir</span><span class="p">,</span> <span class="s" style="color: #d14;">"test_data/cosine_hang.npy"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC271" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">data_path</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC237" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_rp_trees_should_not_stack_overflow_with_duplicate_data</span><span class="p">(</span><span class="n" style="color: #333;">seed</span><span class="p">,</span> <span class="n" style="color: #333;">cosine_hang_data</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC238" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC239" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">10</span></span>
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<pre style="margin: 0;"> <span id="LC240" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC275" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="p">{},</span> <span class="n" style="color: #333;">n_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">,</span> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">20</span></span>
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<pre style="margin: 0;">+<span id="LC241" class="line" lang="python"> <span class="n" style="color: #333;">cosine_hang_data</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC242" class="line" lang="python"> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="python"> <span class="p">{},</span></span>
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC245" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">RandomState</span><span class="p">(</span><span class="n" style="color: #333;">seed</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC246" class="line" lang="python"> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">20</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC247" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<pre style="margin: 0;"> <span id="LC248" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC278" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">-<span id="LC279" class="line" lang="python"> <span class="n" style="color: #333;">assert_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC280" class="line" lang="python"> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]),</span></span>
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<pre style="margin: 0;">-<span id="LC281" class="line" lang="python"> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">unique</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])),</span></span>
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<pre style="margin: 0;">-<span id="LC282" class="line" lang="python"> <span class="s" style="color: #d14;">"Duplicate graph_indices in knn graph"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC283" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC249" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">cosine_hang_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">+<span id="LC250" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC251" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">unique</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC252" class="line" lang="python"> <span class="p">),</span> <span class="s" style="color: #d14;">"Duplicate graph_indices in knn graph"</span></span>
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<pre style="margin: 0;">+<span id="LC253" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC254" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_deduplicated_data_behaves_normally</span><span class="p">(</span><span class="n" style="color: #333;">seed</span><span class="p">,</span> <span class="n" style="color: #333;">cosine_hang_data</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC256" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC286" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_deduplicated_data_behaves_normally</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC287" class="line" lang="python"> <span class="n" style="color: #333;">this_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">dirname</span><span class="p">(</span><span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">abspath</span><span class="p">(</span><span class="n" style="color: #333;">__file__</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC288" class="line" lang="python"> <span class="n" style="color: #333;">data_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">this_dir</span><span class="p">,</span> <span class="s" style="color: #d14;">"test_data/cosine_hang.npy"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC289" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">unique</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">data_path</span><span class="p">),</span> <span class="n" style="color: #333;">axis</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC257" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">unique</span><span class="p">(</span><span class="n" style="color: #333;">cosine_hang_data</span><span class="p">,</span> <span class="n" style="color: #333;">axis</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="p">[</span><span class="o" style="font-weight: 600;">~</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">all</span><span class="p">(</span><span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">axis</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">)]</span></span>
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<pre style="margin: 0;"> <span id="LC259" class="line" lang="python"> <span class="n" style="color: #333;">data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="p">[:</span><span class="mi" style="color: #099;">1000</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC260" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">10</span></span>
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="python"> <span class="n" style="color: #333;">knn_indices</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC295" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span> <span class="p">{},</span> <span class="n" style="color: #333;">n_neighbors</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">,</span> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">20</span></span>
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<pre style="margin: 0;">+<span id="LC263" class="line" lang="python"> <span class="n" style="color: #333;">data</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC264" class="line" lang="python"> <span class="s" style="color: #d14;">"cosine"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC265" class="line" lang="python"> <span class="p">{},</span></span>
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<pre style="margin: 0;">+<span id="LC266" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span><span class="p">,</span></span>
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267
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<pre style="margin: 0;">+<span id="LC267" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">.</span><span class="n" style="color: #333;">RandomState</span><span class="p">(</span><span class="n" style="color: #333;">seed</span><span class="p">),</span></span>
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268
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<pre style="margin: 0;">+<span id="LC268" class="line" lang="python"> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">20</span><span class="p">,</span></span>
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296
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269
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<pre style="margin: 0;"> <span id="LC269" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">_neighbor_graph</span></span>
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<pre style="margin: 0;"> <span id="LC270" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC271" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">-<span id="LC299" class="line" lang="python"> <span class="n" style="color: #333;">assert_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC300" class="line" lang="python"> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]),</span></span>
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<pre style="margin: 0;">-<span id="LC301" class="line" lang="python"> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">unique</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])),</span></span>
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<pre style="margin: 0;">-<span id="LC302" class="line" lang="python"> <span class="s" style="color: #d14;">"Duplicate graph_indices in knn graph"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC303" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC272" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC273" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">unique</span><span class="p">(</span><span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="python"> <span class="p">),</span> <span class="s" style="color: #d14;">"Duplicate graph_indices in knn graph"</span></span>
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<pre style="margin: 0;"> <span id="LC275" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC276" class="line" lang="python"> <span class="n" style="color: #333;">angular_data</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">normalize</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">norm</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"l2"</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC277" class="line" lang="python"> <span class="n" style="color: #333;">tree</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">KDTree</span><span class="p">(</span><span class="n" style="color: #333;">angular_data</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -311,14 +282,12 @@ def test_deduplicated_data_behaves_normally():</td>
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<pre style="margin: 0;"> <span id="LC282" class="line" lang="python"> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="nb" style="color: #0086b3;">sum</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">in1d</span><span class="p">(</span><span class="n" style="color: #333;">true_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">knn_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC283" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC284" class="line" lang="python"> <span class="n" style="color: #333;">proportion_correct</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">num_correct</span> <span class="o" style="font-weight: 600;">/</span> <span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n_neighbors</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC314" class="line" lang="python"> <span class="n" style="color: #333;">assert_greater_equal</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC315" class="line" lang="python"> <span class="n" style="color: #333;">proportion_correct</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC316" class="line" lang="python"> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC317" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 95%"</span> <span class="s" style="color: #d14;">" accuracy on nearest neighbors"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC285" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span> <span class="n" style="color: #333;">proportion_correct</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mf" style="color: #099;">0.95</span><span class="p">,</span> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC286" class="line" lang="python"> <span class="s" style="color: #d14;">"NN-descent did not get 95%"</span> <span class="s" style="color: #d14;">" accuracy on nearest neighbors"</span></span>
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<pre style="margin: 0;"> <span id="LC287" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC288" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC289" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC321" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_output_when_verbose_is_true</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC290" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_output_when_verbose_is_true</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">spatial_data</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">seed</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC291" class="line" lang="python"> <span class="n" style="color: #333;">out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">StringIO</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC292" class="line" lang="python"> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">redirect_stdout</span><span class="p">(</span><span class="n" style="color: #333;">out</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC293" class="line" lang="python"> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -326,17 +295,17 @@ def test_output_when_verbose_is_true():</td>
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<pre style="margin: 0;"> <span id="LC295" class="line" lang="python"> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC296" class="line" lang="python"> <span class="n" style="color: #333;">metric_kwds</span><span class="o" style="font-weight: 600;">=</span><span class="p">{},</span></span>
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<pre style="margin: 0;"> <span id="LC297" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">4</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC329" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC298" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p"><span class="idiff left">.</span></span><span class="n" style="color: #333;"><span class="idiff">RandomState</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">seed</span></span><span class="p"><span class="idiff right">)</span>,</span></span>
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<pre style="margin: 0;"> <span id="LC299" class="line" lang="python"> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">5</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC300" class="line" lang="python"> <span class="n" style="color: #333;">n_iters</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC301" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC302" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC303" class="line" lang="python"> <span class="n" style="color: #333;">output</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">out</span><span class="p">.</span><span class="n" style="color: #333;">getvalue</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC335" class="line" lang="python"> <span class="n" style="color: #333;">assert<span class="idiff left">_true</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*5 trees"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)<span class="idiff right">)</span></span></span>
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<pre style="margin: 0;">-<span id="LC336" class="line" lang="python"> <span class="n" style="color: #333;">assert<span class="idiff left">_true</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*2 iterations"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)<span class="idiff right">)</span></span></span>
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="idiff left right"> </span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*5 trees"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC305" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="idiff left right"> </span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*2 iterations"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC306" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC307" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC339" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_no_output_when_verbose_is_false</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC308" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_no_output_when_verbose_is_false</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">spatial_data</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">seed</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC309" class="line" lang="python"> <span class="n" style="color: #333;">out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">StringIO</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC310" class="line" lang="python"> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">redirect_stdout</span><span class="p">(</span><span class="n" style="color: #333;">out</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="python"> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -344,48 +313,48 @@ def test_no_output_when_verbose_is_false():</td>
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="python"> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC314" class="line" lang="python"> <span class="n" style="color: #333;">metric_kwds</span><span class="o" style="font-weight: 600;">=</span><span class="p">{},</span></span>
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<pre style="margin: 0;"> <span id="LC315" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">4</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC347" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC316" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p"><span class="idiff left">.</span></span><span class="n" style="color: #333;"><span class="idiff">RandomState</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">seed</span></span><span class="p"><span class="idiff right">)</span>,</span></span>
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<pre style="margin: 0;"> <span id="LC317" class="line" lang="python"> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">5</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC318" class="line" lang="python"> <span class="n" style="color: #333;">n_iters</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC319" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC320" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC321" class="line" lang="python"> <span class="n" style="color: #333;">output</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">out</span><span class="p">.</span><span class="n" style="color: #333;">getvalue</span><span class="p">().</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC353" class="line" lang="python"> <span class="n" style="color: #333;">assert<span class="idiff left">_equal</span></span><span class="p"><span class="idiff">(</span></span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">output</span><span class="p">)<span class="idiff">,</span></span> <span class="mi" style="color: #099;">0</span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;">+<span id="LC322" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="idiff left"> </span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">output</span><span class="p">)</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff right">==</span></span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;"> <span id="LC323" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC324" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC325" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># same as the previous two test, but this time using the PyNNDescentTransformer</span></span>
