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<h3>
Alexandre Mestiashvili pushed to branch master
at <a href="https://salsa.debian.org/med-team/pycorrfit">Debian Med / pycorrfit</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/a26dafc8c0c5601591761217cafa70096b25e962">a26dafc8</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T11:13:34Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.1.4+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/b683ed50aebae9514595a308b074bfd290425fbd">b683ed50</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T11:13:39Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.1.4+dfsg'
Update to upstream version '1.1.4+dfsg'
with Debian dir 282278a7a62be0794206b5caf539576c0ea50da9</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/9f44f908b09c8d4e1a90edfb6e27a1bb6fe8fbd4">9f44f908</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T11:20:00Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/5a1182630b93c3c9f8a8f13467261514e4a0b51c">5a118263</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T12:45:30Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Enable tests, DH_VERBOSE=1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/f36434f86213fb87ec80e5c790c81058a62bddfa">f36434f8</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T13:07:20Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Archive and install tests to examples dir
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/8ff258c2e612e6003033e6e073ed0cdddc634629">8ff258c2</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T13:27:12Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add d/tests with initial autopkgtest
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/02a316a6231c3c3bf7e47d0ef019895a49890412">02a316a6</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T13:42:53Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Tweak dh_installexamples
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/d6f3aa34bd415ed466b6c579b626d7877b188769">d6f3aa34</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T14:11:36Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update d/tests, add python3-pytest to Depends
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/54f7b6daca58f97c37adce88c0ef3bd8781a7dd6">54f7b6da</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T14:52:34Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Skip tests requiring network access
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/9a9182262150a191ac0f12ec103648ce00ab0464">9a918226</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T15:06:26Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove README from the modules dir
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/cad2ffd1e20f52efb8e0a6b58d06b0f8c1b3f36a">cad2ffd1</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-26T15:09:18Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Bump Policy to 4.2.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/05faa4ff2a4f391cd74a174a8b94fd75a60587d5">05faa4ff</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-27T07:31:05Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove python3-dev from Build-Depends
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pycorrfit/commit/87e3a91f135b5b24057b75928fb47f49f0747ae8">87e3a91f</a></strong>
<div>
<span>by Alexandre Mestiashvili</span>
<i>at 2018-09-27T07:53:17Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update changelog
Gbp-Dch: Ignore
</pre>
</li>
</ul>
<h4>12 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a">
CHANGELOG
</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>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#83223a554d33ba7e1888274ff8ac43adb8147ba0">
<span class="new-file">
+
debian/tests/control
</span>
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</li>
<li class="file-stats">
<a href="#8dada92dc1a776bfc0370f00cc3bfb6b3fd13d96">
<span class="new-file">
+
debian/tests/pycorrfit-autopkgtests
</span>
</a>
</li>
<li class="file-stats">
<a href="#254a2da7a740675e537439eb88e32083b9ea4771">
docs/conf.py
</a>
</li>
<li class="file-stats">
<a href="#a1eb4f1c2cf77c35445baef1f2218a82e46ca728">
docs/extensions/github_changelog.py
</a>
</li>
<li class="file-stats">
<a href="#99782a7ca02e701843952476a0cf1dfb4cccc59b">
docs/sec_about.rst
</a>
</li>
<li class="file-stats">
<a href="#1ce7a7561b518f4b2fc5dcc91ef54e036685afea">
docs/sec_getting_started.rst
</a>
</li>
<li class="file-stats">
<a href="#0f19a08c88e9ad980ff8aba895fd5f38823795dd">
pycorrfit/fit.py
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#1c497fbb3a46b78edf04cc2a2fa33f67e3ffbe2a"><strong>CHANGELOG</strong></a>
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<td class="diff-line-num new new_line" data-linenumber="1" 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">
1
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">1.1.2</span>
</pre>
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<tr class="line_holder new" id="" style="line-height: 1.6;">
<td class="diff-line-num new old_line" data-linenumber="1" 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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<td class="diff-line-num new new_line" data-linenumber="2" 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">
2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"> - ci: Automated release to PyPI with appveyor and travis-ci</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1" 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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<td class="diff-line-num new new_line" data-linenumber="3" 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">
3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> - fix: support lmfit >= 0.9.11</span>
</pre>
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1
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<td class="diff-line-num new_line" 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">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">1.1.1</span>
</pre>
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2
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<td class="diff-line-num new_line" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> - Fix plotting error with LaTeX (thanks @toubol) (#179)</span>
</pre>
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<td class="diff-line-num old_line" 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">
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<td class="diff-line-num new_line" data-linenumber="6" 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">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> - Update documentation</span>
</pre>
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</table>
<br>
</li>
<li id="561b88e19de321ca62c7590bbb350765fb110905">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#561b88e19de321ca62c7590bbb350765fb110905"><strong>README.rst</strong></a>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">|PyCorrFit|</span>
</pre>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">===========</span>
</pre>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"></span>
