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GitLab

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<h3>

Nilesh Patra pushed to branch master

at <a href="https://salsa.debian.org/med-team/hdmf">Debian Med / hdmf</a>

</h3>

<h4>

Commits:

</h4>

<ul>

<li>

<strong><a href="https://salsa.debian.org/med-team/hdmf/-/commit/b6324417ff88277304dd579003740dc61f798381">b6324417</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2021-05-18T23:05:22+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.5.5</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/hdmf/-/commit/33db3923d078e8143294a997ad7467d95278ecbe">33db3923</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2021-05-18T23:05:25+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/2.5.5'

Update to upstream version '2.5.5'

with Debian dir 23e0e2b6c0ea65e987eef85619ce4dd2d9f155d6</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/hdmf/-/commit/e814e04be6201c776cff1de353f4b69b40d78e42">e814e04b</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2021-05-18T23:05:57+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Interim changelog entry

</pre>

</li>

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<h4>9 changed files:</h4>

<ul>

<li class="file-stats">

<a href="#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">

PKG-INFO

</a>

</li>

<li class="file-stats">

<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">

debian/changelog

</a>

</li>

<li class="file-stats">

<a href="#9b0869c9ecbb8a6f13e0602b6bff34190dec2598">

src/hdmf.egg-info/PKG-INFO

</a>

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<li class="file-stats">

<a href="#ba66a4d062f6b50b4f5b0c916099b2f2e9ba2d43">

src/hdmf/_version.py

</a>

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<li class="file-stats">

<a href="#cc4e1037fcfc8b23d2f5a72652195b04203eb381">

src/hdmf/build/manager.py

</a>

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<li class="file-stats">

<a href="#081339ea726b144257de10fddfa6ecef56983860">

src/hdmf/spec/namespace.py

</a>

</li>

<li class="file-stats">

<a href="#fd7d7386c2ceda6dcb250e7b699d6d0642285604">

src/hdmf/spec/spec.py

</a>

</li>

<li class="file-stats">

<a href="#e634b58c50eae97f7d51e262020b2fc4a0f210d5">

tests/unit/spec_tests/test_load_namespace.py

</a>

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<li class="file-stats">

<a href="#5093f719e4c56a77813ec9e671234c2e22f75fad">

tests/unit/test_io_hdf5_h5tools.py

</a>

</li>

</ul>

<h4>Changes:</h4>

<li id="7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf"><strong>PKG-INFO</strong></a>

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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 2.1</span>

</pre>

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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: hdmf</span>

</pre>

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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 2.5.<span class="idiff left right">3</span></span>

</pre>

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<td class="new_line diff-line-num new" 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">

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 2.5.<span class="idiff left right">5</span></span>

</pre>

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<td class="old_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">

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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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<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: A package for standardizing hierarchical object data</span>

</pre>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/hdmf-dev/hdmf</span>

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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Andrew Tritt</span>

</pre>

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<br>

</li>

<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>

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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">hdmf (2.5.<span class="idiff left right">3</span>-1) UNRELEASED; urgency=medium</span>

</pre>

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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="LC1" class="line" lang="plaintext">hdmf (2.5.<span class="idiff left right">5</span>-1) UNRELEASED; urgency=medium</span>

</pre>

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<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">  * Team Upload.</span>

</pre>

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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext">  * New upstream version 2.5.<span class="idiff left right">3</span></span>

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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">  * New upstream version 2.5.<span class="idiff left right">5</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">  * Fix copyright</span>

</pre>

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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> -- Nilesh Patra <nilesh@debian.org>  Fri, 14 May 2021 22:40:21 +0530</span>

</pre>

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<br>

</li>

<li id="9b0869c9ecbb8a6f13e0602b6bff34190dec2598">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#9b0869c9ecbb8a6f13e0602b6bff34190dec2598"><strong>src/hdmf.egg-info/PKG-INFO</strong></a>

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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 2.1</span>

</pre>

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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: hdmf</span>

</pre>

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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 2.5.<span class="idiff left right">3</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 2.5.<span class="idiff left right">5</span></span>

</pre>

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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">

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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: A package for standardizing hierarchical object data</span>

</pre>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/hdmf-dev/hdmf</span>

</pre>

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<td class="old_line diff-line-num" 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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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Andrew Tritt</span>

</pre>

</td>

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</table>

<br>

</li>

<li id="ba66a4d062f6b50b4f5b0c916099b2f2e9ba2d43">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#ba66a4d062f6b50b4f5b0c916099b2f2e9ba2d43"><strong>src/hdmf/_version.py</strong></a>

<hr>

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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">@@ -8,11 +8,11 @@ import json</td>

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<pre style="margin: 0;"> <span id="LC8" class="line" lang="python"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC9" class="line" lang="python"><span class="n" style="color: #333;">version_json</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'''</span></span>

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<pre style="margin: 0;"> <span id="LC10" class="line" lang="python"><span class="s" style="color: #d14;">{</span></span>

</pre>

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<pre style="margin: 0;">-<span id="LC11" class="line" lang="python"><span class="s" style="color: #d14;"> "date": "2021-05-1<span class="idiff left">2</span>T1<span class="idiff right">3:43:56</span>-0700",</span></span>

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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"><span class="s" style="color: #d14;"> "date": "2021-05-1<span class="idiff left">7</span>T1<span class="idiff right">7:02:11</span>-0700",</span></span>