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<pre style="margin: 0;"> <span id="LC326" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># interface</span></span>
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<pre style="margin: 0;">-<span id="LC358" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_transformer_output_when_verbose_is_true</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC327" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_transformer_output_when_verbose_is_true</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">spatial_data</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">seed</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC328" class="line" lang="python"> <span class="n" style="color: #333;">out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">StringIO</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC329" class="line" lang="python"> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">redirect_stdout</span><span class="p">(</span><span class="n" style="color: #333;">out</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC330" class="line" lang="python"> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyNNDescentTransformer</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC331" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">4</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC332" class="line" lang="python"> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC333" class="line" lang="python"> <span class="n" style="color: #333;">metric_kwds</span><span class="o" style="font-weight: 600;">=</span><span class="p">{},</span></span>
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<pre style="margin: 0;">-<span id="LC365" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p"><span class="idiff left">.</span></span><span class="n" style="color: #333;"><span class="idiff">RandomState</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">seed</span></span><span class="p"><span class="idiff right">)</span>,</span></span>
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<pre style="margin: 0;"> <span id="LC335" class="line" lang="python"> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">5</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC336" class="line" lang="python"> <span class="n" style="color: #333;">n_iters</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC337" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC338" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">fit_transform</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC339" class="line" lang="python"> <span class="n" style="color: #333;">output</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">out</span><span class="p">.</span><span class="n" style="color: #333;">getvalue</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC371" class="line" lang="python"> <span class="n" style="color: #333;">assert<span class="idiff left">_true</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*5 trees"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)<span class="idiff right">)</span></span></span>
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<pre style="margin: 0;">-<span id="LC372" class="line" lang="python"> <span class="n" style="color: #333;">assert<span class="idiff left">_true</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*2 iterations"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)<span class="idiff right">)</span></span></span>
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="idiff left right"> </span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*5 trees"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC341" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="idiff left right"> </span><span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="s" style="color: #d14;">"^.*2 iterations"</span><span class="p">,</span> <span class="n" style="color: #333;">output</span><span class="p">,</span> <span class="n" style="color: #333;">re</span><span class="p">.</span><span class="n" style="color: #333;">DOTALL</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC342" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC343" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC375" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_transformer_output_when_verbose_is_false</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC344" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_transformer_output_when_verbose_is_false</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">spatial_data</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">seed</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC345" class="line" lang="python"> <span class="n" style="color: #333;">out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">StringIO</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC346" class="line" lang="python"> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">redirect_stdout</span><span class="p">(</span><span class="n" style="color: #333;">out</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC347" class="line" lang="python"> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyNNDescentTransformer</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC348" class="line" lang="python"> <span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">4</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC349" class="line" lang="python"> <span class="n" style="color: #333;">metric</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"standardised_euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC350" class="line" lang="python"> <span class="n" style="color: #333;">metric_kwds</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"sigma"</span><span class="p">:</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">ones</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">])},</span></span>
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<pre style="margin: 0;">-<span id="LC382" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC351" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">random</span><span class="p"><span class="idiff left">.</span></span><span class="n" style="color: #333;"><span class="idiff">RandomState</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">seed</span></span><span class="p"><span class="idiff right">)</span>,</span></span>
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<pre style="margin: 0;"> <span id="LC352" class="line" lang="python"> <span class="n" style="color: #333;">n_trees</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">5</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC353" class="line" lang="python"> <span class="n" style="color: #333;">n_iters</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC354" class="line" lang="python"> <span class="n" style="color: #333;">verbose</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC355" class="line" lang="python"> <span class="p">).</span><span class="n" style="color: #333;">fit_transform</span><span class="p">(</span><span class="n" style="color: #333;">spatial_data</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC356" class="line" lang="python"> <span class="n" style="color: #333;">output</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">out</span><span class="p">.</span><span class="n" style="color: #333;">getvalue</span><span class="p">().</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC388" class="line" lang="python"> <span class="n" style="color: #333;">assert<span class="idiff left">_equal</span></span><span class="p"><span class="idiff">(</span></span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">output</span><span class="p">)<span class="idiff">,</span></span> <span class="mi" style="color: #099;">0</span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;">+<span id="LC357" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="idiff left"> </span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">output</span><span class="p">)</span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff right">==</span></span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;"> <span id="LC358" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC359" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC360" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_pickle_unpickle</span><span class="p">():</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -394,18 +363,13 @@ def test_pickle_unpickle():</td>
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<pre style="margin: 0;"> <span id="LC363" class="line" lang="python"> <span class="n" style="color: #333;">x1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seed</span><span class="p">.</span><span class="n" style="color: #333;">normal</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC364" class="line" lang="python"> <span class="n" style="color: #333;">x2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seed</span><span class="p">.</span><span class="n" style="color: #333;">normal</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC397" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC398" class="line" lang="python"> <span class="n" style="color: #333;">x1</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC399" class="line" lang="python"> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC400" class="line" lang="python"> <span class="p">{},</span></span>
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<pre style="margin: 0;">-<span id="LC401" class="line" lang="python"> <span class="mi" style="color: #099;">10</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC402" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC403" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC366" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span><span class="n" style="color: #333;">x1</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC367" class="line" lang="python"> <span class="n" style="color: #333;">neighbors1</span><span class="p">,</span> <span class="n" style="color: #333;">distances1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index1</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC368" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC406" class="line" lang="python"> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">,</span> <span class="s" style="color: #d14;">"wb"</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC407" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">,</span> <span class="s" style="color: #d14;">"rb"</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC408" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC369" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">BytesIO</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC370" class="line" lang="python"> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC371" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span><span class="p">.</span><span class="n" style="color: #333;">seek</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC372" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC373" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC374" class="line" lang="python"> <span class="n" style="color: #333;">neighbors2</span><span class="p">,</span> <span class="n" style="color: #333;">distances2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index2</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC375" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -419,19 +383,13 @@ def test_compressed_pickle_unpickle():</td>
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<pre style="margin: 0;"> <span id="LC383" class="line" lang="python"> <span class="n" style="color: #333;">x1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seed</span><span class="p">.</span><span class="n" style="color: #333;">normal</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC384" class="line" lang="python"> <span class="n" style="color: #333;">x2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seed</span><span class="p">.</span><span class="n" style="color: #333;">normal</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC385" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC422" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC423" class="line" lang="python"> <span class="n" style="color: #333;">x1</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC424" class="line" lang="python"> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC425" class="line" lang="python"> <span class="p">{},</span></span>
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<pre style="margin: 0;">-<span id="LC426" class="line" lang="python"> <span class="mi" style="color: #099;">10</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC427" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC428" class="line" lang="python"> <span class="n" style="color: #333;">compressed</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC429" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span><span class="n" style="color: #333;">x1</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span> <span class="n" style="color: #333;">compressed</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC387" class="line" lang="python"> <span class="n" style="color: #333;">neighbors1</span><span class="p">,</span> <span class="n" style="color: #333;">distances1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index1</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC388" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC432" class="line" lang="python"> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">,</span> <span class="s" style="color: #d14;">"wb"</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC433" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">,</span> <span class="s" style="color: #d14;">"rb"</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC434" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC389" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">BytesIO</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC390" class="line" lang="python"> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC391" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span><span class="p">.</span><span class="n" style="color: #333;">seek</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC392" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC393" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC394" class="line" lang="python"> <span class="n" style="color: #333;">neighbors2</span><span class="p">,</span> <span class="n" style="color: #333;">distances2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index2</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC395" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="448" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="406" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -448,9 +406,10 @@ def test_transformer_pickle_unpickle():</td>
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406
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<pre style="margin: 0;"> <span id="LC406" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyNNDescentTransformer</span><span class="p">(</span><span class="n" style="color: #333;">n_neighbors</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">10</span><span class="p">).</span><span class="n" style="color: #333;">fit</span><span class="p">(</span><span class="n" style="color: #333;">x1</span><span class="p">)</span></span>
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449
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407
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<pre style="margin: 0;"> <span id="LC407" class="line" lang="python"> <span class="n" style="color: #333;">result1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index1</span><span class="p">.</span><span class="n" style="color: #333;">transform</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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408
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<pre style="margin: 0;"> <span id="LC408" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC451" class="line" lang="python"> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">,</span> <span class="s" style="color: #d14;">"wb"</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC452" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">,</span> <span class="s" style="color: #d14;">"rb"</span><span class="p">))</span></span>
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<pre style="margin: 0;">-<span id="LC453" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.pkl"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC409" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">BytesIO</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC410" class="line" lang="python"> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC411" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span><span class="p">.</span><span class="n" style="color: #333;">seek</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC412" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pickle</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC413" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC414" class="line" lang="python"> <span class="n" style="color: #333;">result2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index2</span><span class="p">.</span><span class="n" style="color: #333;">transform</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC415" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -464,18 +423,13 @@ def test_joblib_dump():</td>
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<pre style="margin: 0;"> <span id="LC423" class="line" lang="python"> <span class="n" style="color: #333;">x1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seed</span><span class="p">.</span><span class="n" style="color: #333;">normal</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC424" class="line" lang="python"> <span class="n" style="color: #333;">x2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seed</span><span class="p">.</span><span class="n" style="color: #333;">normal</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="p">(</span><span class="mi" style="color: #099;">1000</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC425" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC467" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC468" class="line" lang="python"> <span class="n" style="color: #333;">x1</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC469" class="line" lang="python"> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC470" class="line" lang="python"> <span class="p">{},</span></span>