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext">|PyPI Version| |Build Status Win| |Build Status Travis| |Coverage Status|</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">|PyPI Version| |Build Status Win| |Build Status Travis| |Coverage Status|<span class="idiff left right"> |Docs Status|</span></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Documentation</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="25" 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="25" 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">@@ -25,3 +25,5 @@ at the `issues page <https://github.com/FCS-analysis/PyCorrFit/wiki/Creating-a-n</td>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> :target: https://travis-ci.org/FCS-analysis/PyCorrFit</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext">.. |Coverage Status| image:: https://img.shields.io/codecov/c/github/FCS-analysis/PyCorrFit/master.svg</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> :target: https://codecov.io/gh/FCS-analysis/PyCorrFit</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext">.. |Docs Status| image:: https://readthedocs.org/projects/pycorrfit/badge/?version=latest</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> :target: https://readthedocs.org/projects/pycorrfit/builds/</span></pre>
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<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">pycorrfit (1.1.<span class="idiff left right">1+dfsg-1) UNRELEASED</span>; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">pycorrfit (1.1.<span class="idiff left right">4+dfsg-1) unstable</span>; 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"> [ Steffen Moeller ]</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * upstream/metadata RRID->SciCrunch</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">@@ -8,22 +8,30 @@ pycorrfit (1.1.1+dfsg-1) UNRELEASED; urgency=medium</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"> [ Alexandre Mestiashvili ]</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> * Add .readthedocs.yml to Files-Excluded list</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> * New upstream version 1.1.1+dfsg</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> * New upstream version 1.1.4+dfsg</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> * d/control:</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> - bump policy to 4.1.4</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> - bump debhelper to 11</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> - bump policy to 4.2.1, debhelper to 11</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> - update VCS headers to point to salsa</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> - update uploaders email</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> - switch to python3</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext"> - add python3-dev, python3-wxgtk4.0 and python3-matplotlib to build-depends</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext"> * Update d/rules, use --with python3</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext"> * New upstream version 1.1.1+dfsg</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> - add python3-dev, python3-wxgtk4.0, python3-matplotlib,</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> python3-simplejson, libpython3-all-dev</span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> - use ${python3:Depends}, drop libpython2.7-dev</span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> * Update d/rules:</span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> - --with python3</span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext"> - don't install modules as public pmodules</span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext"> use PYBUILD_INSTALL_ARGS_python3=--install-lib=/usr/lib/pycorrfit</span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> - exclude __pycache and pyc files with dh_install</span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext"> - remove README from modules dir</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> - move and symlink pycorrfit script</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> - archive and install tests to examples</span>
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19
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> * Update d/source/options to ignore pycorrfit/_version_save.py</span>
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20
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"> * Drop obsoleted patch fix_entry_point_for_gui.patch</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> * Update copyright, add new files</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext"> * Add autopkgtests, skip tests requiring network access</span>
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21
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext"> * TODO:</span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext"> - Upstream requires scipy > 1.0.1</span>
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24
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext"> - Consider installing python modules to private_dir</span>
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25
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"> -- Alexandre Mestiashvili <mestia@debian.org> Thu, 14 Jun 2018 11:41:50 +0200</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"> -- Alexandre Mestiashvili <mestia@debian.org> Thu, 27 Sep 2018 07:42:33 +0000</span>
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27
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext">pycorrfit (1.0.1+dfsg-2) unstable; urgency=medium</span>
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37
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"></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">@@ -121,9 +129,9 @@ pycorrfit (0.8.8+dfsg-1) unstable; urgency=medium</td>
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121
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129
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="plaintext"> new get-orig-source target, remove duplicated LICENSE file</span>
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122
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="plaintext"> * d/watch: add +dfsg suffix</span>
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123
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="plaintext"> * d/copyright: add Files-Excluded section</span>
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124
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="plaintext"> * d/patches: deleted<span class="idiff left right"> </span></span>
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132
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="plaintext"> * d/patches: deleted</span>
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125
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="plaintext"> * d/get-orig-source: deleted</span>
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126
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="plaintext"> * d/pycorrfit.pyremove: remove, as we need the egg-info directory<span class="idiff left right"> </span></span>
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134
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="plaintext"> * d/pycorrfit.pyremove: remove, as we need the egg-info directory</span>
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127
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135
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="plaintext"> * d/source/options: ignore generated files</span>
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<td class="diff-line-num old_line" data-linenumber="128" 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">