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<pre style="margin: 0;">-<span id="LC471" class="line" lang="python"> <span class="mi" style="color: #099;">10</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC472" class="line" lang="python"> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC473" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC426" class="line" lang="python"> <span class="n" style="color: #333;">index1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NNDescent</span><span class="p">(</span><span class="n" style="color: #333;">x1</span><span class="p">,</span> <span class="s" style="color: #d14;">"euclidean"</span><span class="p">,</span> <span class="p">{},</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="n" style="color: #333;">random_state</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC427" class="line" lang="python"> <span class="n" style="color: #333;">neighbors1</span><span class="p">,</span> <span class="n" style="color: #333;">distances1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index1</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC428" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC476" class="line" lang="python"> <span class="n" style="color: #333;">joblib</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="s" style="color: #d14;">"test_tmp.dump"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC477" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">joblib</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.dump"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC478" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="s" style="color: #d14;">"test_tmp.dump"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC429" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">BytesIO</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC430" class="line" lang="python"> <span class="n" style="color: #333;">joblib</span><span class="p">.</span><span class="n" style="color: #333;">dump</span><span class="p">(</span><span class="n" style="color: #333;">index1</span><span class="p">,</span> <span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC431" class="line" lang="python"> <span class="n" style="color: #333;">mem_temp</span><span class="p">.</span><span class="n" style="color: #333;">seek</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC432" class="line" lang="python"> <span class="n" style="color: #333;">index2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">joblib</span><span class="p">.</span><span class="n" style="color: #333;">load</span><span class="p">(</span><span class="n" style="color: #333;">mem_temp</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC433" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC434" class="line" lang="python"> <span class="n" style="color: #333;">neighbors2</span><span class="p">,</span> <span class="n" style="color: #333;">distances2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index2</span><span class="p">.</span><span class="n" style="color: #333;">query</span><span class="p">(</span><span class="n" style="color: #333;">x2</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC435" class="line" lang="python"></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#a2180bc63bafad64b6dda794acf91a3dc57cdbb5"><strong>pynndescent/tests/test_rank.py</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">pytest</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numpy.testing</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;"><span class="idiff left">assert_equal</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">assert_array_equal</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numpy.testing</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">assert_array_equal</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">pynndescent.distances</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">rankdata</span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -94,51 +95,132 @@ def test_big_tie():</td>
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="python"> <span class="n" style="color: #333;">assert_array_equal</span><span class="p">(</span><span class="n" style="color: #333;">r</span><span class="p">,</span> <span class="n" style="color: #333;">expected_rank</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="s" style="color: #d14;">"test failed with n=%d"</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC97" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># fmt: off</span></span>
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="python"><span class="n" style="color: #333;">_cases</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># values, method, expected</span></span>
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'average'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC101" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'min'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'max'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'dense'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC104" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC105" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">-<span id="LC106" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'average'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC107" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'min'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'max'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC109" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'dense'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># #</span></span>
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'average'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'min'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'max'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'dense'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC116" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">-<span id="LC118" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'average'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC119" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'min'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC120" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'max'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'dense'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC122" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC123" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'average'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.5</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.5</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'min'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'max'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC127" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'dense'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC128" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'average'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.5</span><span class="p">,</span> <span class="mf" style="color: #099;">3.5</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.5</span><span class="p">,</span> <span class="mf" style="color: #099;">1.5</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'min'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'max'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC133" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'dense'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">-<span id="LC135" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">-<span id="LC136" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">10</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">30</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">'ordinal'</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arange</span><span class="p">(</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">31.0</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">pytest</span><span class="p">.</span><span class="n" style="color: #333;">mark</span><span class="p">.</span><span class="n" style="color: #333;">parametrize</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="python"> <span class="s" style="color: #d14;">"values,method,expected"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="python"> <span class="p">[</span> <span class="c1" style="color: #998; font-style: italic;"># values, method, expected</span></span>
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101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"average"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"min"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"max"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"dense"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"average"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"min"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"max"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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110
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"dense"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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111
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">)),</span></span>
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112
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># #</span></span>
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113
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="python"> <span class="p">(</span></span>
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114
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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115
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="python"> <span class="s" style="color: #d14;">"average"</span><span class="p">,</span></span>
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116
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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117
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="python"> <span class="p">),</span></span>
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118
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="python"> <span class="p">(</span></span>
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119
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="python"> <span class="s" style="color: #d14;">"min"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC124" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="python"> <span class="s" style="color: #d14;">"max"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC129" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="python"> <span class="s" style="color: #d14;">"dense"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="python"> <span class="p">(</span></span>
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134
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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135
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="python"> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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137
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="python"> <span class="p">),</span></span>
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138
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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139
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="python"> <span class="p">(</span></span>
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140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="python"> <span class="s" style="color: #d14;">"average"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC142" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC143" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC144" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC145" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="python"> <span class="s" style="color: #d14;">"min"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC147" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="python"> <span class="s" style="color: #d14;">"max"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC152" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="python"> <span class="s" style="color: #d14;">"dense"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="python"> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="python"> <span class="s" style="color: #d14;">"average"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.5</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.5</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="python"> <span class="s" style="color: #d14;">"min"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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177
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="python"> <span class="s" style="color: #d14;">"max"</span><span class="p">,</span></span>
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178
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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179
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="python"> <span class="p">),</span></span>
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180
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="python"> <span class="p">(</span></span>
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181
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<pre style="margin: 0;">+<span id="LC181" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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182
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<pre style="margin: 0;">+<span id="LC182" class="line" lang="python"> <span class="s" style="color: #d14;">"dense"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC187" class="line" lang="python"> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC188" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC190" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">+<span id="LC191" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC192" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC193" class="line" lang="python"> <span class="s" style="color: #d14;">"average"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.5</span><span class="p">,</span> <span class="mf" style="color: #099;">3.5</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.5</span><span class="p">,</span> <span class="mf" style="color: #099;">1.5</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC196" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC197" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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198
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<pre style="margin: 0;">+<span id="LC198" class="line" lang="python"> <span class="s" style="color: #d14;">"min"</span><span class="p">,</span></span>
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199
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<pre style="margin: 0;">+<span id="LC199" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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200
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="python"> <span class="p">),</span></span>
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201
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<pre style="margin: 0;">+<span id="LC201" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="python"> <span class="s" style="color: #d14;">"max"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC204" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC206" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="python"> <span class="s" style="color: #d14;">"dense"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC209" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">,</span> <span class="mf" style="color: #099;">1.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC210" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC211" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">300</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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213
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="python"> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">3.0</span><span class="p">,</span> <span class="mf" style="color: #099;">5.0</span><span class="p">,</span> <span class="mf" style="color: #099;">4.0</span><span class="p">,</span> <span class="mf" style="color: #099;">2.0</span><span class="p">],</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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215
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<pre style="margin: 0;">+<span id="LC215" class="line" lang="python"> <span class="p">),</span></span>
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216
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<pre style="margin: 0;">+<span id="LC216" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">+<span id="LC217" class="line" lang="python"> <span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC218" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">10</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">30</span><span class="p">,</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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219
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<pre style="margin: 0;">+<span id="LC219" class="line" lang="python"> <span class="s" style="color: #d14;">"ordinal"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC220" class="line" lang="python"> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">arange</span><span class="p">(</span><span class="mf" style="color: #099;">1.0</span><span class="p">,</span> <span class="mf" style="color: #099;">31.0</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float64</span><span class="p">),</span></span>
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221
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<pre style="margin: 0;">+<span id="LC221" class="line" lang="python"> <span class="p">),</span></span>
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<pre style="margin: 0;">+<span id="LC222" class="line" lang="python"> <span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC223" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC138" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># fmt: on</span></span>
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<pre style="margin: 0;">-<span id="LC139" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_cases</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC142" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">values</span><span class="p">,</span> <span class="n" style="color: #333;">method</span><span class="p">,</span> <span class="n" style="color: #333;">expected</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">_cases</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="python"> <span class="n" style="color: #333;">r</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rankdata</span><span class="p">(</span><span class="n" style="color: #333;">values</span><span class="p">,</span> <span class="n" style="color: #333;">method</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">method</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC144" class="line" lang="python"> <span class="n" style="color: #333;">assert_array_equal</span><span class="p">(</span><span class="n" style="color: #333;">r</span><span class="p">,</span> <span class="n" style="color: #333;">expected</span><span class="p">)</span></span></pre>
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_cases</span><span class="p">(</span><span class="n" style="color: #333;">values</span><span class="p">,</span> <span class="n" style="color: #333;">method</span><span class="p">,</span> <span class="n" style="color: #333;">expected</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="python"> <span class="n" style="color: #333;">r</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rankdata</span><span class="p">(</span><span class="n" style="color: #333;">values</span><span class="p">,</span> <span class="n" style="color: #333;">method</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">method</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC226" class="line" lang="python"> <span class="n" style="color: #333;">assert_array_equal</span><span class="p">(</span><span class="n" style="color: #333;">r</span><span class="p">,</span> <span class="n" style="color: #333;">expected</span><span class="p">)</span></span></pre>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#b6f4ff4175669eef79b4e5c3f23f3b9cdec59e71"><strong>pynndescent/utils.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -6,17 +6,17 @@ import time</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numba</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">numba.core</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">types</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;"><span class="idiff left">from</span></span> <span class="nn" style="color: #555;">numba.experimental</span><span class="idiff"> </span><span class="kn" style="font-weight: 600;"><span class="idiff right">import</span></span> <span class="n" style="color: #333;">structref</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="python"><span class="kn" style="font-weight: 600;"><span class="idiff left">import</span></span> <span class="nn" style="color: #555;">numba.experimental<span class="idiff">.structref</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff right">as</span></span> <span class="n" style="color: #333;">structref</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"void(i8[:], i8)"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"void(i8[:], i8)"</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">seed</span><span class="p">(</span><span class="n" style="color: #333;">rng_state</span><span class="p">,</span> <span class="n" style="color: #333;">seed</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="python"> <span class="s" style="color: #d14;">"""Seed the random number generator with a given seed."""</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">.</span><span class="n" style="color: #333;">fill</span><span class="p">(</span><span class="n" style="color: #333;">seed</span> <span class="o" style="font-weight: 600;">+</span> <span class="mh" style="color: #099;">0xFFFF</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"i4(i8[:])"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"i4(i8[:])"</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">tau_rand_int</span><span class="p">(</span><span class="n" style="color: #333;">state</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="python"> <span class="s" style="color: #d14;">"""A fast (pseudo)-random number generator.</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="42" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -42,7 +42,7 @@ def tau_rand_int(state):</td>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">state</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">^</span> <span class="n" style="color: #333;">state</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">^</span> <span class="n" style="color: #333;">state</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"f4(i8[:])"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"f4(i8[:])"</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">tau_rand</span><span class="p">(</span><span class="n" style="color: #333;">state</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="python"> <span class="s" style="color: #d14;">"""A fast (pseudo)-random number generator for floats in the range [0,1]</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="python"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -69,9 +69,10 @@ def tau_rand(state):</td>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="python"> <span class="s" style="color: #d14;">"dim"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="python"> <span class="s" style="color: #d14;">"result"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"><span class="idiff left"># </span>"result": numba.types.float32,<span class="idiff right"> # This provides speed, but causes errors in corner cases</span></span></span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC76" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC77" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">norm</span><span class="p">(</span><span class="n" style="color: #333;">vec</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="python"> <span class="s" style="color: #d14;">"""Compute the (standard l2) norm of a vector.</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -91,7 +92,7 @@ def norm(vec):</td>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">sqrt</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">rejection_sample</span><span class="p">(</span><span class="n" style="color: #333;">n_samples</span><span class="p">,</span> <span class="n" style="color: #333;">pool_size</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="python"> <span class="s" style="color: #d14;">"""Generate n_samples many integers from 0 to pool_size such that no</span></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="python"><span class="s" style="color: #d14;"> integer is selected twice. The duplication constraint is achieved via</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -147,31 +148,27 @@ class Heap(structref.StructRefProxy):</td>
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<pre style="margin: 0;"> <span id="LC148" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">Heap_get_flags</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC149" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC150" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span></span>
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p"><span class="idiff left">(</span></span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff">True</span></span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">Heap_get_flags</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC153" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">flags</span></span>
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span></span>
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p"><span class="idiff left">(</span></span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff">True</span></span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">Heap_get_distances</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">distances</span></span>
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<pre style="margin: 0;"> <span id="LC159" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC160" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC160" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span></span>
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p"><span class="idiff left">(</span></span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff">True</span></span><span class="p"><span class="idiff right">)</span></span></span>
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<pre style="margin: 0;"> <span id="LC162" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">Heap_get_indices</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC163" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">indices</span></span>
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<pre style="margin: 0;"> <span id="LC164" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC165" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC165" class="line" lang="python"><span class="n" style="color: #333;">structref</span><span class="p">.</span><span class="n" style="color: #333;">define_proxy</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC166" class="line" lang="python"> <span class="n" style="color: #333;">Heap</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC167" class="line" lang="python"> <span class="n" style="color: #333;">HeapType</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC168" class="line" lang="python"> <span class="p">[</span><span class="s" style="color: #d14;">"indices"</span><span class="p">,</span> <span class="s" style="color: #d14;">"distances"</span><span class="p">,</span> <span class="s" style="color: #d14;">"flags"</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC169" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="python"><span class="n" style="color: #333;">structref</span><span class="p">.</span><span class="n" style="color: #333;">define_proxy</span><span class="p">(</span><span class="n" style="color: #333;">Heap</span><span class="p">,</span> <span class="n" style="color: #333;">HeapType</span><span class="p">,</span> <span class="p">[</span><span class="s" style="color: #d14;">"indices"</span><span class="p">,</span> <span class="s" style="color: #d14;">"distances"</span><span class="p">,</span> <span class="s" style="color: #d14;">"flags"</span><span class="p">])</span></span>
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<pre style="margin: 0;"> <span id="LC167" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC168" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Heap = namedtuple("Heap", ("indices", "distances", "flags"))</span></span>
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<pre style="margin: 0;"> <span id="LC169" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC174" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC172" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">make_heap</span><span class="p">(</span><span class="n" style="color: #333;">n_points</span><span class="p">,</span> <span class="n" style="color: #333;">size</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC173" class="line" lang="python"> <span class="s" style="color: #d14;">"""Constructor for the numba enabled heap objects. The heaps are used</span></span>
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<pre style="margin: 0;"> <span id="LC174" class="line" lang="python"><span class="s" style="color: #d14;"> for approximate nearest neighbor search, maintaining a list of potential</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -202,197 +199,7 @@ def make_heap(n_points, size):</td>
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">result</span></span>
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<pre style="margin: 0;"> <span id="LC200" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC205" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">jit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC206" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC207" class="line" lang="python"> <span class="s" style="color: #d14;">"indices"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">[::</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC208" class="line" lang="python"> <span class="s" style="color: #d14;">"weights"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">[::</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC209" class="line" lang="python"> <span class="s" style="color: #d14;">"is_new"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint8</span><span class="p">[::</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC210" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC211" class="line" lang="python"> <span class="s" style="color: #d14;">"ic1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC212" class="line" lang="python"> <span class="s" style="color: #d14;">"ic2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC213" class="line" lang="python"> <span class="s" style="color: #d14;">"i_swap"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC214" class="line" lang="python"> <span class="s" style="color: #d14;">"heap_size"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC215" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC216" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC217" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">row</span><span class="p">,</span> <span class="n" style="color: #333;">weight</span><span class="p">,</span> <span class="n" style="color: #333;">index</span><span class="p">,</span> <span class="n" style="color: #333;">flag</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC218" class="line" lang="python"> <span class="s" style="color: #d14;">"""Push a new element onto the heap. The heap stores potential neighbors</span></span>
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<pre style="margin: 0;">-<span id="LC219" class="line" lang="python"><span class="s" style="color: #d14;"> for each graph_data point. The ``row`` parameter determines which graph_data point we</span></span>
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<pre style="margin: 0;">-<span id="LC220" class="line" lang="python"><span class="s" style="color: #d14;"> are addressing, the ``weight`` determines the distance (for heap sorting),</span></span>
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<pre style="margin: 0;">-<span id="LC221" class="line" lang="python"><span class="s" style="color: #d14;"> the ``index`` is the element to add, and the flag determines whether this</span></span>
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<pre style="margin: 0;">-<span id="LC222" class="line" lang="python"><span class="s" style="color: #d14;"> is to be considered a new addition.</span></span>
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<pre style="margin: 0;">-<span id="LC223" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC224" class="line" lang="python"><span class="s" style="color: #d14;"> Parameters</span></span>
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<pre style="margin: 0;">-<span id="LC225" class="line" lang="python"><span class="s" style="color: #d14;"> ----------</span></span>
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<pre style="margin: 0;">-<span id="LC226" class="line" lang="python"><span class="s" style="color: #d14;"> heap: ndarray generated by ``make_heap``</span></span>
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<pre style="margin: 0;">-<span id="LC227" class="line" lang="python"><span class="s" style="color: #d14;"> The heap object to push into</span></span>
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<pre style="margin: 0;">-<span id="LC228" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC229" class="line" lang="python"><span class="s" style="color: #d14;"> row: int</span></span>
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<pre style="margin: 0;">-<span id="LC230" class="line" lang="python"><span class="s" style="color: #d14;"> Which actual heap within the heap object to push to</span></span>
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<pre style="margin: 0;">-<span id="LC231" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC232" class="line" lang="python"><span class="s" style="color: #d14;"> weight: float</span></span>
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<pre style="margin: 0;">-<span id="LC233" class="line" lang="python"><span class="s" style="color: #d14;"> The priority value of the element to push onto the heap</span></span>
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<pre style="margin: 0;">-<span id="LC234" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC235" class="line" lang="python"><span class="s" style="color: #d14;"> index: int</span></span>
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<pre style="margin: 0;">-<span id="LC236" class="line" lang="python"><span class="s" style="color: #d14;"> The actual value to be pushed</span></span>
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<pre style="margin: 0;">-<span id="LC237" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC238" class="line" lang="python"><span class="s" style="color: #d14;"> flag: int</span></span>
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<pre style="margin: 0;">-<span id="LC239" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to flag the newly added element or not.</span></span>
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<pre style="margin: 0;">-<span id="LC240" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC241" class="line" lang="python"><span class="s" style="color: #d14;"> Returns</span></span>
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<pre style="margin: 0;">-<span id="LC242" class="line" lang="python"><span class="s" style="color: #d14;"> -------</span></span>
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<pre style="margin: 0;">-<span id="LC243" class="line" lang="python"><span class="s" style="color: #d14;"> success: The number of new elements successfully pushed into the heap.</span></span>