128
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136
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="plaintext"> * Imported Upstream version 0.8.8+dfsg</span>
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129
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137
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<pre style="margin: 0;"> <span id="LC137" class="line" lang="plaintext"></span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#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">@@ -11,7 +11,6 @@ Build-Depends: cython3,</td>
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<td class="diff-line-num old_line" data-linenumber="11" 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">
11
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> imagemagick,</span>
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12
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> libpython3-all-dev,</span>
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13
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> librsvg2-bin,</span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> python3-all,</span>
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15
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14
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> python3-dev,</span>
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16
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15
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> python3-lmfit (>= 0.9.2),</span>
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17
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16
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> python3-matplotlib,</span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="28" 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">@@ -29,7 +28,7 @@ Build-Depends: cython3,</td>
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29
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28
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> texlive-latex-extra,</span>
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30
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29
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> texlive-latex-recommended,</span>
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31
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"> texlive-science</span>
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32
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">1.4</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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33
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32
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/pycorrfit</span>
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34
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33
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/pycorrfit.git</span>
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35
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34
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext">Homepage: http://fcs-analysis.github.io/PyCorrFit/</span>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</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">#!/usr/bin/make -f</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">export DH_VERBOSE=1</span>
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2
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"></span>
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3
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">export DEB_BUILD_MAINT_OPTIONS=hardening=+BINDNOW</span>
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4
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">export PYBUILD_NAME=pycorrfit</span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">export PYBUILD_TEST_PYTEST=<span class="idiff left right">0</span></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">export PYBUILD_TEST_PYTEST=<span class="idiff left right">1</span></span>
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6
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">export PYBUILD_INSTALL_ARGS_python3=--install-lib=/usr/lib/${PYBUILD_NAME}</span>
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7
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"># see https://wiki.debian.org/ReproducibleBuilds/TimestampsInPDFGeneratedByLaTeX</span>
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8
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">DEB_DATE_RFC_2822 := $(shell dpkg-parsechangelog -S date)</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="40" 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="41" 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">@@ -40,12 +41,20 @@ override_dh_install:</td>
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40
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext"> dh_install -X__pycache__ -X.*pyc</span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="plaintext"> mv $(CURDIR)/debian/$(DEB_SOURCE)/usr/bin/pycorrfit \</span>
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42
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<td class="diff-line-num new_line" data-linenumber="43" 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">
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext"> $(CURDIR)/debian/$(DEB_SOURCE)/usr/lib/$(DEB_SOURCE)/pycorrfit_run</span>
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43
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="plaintext"> find $(CURDIR) -print</span>
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44
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext"> cd $(CURDIR)/debian/$(DEB_SOURCE)/usr/bin/; \</span>
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<td class="diff-line-num old_line" data-linenumber="45" 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">
45
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<td class="diff-line-num new_line" data-linenumber="45" 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">
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext"> ln -s ../lib/$(DEB_SOURCE)/pycorrfit_run pycorrfit; cd -</span>
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<td class="diff-line-num old_line" data-linenumber="46" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
46
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<td class="diff-line-num new_line" data-linenumber="46" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext"> mv debian/pycorrfit.xpm \</span>
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47
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext"> debian/$(DEB_SOURCE)/usr/share/pixmaps</span>
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48
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext"> chmod -R 644 debian/$(DEB_SOURCE)/usr/share/doc/$(DEB_SOURCE)/examples/external_model_functions/</span>
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49
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="plaintext"> rm -vf $(CURDIR)/debian/$(DEB_SOURCE)/usr/lib/$(DEB_SOURCE)/pycorrfit/readfiles/read_pt3_scripts/README</span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext">override_dh_compress:</span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext"> dh_compress -Xsample_sessions -Xexternal_model_functions</span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="plaintext">override_dh_installexamples:</span>