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<pre style="margin: 0;">-<span id="LC244" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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<pre style="margin: 0;">-<span id="LC245" class="line" lang="python"> <span class="n" style="color: #333;">row</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span><span class="n" style="color: #333;">row</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC246" class="line" lang="python"> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">(</span><span class="n" style="color: #333;">weight</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC247" class="line" lang="python"> <span class="n" style="color: #333;">index</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">(</span><span class="n" style="color: #333;">index</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC248" class="line" lang="python"> <span class="n" style="color: #333;">flag</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">uint8</span><span class="p">(</span><span class="n" style="color: #333;">flag</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC249" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC250" class="line" lang="python"> <span class="n" style="color: #333;">indices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC251" class="line" lang="python"> <span class="n" style="color: #333;">weights</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC252" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC253" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC254" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC255" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC256" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC257" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># break if we already have this element.</span></span>
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<pre style="margin: 0;">-<span id="LC258" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">-<span id="LC259" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">index</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC260" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC261" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC262" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># insert val at position zero</span></span>
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<pre style="margin: 0;">-<span id="LC263" class="line" lang="python"> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">weight</span></span>
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<pre style="margin: 0;">-<span id="LC264" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index</span></span>
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<pre style="margin: 0;">-<span id="LC265" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flag</span></span>
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<pre style="margin: 0;">-<span id="LC266" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC267" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># descend the heap, swapping values until the max heap criterion is met</span></span>
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<pre style="margin: 0;">-<span id="LC268" class="line" lang="python"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC269" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="bp" style="color: #999;">True</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC270" class="line" lang="python"> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC271" class="line" lang="python"> <span class="n" style="color: #333;">ic2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC272" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC273" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC274" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC275" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">ic2</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC276" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">weight</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC277" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span></span>
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<pre style="margin: 0;">-<span id="LC278" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC279" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC280" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic2</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC281" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC282" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span></span>
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<pre style="margin: 0;">-<span id="LC283" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC284" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC285" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC286" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic2</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC287" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic2</span></span>
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<pre style="margin: 0;">-<span id="LC288" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC289" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC290" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC291" class="line" lang="python"> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC292" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC293" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC294" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC295" class="line" lang="python"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i_swap</span></span>
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<pre style="margin: 0;">-<span id="LC296" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC297" class="line" lang="python"> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">weight</span></span>
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<pre style="margin: 0;">-<span id="LC298" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index</span></span>
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<pre style="margin: 0;">-<span id="LC299" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flag</span></span>
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<pre style="margin: 0;">-<span id="LC300" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC301" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC302" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC303" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC304" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">jit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC305" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC306" class="line" lang="python"> <span class="s" style="color: #d14;">"indices"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int32</span><span class="p">[::</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC307" class="line" lang="python"> <span class="s" style="color: #d14;">"weights"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">float32</span><span class="p">[::</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC308" class="line" lang="python"> <span class="s" style="color: #d14;">"is_new"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint8</span><span class="p">[::</span><span class="mi" style="color: #099;">1</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC309" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC310" class="line" lang="python"> <span class="s" style="color: #d14;">"ic1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC311" class="line" lang="python"> <span class="s" style="color: #d14;">"ic2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC312" class="line" lang="python"> <span class="s" style="color: #d14;">"i_swap"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC313" class="line" lang="python"> <span class="s" style="color: #d14;">"heap_size"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC314" class="line" lang="python"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC315" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC316" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">unchecked_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">row</span><span class="p">,</span> <span class="n" style="color: #333;">weight</span><span class="p">,</span> <span class="n" style="color: #333;">index</span><span class="p">,</span> <span class="n" style="color: #333;">flag</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC317" class="line" lang="python"> <span class="s" style="color: #d14;">"""Push a new element onto the heap. The heap stores potential neighbors</span></span>
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<pre style="margin: 0;">-<span id="LC318" class="line" lang="python"><span class="s" style="color: #d14;"> for each graph_data point. The ``row`` parameter determines which graph_data point we</span></span>
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<pre style="margin: 0;">-<span id="LC319" class="line" lang="python"><span class="s" style="color: #d14;"> are addressing, the ``weight`` determines the distance (for heap sorting),</span></span>
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<pre style="margin: 0;">-<span id="LC320" class="line" lang="python"><span class="s" style="color: #d14;"> the ``index`` is the element to add, and the flag determines whether this</span></span>
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<pre style="margin: 0;">-<span id="LC321" class="line" lang="python"><span class="s" style="color: #d14;"> is to be considered a new addition.</span></span>
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<pre style="margin: 0;">-<span id="LC322" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC323" class="line" lang="python"><span class="s" style="color: #d14;"> Parameters</span></span>
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<pre style="margin: 0;">-<span id="LC324" class="line" lang="python"><span class="s" style="color: #d14;"> ----------</span></span>
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<pre style="margin: 0;">-<span id="LC325" class="line" lang="python"><span class="s" style="color: #d14;"> heap: ndarray generated by ``make_heap``</span></span>
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<pre style="margin: 0;">-<span id="LC326" class="line" lang="python"><span class="s" style="color: #d14;"> The heap object to push into</span></span>
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<pre style="margin: 0;">-<span id="LC327" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC328" class="line" lang="python"><span class="s" style="color: #d14;"> row: int</span></span>
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<pre style="margin: 0;">-<span id="LC329" class="line" lang="python"><span class="s" style="color: #d14;"> Which actual heap within the heap object to push to</span></span>
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<pre style="margin: 0;">-<span id="LC330" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC331" class="line" lang="python"><span class="s" style="color: #d14;"> weight: float</span></span>
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<pre style="margin: 0;">-<span id="LC332" class="line" lang="python"><span class="s" style="color: #d14;"> The priority value of the element to push onto the heap</span></span>
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<pre style="margin: 0;">-<span id="LC333" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC334" class="line" lang="python"><span class="s" style="color: #d14;"> index: int</span></span>
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<pre style="margin: 0;">-<span id="LC335" class="line" lang="python"><span class="s" style="color: #d14;"> The actual value to be pushed</span></span>
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<pre style="margin: 0;">-<span id="LC336" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC337" class="line" lang="python"><span class="s" style="color: #d14;"> flag: int</span></span>
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<pre style="margin: 0;">-<span id="LC338" class="line" lang="python"><span class="s" style="color: #d14;"> Whether to flag the newly added element or not.</span></span>
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<pre style="margin: 0;">-<span id="LC339" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC340" class="line" lang="python"><span class="s" style="color: #d14;"> Returns</span></span>
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<pre style="margin: 0;">-<span id="LC341" class="line" lang="python"><span class="s" style="color: #d14;"> -------</span></span>
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<pre style="margin: 0;">-<span id="LC342" class="line" lang="python"><span class="s" style="color: #d14;"> success: The number of new elements successfully pushed into the heap.</span></span>
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<pre style="margin: 0;">-<span id="LC343" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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<pre style="margin: 0;">-<span id="LC344" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC345" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC346" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC347" class="line" lang="python"> <span class="n" style="color: #333;">indices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC348" class="line" lang="python"> <span class="n" style="color: #333;">weights</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC349" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC350" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC351" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># insert val at position zero</span></span>
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<pre style="margin: 0;">-<span id="LC352" class="line" lang="python"> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">weight</span></span>
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<pre style="margin: 0;">-<span id="LC353" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index</span></span>
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<pre style="margin: 0;">-<span id="LC354" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flag</span></span>
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<pre style="margin: 0;">-<span id="LC356" class="line" lang="python"> <span class="n" style="color: #333;">heap_size</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC357" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC358" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># descend the heap, swapping values until the max heap criterion is met</span></span>
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<pre style="margin: 0;">-<span id="LC359" class="line" lang="python"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC360" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="bp" style="color: #999;">True</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC361" class="line" lang="python"> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC362" class="line" lang="python"> <span class="n" style="color: #333;">ic2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC363" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC364" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">heap_size</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC365" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC366" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">ic2</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">heap_size</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC367" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">weight</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC368" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span></span>
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<pre style="margin: 0;">-<span id="LC369" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC370" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC371" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic2</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC372" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC373" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span></span>
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<pre style="margin: 0;">-<span id="LC374" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC375" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC376" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC377" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">weight</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">ic2</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC378" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic2</span></span>
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<pre style="margin: 0;">-<span id="LC379" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC380" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC381" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC382" class="line" lang="python"> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC383" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC384" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC385" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC386" class="line" lang="python"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i_swap</span></span>
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<pre style="margin: 0;">-<span id="LC387" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC388" class="line" lang="python"> <span class="n" style="color: #333;">weights</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">weight</span></span>
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<pre style="margin: 0;">-<span id="LC389" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">index</span></span>
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<pre style="margin: 0;">-<span id="LC390" class="line" lang="python"> <span class="n" style="color: #333;">is_new</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flag</span></span>
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<pre style="margin: 0;">-<span id="LC391" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC392" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC393" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC394" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC395" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC203" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">siftdown</span><span class="p">(</span><span class="n" style="color: #333;">heap1</span><span class="p">,</span> <span class="n" style="color: #333;">heap2</span><span class="p">,</span> <span class="n" style="color: #333;">elt</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="python"> <span class="s" style="color: #d14;">"""Restore the heap property for a heap with an out of place element</span></span>
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="python"><span class="s" style="color: #d14;"> at position ``elt``. This works with a heap pair where heap1 carries</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="416" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="223" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -416,7 +223,7 @@ def siftdown(heap1, heap2, elt):</td>
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<pre style="margin: 0;"> <span id="LC223" class="line" lang="python"> <span class="n" style="color: #333;">elt</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">swap</span></span>
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<pre style="margin: 0;"> <span id="LC224" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC225" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC419" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC226" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">deheap_sort</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC228" class="line" lang="python"> <span class="s" style="color: #d14;">"""Given an array of heaps (of graph_indices and weights), unpack the heap</span></span>
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<pre style="margin: 0;"> <span id="LC229" class="line" lang="python"><span class="s" style="color: #d14;"> out to give and array of sorted lists of graph_indices and weights by increasing</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -460,51 +267,47 @@ def deheap_sort(heap):</td>
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<pre style="margin: 0;"> <span id="LC267" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">indices</span><span class="p">.</span><span class="n" style="color: #333;">astype</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">),</span> <span class="n" style="color: #333;">weights</span></span>
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<pre style="margin: 0;"> <span id="LC268" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC269" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC463" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC464" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">smallest_flagged</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">row</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC465" class="line" lang="python"> <span class="s" style="color: #d14;">"""Search the heap for the smallest element that is</span></span>
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<pre style="margin: 0;">-<span id="LC466" class="line" lang="python"><span class="s" style="color: #d14;"> still flagged.</span></span>
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<pre style="margin: 0;">-<span id="LC467" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC468" class="line" lang="python"><span class="s" style="color: #d14;"> Parameters</span></span>
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<pre style="margin: 0;">-<span id="LC469" class="line" lang="python"><span class="s" style="color: #d14;"> ----------</span></span>
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<pre style="margin: 0;">-<span id="LC470" class="line" lang="python"><span class="s" style="color: #d14;"> heap: array of shape (3, n_samples, n_neighbors)</span></span>
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<pre style="margin: 0;">-<span id="LC471" class="line" lang="python"><span class="s" style="color: #d14;"> The heaps to search</span></span>
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<pre style="margin: 0;">+<span id="LC270" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># @numba.njit()</span></span>
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<pre style="margin: 0;">+<span id="LC271" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># def smallest_flagged(heap, row):</span></span>
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<pre style="margin: 0;">+<span id="LC272" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># """Search the heap for the smallest element that is</span></span>
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<pre style="margin: 0;">+<span id="LC273" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># still flagged.</span></span>
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#</span></span>
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275
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<pre style="margin: 0;">+<span id="LC275" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Parameters</span></span>
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276
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<pre style="margin: 0;">+<span id="LC276" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># ----------</span></span>
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277
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<pre style="margin: 0;">+<span id="LC277" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># heap: array of shape (3, n_samples, n_neighbors)</span></span>
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278
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<pre style="margin: 0;">+<span id="LC278" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># The heaps to search</span></span>
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279
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<pre style="margin: 0;">+<span id="LC279" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#</span></span>
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280
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<pre style="margin: 0;">+<span id="LC280" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># row: int</span></span>
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281
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<pre style="margin: 0;">+<span id="LC281" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Which of the heaps to search</span></span>
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282
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#</span></span>
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283
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<pre style="margin: 0;">+<span id="LC283" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># Returns</span></span>
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284
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<pre style="margin: 0;">+<span id="LC284" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># -------</span></span>
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285
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<pre style="margin: 0;">+<span id="LC285" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># index: int</span></span>
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286
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<pre style="margin: 0;">+<span id="LC286" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># The index of the smallest flagged element</span></span>
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287
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<pre style="margin: 0;">+<span id="LC287" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># of the ``row``th heap, or -1 if no flagged</span></span>
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288
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<pre style="margin: 0;">+<span id="LC288" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># elements remain in the heap.</span></span>
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289
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<pre style="margin: 0;">+<span id="LC289" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># """</span></span>
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290
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<pre style="margin: 0;">+<span id="LC290" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># ind = heap[0][row]</span></span>
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291
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<pre style="margin: 0;">+<span id="LC291" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># dist = heap[1][row]</span></span>
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292
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<pre style="margin: 0;">+<span id="LC292" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># flag = heap[2][row]</span></span>
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293
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<pre style="margin: 0;">+<span id="LC293" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#</span></span>
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294
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<pre style="margin: 0;">+<span id="LC294" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># min_dist = np.inf</span></span>
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295
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<pre style="margin: 0;">+<span id="LC295" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># result_index = -1</span></span>
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296
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<pre style="margin: 0;">+<span id="LC296" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#</span></span>
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297
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<pre style="margin: 0;">+<span id="LC297" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># for i in range(ind.shape[0]):</span></span>
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<pre style="margin: 0;">+<span id="LC298" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># if flag[i] == 1 and dist[i] < min_dist:</span></span>
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<pre style="margin: 0;">+<span id="LC299" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># min_dist = dist[i]</span></span>
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<pre style="margin: 0;">+<span id="LC300" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># result_index = i</span></span>
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<pre style="margin: 0;">+<span id="LC301" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;">#</span></span>
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<pre style="margin: 0;">+<span id="LC302" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># if result_index >= 0:</span></span>
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<pre style="margin: 0;">+<span id="LC303" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># flag[result_index] = 0.0</span></span>
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># return int(ind[result_index])</span></span>
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<pre style="margin: 0;">+<span id="LC305" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># else:</span></span>
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<pre style="margin: 0;">+<span id="LC306" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># return -1</span></span>
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<pre style="margin: 0;"> <span id="LC307" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC473" class="line" lang="python"><span class="s" style="color: #d14;"> row: int</span></span>
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<pre style="margin: 0;">-<span id="LC474" class="line" lang="python"><span class="s" style="color: #d14;"> Which of the heaps to search</span></span>
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<pre style="margin: 0;"> <span id="LC308" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC476" class="line" lang="python"><span class="s" style="color: #d14;"> Returns</span></span>
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<pre style="margin: 0;">-<span id="LC477" class="line" lang="python"><span class="s" style="color: #d14;"> -------</span></span>
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<pre style="margin: 0;">-<span id="LC478" class="line" lang="python"><span class="s" style="color: #d14;"> index: int</span></span>
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<pre style="margin: 0;">-<span id="LC479" class="line" lang="python"><span class="s" style="color: #d14;"> The index of the smallest flagged element</span></span>
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<pre style="margin: 0;">-<span id="LC480" class="line" lang="python"><span class="s" style="color: #d14;"> of the ``row``th heap, or -1 if no flagged</span></span>
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<pre style="margin: 0;">-<span id="LC481" class="line" lang="python"><span class="s" style="color: #d14;"> elements remain in the heap.</span></span>
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<pre style="margin: 0;">-<span id="LC482" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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<pre style="margin: 0;">-<span id="LC483" class="line" lang="python"> <span class="n" style="color: #333;">ind</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC484" class="line" lang="python"> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC485" class="line" lang="python"> <span class="n" style="color: #333;">flag</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">row</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC486" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC487" class="line" lang="python"> <span class="n" style="color: #333;">min_dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">inf</span></span>
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<pre style="margin: 0;">-<span id="LC488" class="line" lang="python"> <span class="n" style="color: #333;">result_index</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC489" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC490" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">ind</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<pre style="margin: 0;">-<span id="LC491" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">flag</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">dist</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">min_dist</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC492" class="line" lang="python"> <span class="n" style="color: #333;">min_dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC493" class="line" lang="python"> <span class="n" style="color: #333;">result_index</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i</span></span>
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<pre style="margin: 0;">-<span id="LC494" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC495" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">result_index</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC496" class="line" lang="python"> <span class="n" style="color: #333;">flag</span><span class="p">[</span><span class="n" style="color: #333;">result_index</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.0</span></span>
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<pre style="margin: 0;">-<span id="LC497" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">int</span><span class="p">(</span><span class="n" style="color: #333;">ind</span><span class="p">[</span><span class="n" style="color: #333;">result_index</span><span class="p">])</span></span>
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<pre style="margin: 0;">-<span id="LC498" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC499" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC500" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC501" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC502" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"idx"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">})</span></span>
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<pre style="margin: 0;">-<span id="LC503" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">new_build_candidates</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC504" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC505" class="line" lang="python"> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC506" class="line" lang="python"> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC507" class="line" lang="python"><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC309" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"idx"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">},</span> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC310" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">new_build_candidates</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">max_candidates</span><span class="p">,</span> <span class="n" style="color: #333;">rng_state</span><span class="p">,</span> <span class="n" style="color: #333;">n_threads</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="python"> <span class="s" style="color: #d14;">"""Build a heap of candidate neighbors for nearest neighbor descent. For</span></span>
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<pre style="margin: 0;"> <span id="LC312" class="line" lang="python"><span class="s" style="color: #d14;"> each vertex the candidate neighbors are any current neighbors, and any</span></span>
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="python"><span class="s" style="color: #d14;"> vertices that have the vertex as one of their nearest neighbors.</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -541,8 +344,6 @@ def new_build_candidates(</td>
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344
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<pre style="margin: 0;"> <span id="LC344" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">n_vertices</span><span class="p">,</span> <span class="n" style="color: #333;">max_candidates</span><span class="p">),</span> <span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">inf</span><span class="p">,</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="p">.</span><span class="n" style="color: #333;">float32</span></span>
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<pre style="margin: 0;"> <span id="LC345" class="line" lang="python"> <span class="p">)</span></span>
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346
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<pre style="margin: 0;"> <span id="LC346" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC544" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">get_num_threads</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC545" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC347" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">n</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">n_threads</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC348" class="line" lang="python"> <span class="n" style="color: #333;">local_rng_state</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rng_state</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">n</span></span>