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55
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="plaintext"> tar --sort=name \</span>
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56
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="plaintext"> --mtime="@${SOURCE_DATE_EPOCH}" \</span>
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57
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="plaintext"> --owner=root --group=root --numeric-owner \</span>
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58
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="plaintext"> --mode=go=rX,u+rw,a-s \</span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="plaintext"> -cJf $(CURDIR)/debian/$(DEB_SOURCE)/usr/share/doc/$(DEB_SOURCE)/examples/tests.tar.xz tests/</span>
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60
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="plaintext"> dh_installexamples</span></pre>
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<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#83223a554d33ba7e1888274ff8ac43adb8147ba0"><strong>debian/tests/control</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Tests: pycorrfit-autopkgtests</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">Restrictions: allow-stderr</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Depends: @, python3-pytest</span></pre>
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<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#8dada92dc1a776bfc0370f00cc3bfb6b3fd13d96"><strong>debian/tests/pycorrfit-autopkgtests</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#!/bin/bash</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="shell"></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># Use test.tar.xz from /usr/share/doc/pycorrfit/examples/ if executed with</span></span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># autopkgtest</span></span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="shell"><span class="nb" style="color: #0086b3;">set</span> <span class="nt" style="color: navy;">-e</span></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="shell"><span class="nv" style="color: teal;">pkg</span><span class="o" style="font-weight: 600;">=</span>pycorrfit</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="shell"><span class="nb" style="color: #0086b3;">export </span><span class="nv" style="color: teal;">PYTHONPATH</span><span class="o" style="font-weight: 600;">=</span>/usr/lib/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: teal;">pkg</span><span class="k" style="font-weight: 600;">}</span></span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="shell"><span class="nv" style="color: teal;">examplesdir</span><span class="o" style="font-weight: 600;">=</span>/usr/share/doc/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: teal;">pkg</span><span class="k" style="font-weight: 600;">}</span>/examples</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="shell"><span class="nv" style="color: teal;">TMPDIR</span><span class="o" style="font-weight: 600;">=</span><span class="k" style="font-weight: 600;">$(</span><span class="nb" style="color: #0086b3;">mktemp</span> <span class="nt" style="color: navy;">-d</span><span class="k" style="font-weight: 600;">)</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="shell"><span class="nb" style="color: #0086b3;">trap</span> <span class="s2" style="color: #d14;">"rm -rf </span><span class="nv" style="color: teal;">$TMPDIR</span><span class="s2" style="color: #d14;">"</span> 0 INT QUIT ABRT PIPE TERM</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="shell"><span class="nb" style="color: #0086b3;">tar</span> <span class="nt" style="color: navy;">-xf</span> <span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: teal;">examplesdir</span><span class="k" style="font-weight: 600;">}</span>/tests.tar.xz <span class="nt" style="color: navy;">-C</span> <span class="nv" style="color: teal;">$TMPDIR</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="shell"><span class="nv" style="color: teal;">WORKDIR</span><span class="o" style="font-weight: 600;">=</span><span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: teal;">TMPDIR</span><span class="k" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cd</span> <span class="nv" style="color: teal;">$WORKDIR</span></span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># Skip tests which need network access</span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="shell"></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="shell"><span class="nb" style="color: #0086b3;">rm</span> <span class="nt" style="color: navy;">-vf</span> tests/<span class="o" style="font-weight: 600;">{</span>test_constraints.py,test_file_formats.py,test_session.py<span class="o" style="font-weight: 600;">}</span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="shell">find tests <span class="nt" style="color: navy;">-print</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="shell">python3 <span class="nt" style="color: navy;">-m</span> pytest tests</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="shell"></span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="shell"><span class="nb" style="color: #0086b3;">rm</span> <span class="nt" style="color: navy;">-rf</span> <span class="nv" style="color: teal;">$WORKDIR</span></span></pre>
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<li id="254a2da7a740675e537439eb88e32083b9ea4771">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#254a2da7a740675e537439eb88e32083b9ea4771"><strong>docs/conf.py</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="81" 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">@@ -81,6 +81,7 @@ master_doc = 'index'</td>
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="python"><span class="c" style="color: #998; font-style: italic;"># General information about the project.</span></span>
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83
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="python"><span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'PyCorrFit'</span></span>
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84
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="python"><span class="n" style="color: #333;">github_project</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'FCS-analysis/'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">project</span></span>
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="python"><span class="n" style="color: #333;">copyright</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'2014, Paul Müller'</span></span>
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="python"><span class="n" style="color: #333;">author</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'Paul Müller'</span></span>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="184" 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="185" 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">@@ -184,7 +185,7 @@ man_pages = [</td>
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<pre style="margin: 0;"> <span id="LC185" class="line" lang="python"><span class="c" style="color: #998; font-style: italic;"># dir menu entry, description, category)</span></span>
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<pre style="margin: 0;"> <span id="LC186" class="line" lang="python"><span class="n" style="color: #333;">texinfo_documents</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span></span>