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<pre style="margin: 0;"> <span id="LC349" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">n_vertices</span><span class="p">):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -558,10 +359,7 @@ def new_build_candidates(</td>
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<pre style="margin: 0;"> <span id="LC359" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">isn</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC360" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">n</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC361" class="line" lang="python"> <span class="n" style="color: #333;">checked_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC561" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_priority</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC562" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC563" class="line" lang="python"> <span class="n" style="color: #333;">d</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC564" class="line" lang="python"> <span class="n" style="color: #333;">idx</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC362" class="line" lang="python"> <span class="n" style="color: #333;">new_candidate_priority</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">new_candidate_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">idx</span></span>
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<pre style="margin: 0;"> <span id="LC363" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC364" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">idx</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">n</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="python"> <span class="n" style="color: #333;">checked_heap_push</span><span class="p">(</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -573,10 +371,7 @@ def new_build_candidates(</td>
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<pre style="margin: 0;"> <span id="LC371" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC372" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">n</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC373" class="line" lang="python"> <span class="n" style="color: #333;">checked_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC576" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_priority</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC577" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC578" class="line" lang="python"> <span class="n" style="color: #333;">d</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC579" class="line" lang="python"> <span class="n" style="color: #333;">idx</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC374" class="line" lang="python"> <span class="n" style="color: #333;">old_candidate_priority</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">old_candidate_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">idx</span></span>
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<pre style="margin: 0;"> <span id="LC375" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC376" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">idx</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">n</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC377" class="line" lang="python"> <span class="n" style="color: #333;">checked_heap_push</span><span class="p">(</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="396" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -601,14 +396,14 @@ def new_build_candidates(</td>
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<pre style="margin: 0;"> <span id="LC396" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">new_candidate_indices</span><span class="p">,</span> <span class="n" style="color: #333;">old_candidate_indices</span></span>
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<pre style="margin: 0;"> <span id="LC397" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC398" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC604" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"b1(u1[::1],i4)"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC399" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"b1(u1[::1],i4)"</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC400" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">has_been_visited</span><span class="p">(</span><span class="n" style="color: #333;">table</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC401" class="line" lang="python"> <span class="n" style="color: #333;">loc</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">>></span> <span class="mi" style="color: #099;">3</span></span>
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<pre style="margin: 0;"> <span id="LC402" class="line" lang="python"> <span class="n" style="color: #333;">mask</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;"><<</span> <span class="p">(</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">&</span> <span class="mi" style="color: #099;">7</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC403" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">table</span><span class="p">[</span><span class="n" style="color: #333;">loc</span><span class="p">]</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">mask</span></span>
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<pre style="margin: 0;"> <span id="LC404" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC405" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC611" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"void(u1[::1],i4)"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC406" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="s" style="color: #d14;">"void(u1[::1],i4)"</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC407" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">mark_visited</span><span class="p">(</span><span class="n" style="color: #333;">table</span><span class="p">,</span> <span class="n" style="color: #333;">candidate</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC408" class="line" lang="python"> <span class="n" style="color: #333;">loc</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">>></span> <span class="mi" style="color: #099;">3</span></span>
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<pre style="margin: 0;"> <span id="LC409" class="line" lang="python"> <span class="n" style="color: #333;">mask</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;"><<</span> <span class="p">(</span><span class="n" style="color: #333;">candidate</span> <span class="o" style="font-weight: 600;">&</span> <span class="mi" style="color: #099;">7</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -626,6 +421,7 @@ def mark_visited(table, candidate):</td>
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<pre style="margin: 0;"> <span id="LC421" class="line" lang="python"> <span class="s" style="color: #d14;">"ic2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC422" class="line" lang="python"> <span class="s" style="color: #d14;">"i_swap"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC423" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC424" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC425" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC426" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">simple_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">priorities</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">n</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC427" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -682,6 +478,7 @@ def simple_heap_push(priorities, indices, p, n):</td>
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<pre style="margin: 0;"> <span id="LC478" class="line" lang="python"> <span class="s" style="color: #d14;">"ic2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC479" class="line" lang="python"> <span class="s" style="color: #d14;">"i_swap"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC480" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC481" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC482" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC483" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">checked_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">priorities</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">n</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC484" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -743,65 +540,7 @@ def checked_heap_push(priorities, indices, p, n):</td>
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="python"> <span class="s" style="color: #d14;">"ic2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC541" class="line" lang="python"> <span class="s" style="color: #d14;">"i_swap"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC542" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">-<span id="LC746" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC747" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">priorities</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">flags</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="n" style="color: #333;">f</span><span class="p">):</span></span>
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<pre style="margin: 0;">-<span id="LC748" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC749" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC750" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC751" class="line" lang="python"> <span class="n" style="color: #333;">size</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">priorities</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC752" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC753" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># insert val at position zero</span></span>
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<pre style="margin: 0;">-<span id="LC754" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span></span>
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<pre style="margin: 0;">-<span id="LC755" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n</span></span>
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<pre style="margin: 0;">-<span id="LC756" class="line" lang="python"> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">f</span></span>
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<pre style="margin: 0;">-<span id="LC757" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC758" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># descend the heap, swapping values until the max heap criterion is met</span></span>
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<pre style="margin: 0;">-<span id="LC759" class="line" lang="python"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;">-<span id="LC760" class="line" lang="python"> <span class="k" style="font-weight: 600;">while</span> <span class="bp" style="color: #999;">True</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC761" class="line" lang="python"> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC762" class="line" lang="python"> <span class="n" style="color: #333;">ic2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC763" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC764" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">ic1</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">size</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC765" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC766" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">ic2</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">size</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC767" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">p</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC768" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span></span>
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<pre style="margin: 0;">-<span id="LC769" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC770" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<pre style="margin: 0;">-<span id="LC771" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">ic2</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC772" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">ic1</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC773" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic1</span></span>
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<pre style="margin: 0;">-<span id="LC774" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC776" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC777" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">ic2</span><span class="p">]:</span></span>
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<pre style="margin: 0;">-<span id="LC778" class="line" lang="python"> <span class="n" style="color: #333;">i_swap</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ic2</span></span>
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<pre style="margin: 0;">-<span id="LC779" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC781" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC782" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC783" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC784" class="line" lang="python"> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">i_swap</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC785" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC786" class="line" lang="python"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i_swap</span></span>
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<pre style="margin: 0;">-<span id="LC787" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC788" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span></span>
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<pre style="margin: 0;">-<span id="LC789" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">n</span></span>
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<pre style="margin: 0;">-<span id="LC790" class="line" lang="python"> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">f</span></span>
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<pre style="margin: 0;">-<span id="LC791" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC792" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;">-<span id="LC793" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC794" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC795" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC796" class="line" lang="python"> <span class="s" style="color: #d14;">"i4(f4[::1],i4[::1],u1[::1],f4,i4,u1)"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC797" class="line" lang="python"> <span class="n" style="color: #333;">fastmath</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC798" class="line" lang="python"> <span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC799" class="line" lang="python"> <span class="s" style="color: #d14;">"size"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">intp</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC800" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC801" class="line" lang="python"> <span class="s" style="color: #d14;">"ic1"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC802" class="line" lang="python"> <span class="s" style="color: #d14;">"ic2"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC803" class="line" lang="python"> <span class="s" style="color: #d14;">"i_swap"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">uint16</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC804" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC543" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC545" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">checked_flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">priorities</span><span class="p">,</span> <span class="n" style="color: #333;">indices</span><span class="p">,</span> <span class="n" style="color: #333;">flags</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="n" style="color: #333;">f</span><span class="p">):</span></span>
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546
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<pre style="margin: 0;"> <span id="LC546" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -867,14 +606,15 @@ def checked_flagged_heap_push(priorities, indices, flags, p, n, f):</td>
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<pre style="margin: 0;"> <span id="LC606" class="line" lang="python"> <span class="s" style="color: #d14;">"i"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC607" class="line" lang="python"> <span class="s" style="color: #d14;">"j"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">uint32</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC608" class="line" lang="python"> <span class="p">},</span></span>
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<pre style="margin: 0;">+<span id="LC609" class="line" lang="python"> <span class="n" style="color: #333;">cache</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC610" class="line" lang="python"><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC871" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">apply_graph_updates_low_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC611" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">apply_graph_updates_low_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">n_threads</span></span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC612" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC613" class="line" lang="python"> <span class="n" style="color: #333;">n_changes</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<pre style="margin: 0;"> <span id="LC614" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC615" class="line" lang="python"> <span class="n" style="color: #333;">indices</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC616" class="line" lang="python"> <span class="n" style="color: #333;">flags</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC877" class="line" lang="python"> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">get_num_threads</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC617" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"><span class="idiff left right"># </span>n_threads = numba.get_num_threads()</span></span>
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<pre style="margin: 0;"> <span id="LC618" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC619" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">n</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">prange</span><span class="p">(</span><span class="n" style="color: #333;">n_threads</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC620" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">updates</span><span class="p">)):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -885,33 +625,21 @@ def apply_graph_updates_low_memory(current_graph, updates):</td>