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">master_doc</span><span class="p">,</span> <span class="n" style="color: #333;">project</span><span class="p">,</span> <span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">' Documentation'</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC187" class="line" lang="python"> <span class="n" style="color: #333;">author</span><span class="p">,</span> <span class="n" style="color: #333;">project</span><span class="p">,</span> <span class="s" style="color: #d14;">'<span class="idiff left right">Phase imaging analysis software</span>.'</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;">author</span><span class="p">,</span> <span class="n" style="color: #333;">project</span><span class="p">,</span> <span class="s" style="color: #d14;">'<span class="idiff left right">Curve fitting in FCS</span>.'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC189" class="line" lang="python"> <span class="s" style="color: #d14;">'Scientific'</span><span class="p">),</span></span>
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="python"><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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<li id="a1eb4f1c2cf77c35445baef1f2218a82e46ca728">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#a1eb4f1c2cf77c35445baef1f2218a82e46ca728"><strong>docs/extensions/github_changelog.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">@@ -29,13 +29,13 @@ class IncludeDirective(Directive):</td>
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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="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">run</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="LC31" class="line" lang="python"> <span class="n" style="color: #333;">full_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">arguments</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="LC32" class="line" lang="python"> <span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">state</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">document</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">settings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">env</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">project</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="python"> <span class="n" style="color: #333;">project</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">state</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">document</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">settings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">env</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;"><span class="idiff left right">github_</span>project</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="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">insert_github_link</span><span class="p">(</span><span class="n" style="color: #333;">reobj</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;">line</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">reobj</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">string</span></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="python"> <span class="n" style="color: #333;">instr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">line</span><span class="p">[</span><span class="n" style="color: #333;">reobj</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">start</span><span class="p">():</span><span class="n" style="color: #333;">reobj</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">end</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;">issue</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">instr</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">(</span><span class="s" style="color: #d14;">"#()"</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="python"> <span class="n" style="color: #333;">link</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/<span class="idiff left right">RI-imaging/</span>{}/issues/"</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">format</span><span class="p">(</span><span class="n" style="color: #333;">project</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="python"> <span class="n" style="color: #333;">link</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/{}/issues/"</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">format</span><span class="p">(</span><span class="n" style="color: #333;">project</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python"> <span class="n" style="color: #333;">rstlink</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"(`#{issue} <{link}{issue}>`_)"</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">format</span><span class="p">(</span><span class="n" style="color: #333;">issue</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">issue</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python"> <span class="n" style="color: #333;">link</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">link</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;">rstlink</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">@@ -70,5 +70,6 @@ class IncludeDirective(Directive):</td>
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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>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">setup</span><span class="p">(</span><span class="n" style="color: #333;">app</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;">app</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">add_config_value</span><span class="p">(</span><span class="s" style="color: #d14;">'github_project'</span><span class="p">,</span> <span class="s" style="color: #d14;">"user/project"</span><span class="p">,</span> <span class="s" style="color: #d14;">'html'</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;">app</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">add_directive</span><span class="p">(</span><span class="s" style="color: #d14;">'include_changelog'</span><span class="p">,</span> <span class="n" style="color: #333;">IncludeDirective</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="p">{</span><span class="s" style="color: #d14;">'version'</span><span class="p">:</span> <span class="s" style="color: #d14;">'0.1'</span><span class="p">}</span> <span class="c" style="color: #998; font-style: italic;"># identifies the version of our extension</span></span></pre>
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<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#99782a7ca02e701843952476a0cf1dfb4cccc59b"><strong>docs/sec_about.rst</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">@@ -52,5 +52,5 @@ How to cite</td>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext">Müller, P., Schwille, P., and Weidemann, T.</span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="plaintext">*PyCorrFit - generic data evaluation for fluorescence correlation spectroscopy.*</span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="plaintext">Bioinformatics 30(17):2532-2533 (2014).</span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="plaintext"><span class="idiff left right">DOI</span>:`10.1093/bioinformatics/btu328 <http://dx.doi.org/10.1093/bioinformatics/btu328>`_</span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="plaintext"><span class="idiff left right">doi</span>:`10.1093/bioinformatics/btu328 <http://dx.doi.org/10.1093/bioinformatics/btu328>`_</span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext"></span></pre>
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<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#1ce7a7561b518f4b2fc5dcc91ef54e036685afea"><strong>docs/sec_getting_started.rst</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">@@ -4,7 +4,8 @@ Getting started</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Installation</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">------------</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">- Installers for PyCorrFit are available at the `release page <https://github.com/FCS-analysis/PyCorrFit/releases>`_.</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">- Windows installers for PyCorrFit are available at the `release page <https://github.com/FCS-analysis/PyCorrFit/releases>`_.</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">- On Debian-based systems, install via ``apt-get install pycorrfit``.</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">- If you have Python 3.6 installed, you may install PyCorrFit via ``pip install pycorrfit[GUI]``.</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> After the installation, type ``pycorrfit`` in a command shell to start PyCorrFit.</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></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">@@ -12,7 +13,7 @@ Installation</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Documentation</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">-------------</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">The documentation is in the process of being transferred entirely to</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext">readthedocs.org. Currently, <span class="idiff left right">the </span>it is scattered across several</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">readthedocs.org. Currently, it is scattered across several</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">places and it is most-likely outdated:</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">- Original LaTeX-based PDF file (outdated): https://github.com/FCS-analysis/PyCorrFit/wiki/PyCorrFit_doc.pdf</span>
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<li id="0f19a08c88e9ad980ff8aba895fd5f38823795dd">
<a href="https://salsa.debian.org/med-team/pycorrfit/compare/b95471b38668e88ef07b87d12346504b0ae6e05c...87e3a91f135b5b24057b75928fb47f49f0747ae8#0f19a08c88e9ad980ff8aba895fd5f38823795dd"><strong>pycorrfit/fit.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">@@ -870,12 +870,18 @@ class Fit(object):</td>
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<pre style="margin: 0;"> <span id="LC870" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># Only allow physically correct parameters</span></span>
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<pre style="margin: 0;"> <span id="LC871" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_parm</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">check_parms</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_parm</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC872" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># Compute error estimates for fit (Only "Lev-Mar")</span></span>
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<pre style="margin: 0;">-<span id="LC873" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_algorithm</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"Lev-Mar"</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">success</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC873" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fit_algorithm</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"Lev-Mar"</span></span>
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<pre style="margin: 0;">+<span id="LC874" class="line" lang="python"> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">success</span></span>
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<pre style="margin: 0;">+<span id="LC875" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># If the covariance matrix cannot be computed in</span></span>
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<pre style="margin: 0;">+<span id="LC876" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># - lmfit <= 0.9.10: result.covar is None</span></span>
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<pre style="margin: 0;">+<span id="LC877" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># - lmfit >= 0.9.11: result.covar is not set</span></span>
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<pre style="margin: 0;">+<span id="LC878" class="line" lang="python"> <span class="ow" style="font-weight: 600;">and</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="n" style="color: #333;">result</span><span class="p">,</span> <span class="s" style="color: #d14;">"covar"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC879" class="line" lang="python"> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">covar</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="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC880" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># This is the standard way to minimize the data. Therefore,</span></span>
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<pre style="margin: 0;"> <span id="LC881" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;"># we are a little bit more verbose.</span></span>
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<pre style="margin: 0;">-<span id="LC876" class="line" lang="python"> <span class="bp" style="color: #999;"><span class="idiff left">self</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">.</span></span><span class="n" style="color: #333;">covar</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">covar</span></span>
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<pre style="margin: 0;">+<span id="LC882" class="line" lang="python"> <span class="n" style="color: #333;">covar</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">covar</span></span>
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<pre style="margin: 0;"> <span id="LC883" 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="LC878" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">parmoptim_error</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">diag</span><span class="p">(</span><span class="bp" style="color: #999;"><span class="idiff left">self</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">.</span></span><span class="n" style="color: #333;">covar</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC884" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">parmoptim_error</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">diag</span><span class="p">(</span><span class="n" style="color: #333;">covar</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC885" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</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;">warnings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">warn</span><span class="p">(</span><span class="s" style="color: #d14;">"PyCorrFit Warning: Error estimate not "</span><span class="o" style="font-weight: 600;">+</span>\</span>
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<pre style="margin: 0;"> <span id="LC887" class="line" lang="python"> <span class="s" style="color: #d14;">"possible, because we could not "</span><span class="o" style="font-weight: 600;">+</span>\</span>
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