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<pre style="margin: 0;"> <span id="LC625" class="line" lang="python"> <span class="k" style="font-weight: 600;">continue</span></span>
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<pre style="margin: 0;"> <span id="LC626" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC627" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">n</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC888" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># added = heap_push(current_graph, p, d, q, 1)</span></span>
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<pre style="margin: 0;"> <span id="LC628" class="line" lang="python"> <span class="n" style="color: #333;">added</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC890" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC891" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC892" class="line" lang="python"> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC893" class="line" lang="python"> <span class="n" style="color: #333;">d</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC894" class="line" lang="python"> <span class="n" style="color: #333;">q</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC895" class="line" lang="python"> <span class="mi" style="color: #099;">1</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC629" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">q</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;"> <span id="LC630" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC631" class="line" lang="python"> <span class="n" style="color: #333;">n_changes</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">added</span></span>
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<pre style="margin: 0;"> <span id="LC632" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC633" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">n_threads</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">n</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC900" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># added = heap_push(current_graph, q, d, p, 1)</span></span>
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<pre style="margin: 0;"> <span id="LC634" class="line" lang="python"> <span class="n" style="color: #333;">added</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;">-<span id="LC902" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC903" class="line" lang="python"> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC904" class="line" lang="python"> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">],</span></span>
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<pre style="margin: 0;">-<span id="LC905" class="line" lang="python"> <span class="n" style="color: #333;">d</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC906" class="line" lang="python"> <span class="n" style="color: #333;">p</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC907" class="line" lang="python"> <span class="mi" style="color: #099;">1</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC635" class="line" lang="python"> <span class="n" style="color: #333;">priorities</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">],</span> <span class="n" style="color: #333;">indices</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">],</span> <span class="n" style="color: #333;">flags</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span></span>
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<pre style="margin: 0;"> <span id="LC636" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC637" class="line" lang="python"> <span class="n" style="color: #333;">n_changes</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">added</span></span>
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<pre style="margin: 0;"> <span id="LC638" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC639" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">n_changes</span></span>
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<pre style="margin: 0;"> <span id="LC640" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC641" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC914" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"p"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">,</span> <span class="s" style="color: #d14;">"q"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">})</span></span>
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<pre style="margin: 0;">+<span id="LC642" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="nb" style="color: #0086b3;">locals</span><span class="o" style="font-weight: 600;">=</span><span class="p">{</span><span class="s" style="color: #d14;">"p"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">,</span> <span class="s" style="color: #d14;">"q"</span><span class="p">:</span> <span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">types</span><span class="p">.</span><span class="n" style="color: #333;">int64</span><span class="p">}<span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC643" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">apply_graph_updates_high_memory</span><span class="p">(</span><span class="n" style="color: #333;">current_graph</span><span class="p">,</span> <span class="n" style="color: #333;">updates</span><span class="p">,</span> <span class="n" style="color: #333;">in_graph</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC644" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC645" class="line" lang="python"> <span class="n" style="color: #333;">n_changes</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="928" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -928,8 +656,7 @@ def apply_graph_updates_high_memory(current_graph, updates, in_graph):</td>
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<pre style="margin: 0;"> <span id="LC656" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">q</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">in_graph</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]:</span></span>
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<pre style="margin: 0;"> <span id="LC657" class="line" lang="python"> <span class="k" style="font-weight: 600;">pass</span></span>
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<pre style="margin: 0;"> <span id="LC658" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC931" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># added = unchecked_heap_push(current_graph, p, d, q, 1)</span></span>
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<pre style="margin: 0;">-<span id="LC932" class="line" lang="python"> <span class="n" style="color: #333;">added</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC659" class="line" lang="python"> <span class="n" style="color: #333;">added</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC660" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC661" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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662
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<pre style="margin: 0;"> <span id="LC662" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -945,8 +672,7 @@ def apply_graph_updates_high_memory(current_graph, updates, in_graph):</td>
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<pre style="margin: 0;"> <span id="LC672" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">q</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">p</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">in_graph</span><span class="p">[</span><span class="n" style="color: #333;">q</span><span class="p">]:</span></span>
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<pre style="margin: 0;"> <span id="LC673" class="line" lang="python"> <span class="k" style="font-weight: 600;">pass</span></span>
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<pre style="margin: 0;"> <span id="LC674" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC948" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># added = unchecked_heap_push(current_graph, q, d, p, 1)</span></span>
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<pre style="margin: 0;">-<span id="LC949" class="line" lang="python"> <span class="n" style="color: #333;">added</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC675" class="line" lang="python"> <span class="n" style="color: #333;">added</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC676" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC677" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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678
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<pre style="margin: 0;"> <span id="LC678" class="line" lang="python"> <span class="n" style="color: #333;">current_graph</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">p</span><span class="p">],</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="688" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -962,7 +688,7 @@ def apply_graph_updates_high_memory(current_graph, updates, in_graph):</td>
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<pre style="margin: 0;"> <span id="LC688" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">n_changes</span></span>
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<pre style="margin: 0;"> <span id="LC689" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC690" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC965" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC691" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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692
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<pre style="margin: 0;"> <span id="LC692" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">initalize_heap_from_graph_indices</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">graph_indices</span><span class="p">,</span> <span class="n" style="color: #333;">data</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC693" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC694" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">i</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">range</span><span class="p">(</span><span class="n" style="color: #333;">graph_indices</span><span class="p">.</span><span class="n" style="color: #333;">shape</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -970,12 +696,12 @@ def initalize_heap_from_graph_indices(heap, graph_indices, data, metric):</td>
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<pre style="margin: 0;"> <span id="LC696" class="line" lang="python"> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">graph_indices</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">idx</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC697" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC698" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">metric</span><span class="p">(</span><span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">data</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">])</span></span>
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<pre style="margin: 0;">-<span id="LC973" class="line" lang="python"> <span class="n" style="color: #333;">flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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699
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<pre style="margin: 0;">+<span id="LC699" class="line" lang="python"> <span class="n" style="color: #333;"><span class="idiff left right">checked_</span>flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC700" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC701" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">heap</span></span>
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<pre style="margin: 0;"> <span id="LC702" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC703" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC978" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC704" class="line" lang="python"><span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">numba</span><span class="p">.</span><span class="n" style="color: #333;">njit</span><span class="p">(</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cache</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="bp" style="color: #999;"><span class="idiff right">True</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC705" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">sparse_initalize_heap_from_graph_indices</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC706" class="line" lang="python"> <span class="n" style="color: #333;">heap</span><span class="p">,</span> <span class="n" style="color: #333;">graph_indices</span><span class="p">,</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">,</span> <span class="n" style="color: #333;">data_indices</span><span class="p">,</span> <span class="n" style="color: #333;">data_vals</span><span class="p">,</span> <span class="n" style="color: #333;">metric</span></span>
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<pre style="margin: 0;"> <span id="LC707" class="line" lang="python"><span class="p">):</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -988,8 +714,7 @@ def sparse_initalize_heap_from_graph_indices(</td>
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<pre style="margin: 0;"> <span id="LC714" class="line" lang="python"> <span class="n" style="color: #333;">ind2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data_indices</span><span class="p">[</span><span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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<pre style="margin: 0;"> <span id="LC715" class="line" lang="python"> <span class="n" style="color: #333;">data2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data_vals</span><span class="p">[</span><span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="p">:</span> <span class="n" style="color: #333;">data_indptr</span><span class="p">[</span><span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">]]</span></span>
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<pre style="margin: 0;"> <span id="LC716" class="line" lang="python"> <span class="n" style="color: #333;">d</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">metric</span><span class="p">(</span><span class="n" style="color: #333;">ind1</span><span class="p">,</span> <span class="n" style="color: #333;">data1</span><span class="p">,</span> <span class="n" style="color: #333;">ind2</span><span class="p">,</span> <span class="n" style="color: #333;">data2</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC991" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># unchecked_heap_push(heap, i, d, j, 1)</span></span>
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<pre style="margin: 0;">-<span id="LC992" class="line" lang="python"> <span class="n" style="color: #333;">flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC717" class="line" lang="python"> <span class="n" style="color: #333;">checked_flagged_heap_push</span><span class="p">(</span><span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">heap</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="n" style="color: #333;">d</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC718" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC719" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">heap</span></span>
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720
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<pre style="margin: 0;"> <span id="LC720" class="line" lang="python"></span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#19359a61ae2446b51b549167b014da2fcf265768"><strong>requirements.txt</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/joblib" rel="nofollow noreferrer noopener" target="_blank">joblib</a></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/numpy" rel="nofollow noreferrer noopener" target="_blank">numpy</a>>=1.17</span>
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2
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<td class="new_line diff-line-num" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/scikit-learn" rel="nofollow noreferrer noopener" target="_blank">scikit-learn</a>>=0.18</span>
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3
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<td class="new_line diff-line-num" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/scipy" rel="nofollow noreferrer noopener" target="_blank">scipy</a>>=1.0</span>
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4
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/numba" rel="nofollow noreferrer noopener" target="_blank">numba</a>>=0.51.2</span>
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<a href="https://salsa.debian.org/python-team/packages/python-pynndescent/-/compare/b22097cdca16e1e495d1ef891823075062f6a443...f37b4e890adb00bd0fd8ba94d48974686f809547#8e2edce0d507e1297474f25c00cae94258db38d8"><strong>setup.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,7 +8,7 @@ def readme():</td>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="n" style="color: #333;">configuration</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"> <span class="s" style="color: #d14;">"name"</span><span class="p">:</span> <span class="s" style="color: #d14;">"pynndescent"</span><span class="p">,</span></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="python"> <span class="s" style="color: #d14;">"version"</span><span class="p">:</span> <span class="s" style="color: #d14;">"0.5.<span class="idiff left right">2</span>"</span><span class="p">,</span></span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"> <span class="s" style="color: #d14;">"version"</span><span class="p">:</span> <span class="s" style="color: #d14;">"0.5.<span class="idiff left right">6</span>"</span><span class="p">,</span></span>
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"> <span class="s" style="color: #d14;">"description"</span><span class="p">:</span> <span class="s" style="color: #d14;">"Nearest Neighbor Descent"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"> <span class="s" style="color: #d14;">"long_description"</span><span class="p">:</span> <span class="n" style="color: #333;">readme</span><span class="p">(),</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"> <span class="s" style="color: #d14;">"classifiers"</span><span class="p">:</span> <span class="p">[</span></span>
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