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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"><span class="s" style="color: #d14;"> "dirty": false,</span></span>

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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"><span class="s" style="color: #d14;"> "error": null,</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="14" 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="LC14" class="line" lang="python"><span class="s" style="color: #d14;"> "full-revisionid": "<span class="idiff left right">6be6692191403622fe77db1f2303e4d4030e004b</span>",</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="14" 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="LC15" class="line" lang="python"><span class="s" style="color: #d14;"> "version": "2.5.<span class="idiff left right">3</span>"</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="14" 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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<pre style="margin: 0;">+<span id="LC14" class="line" lang="python"><span class="s" style="color: #d14;"> "full-revisionid": "<span class="idiff left right">db511489a3f82968446b165ec3bd60b34722587c</span>",</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="16" 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="new_line diff-line-num new" data-linenumber="15" 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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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"><span class="s" style="color: #d14;"> "version": "2.5.<span class="idiff left right">5</span>"</span></span>

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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"><span class="s" style="color: #d14;">}</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="17" 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="LC17" class="line" lang="python"><span class="s" style="color: #d14;">'''</span>  <span class="c1" style="color: #998; font-style: italic;"># END VERSION_JSON</span></span>

</pre>

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18

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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"></span>

</pre>

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<li id="cc4e1037fcfc8b23d2f5a72652195b04203eb381">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#cc4e1037fcfc8b23d2f5a72652195b04203eb381"><strong>src/hdmf/build/manager.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">@@ -5,7 +5,7 @@ from copy import copy</td>

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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;">.builders</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DatasetBuilder</span><span class="p">,</span> <span class="n" style="color: #333;">GroupBuilder</span><span class="p">,</span> <span class="n" style="color: #333;">LinkBuilder</span><span class="p">,</span> <span class="n" style="color: #333;">Builder</span><span class="p">,</span> <span class="n" style="color: #333;">BaseBuilder</span></span>

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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;">from</span> <span class="nn" style="color: #555;">.classgenerator</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">ClassGenerator</span><span class="p">,</span> <span class="n" style="color: #333;">CustomClassGenerator</span><span class="p">,</span> <span class="n" style="color: #333;">MCIClassGenerator</span></span>

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<td class="new_line diff-line-num" data-linenumber="7" 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="LC7" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">..container</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">AbstractContainer</span><span class="p">,</span> <span class="n" style="color: #333;">Container</span><span class="p">,</span> <span class="n" style="color: #333;">Data</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="8" 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="LC8" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">..spec</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DatasetSpec</span><span class="p">,</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">,</span> <span class="n" style="color: #333;"><span class="idiff left">LinkSpec</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">NamespaceCatalog</span><span class="p">,</span> <span class="n" style="color: #333;">SpecReader</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="8" 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">

8

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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;">..spec</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DatasetSpec</span><span class="p">,</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">,</span> <span class="n" style="color: #333;">NamespaceCatalog</span><span class="p">,</span> <span class="n" style="color: #333;">SpecReader</span></span>

</pre>

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9

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<td class="new_line diff-line-num" data-linenumber="9" 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">

9

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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;">..spec.spec</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">BaseStorageSpec</span></span>

</pre>

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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;">..utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">docval</span><span class="p">,</span> <span class="n" style="color: #333;">getargs</span><span class="p">,</span> <span class="n" style="color: #333;">call_docval_func</span><span class="p">,</span> <span class="n" style="color: #333;">ExtenderMeta</span></span>

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<pre style="margin: 0;"> <span id="LC11" class="line" lang="python"></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="534" 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="534" 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">@@ -534,11 +534,10 @@ class TypeMap:</td>

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<pre style="margin: 0;"> <span id="LC534" class="line" lang="python">            <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">GroupSpec</span><span class="p">,</span> <span class="n" style="color: #333;">DatasetSpec</span><span class="p">)):</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC535" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_inc</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>

</pre>

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<td class="new_line diff-line-num" data-linenumber="536" 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="LC536" class="line" lang="python">                    <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">get_dt_container_cls</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_inc</span><span class="p">,</span> <span class="n" style="color: #333;">namespace</span><span class="p">)</span>  <span class="c1" style="color: #998; font-style: italic;"># TODO handle recursive definitions</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="537" 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="LC537" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_def</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>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="538" 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="new_line diff-line-num new" data-linenumber="537" 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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<pre style="margin: 0;">+<span id="LC537" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_def</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 class="idiff left">  </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right"># nested type definition</span></span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC538" class="line" lang="python">                    <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">get_dt_container_cls</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_def</span><span class="p">,</span> <span class="n" style="color: #333;">namespace</span><span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="539" 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="LC539" class="line" lang="python">            <span class="k" style="font-weight: 600;">elif</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">LinkSpec</span><span class="p">):</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="539" 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="LC540" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">target_type</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>

</pre>

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<pre style="margin: 0;">-<span id="LC541" class="line" lang="python">                    <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">get_dt_container_cls</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">target_type</span><span class="p">,</span> <span class="n" style="color: #333;">namespace</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC539" class="line" lang="python">            <span class="k" style="font-weight: 600;">else</span><span class="p">:</span>  <span class="c1" style="color: #998; font-style: italic;"># spec is a LinkSpec</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC540" class="line" lang="python">                <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">get_dt_container_cls</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">target_type</span><span class="p">,</span> <span class="n" style="color: #333;">namespace</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC541" class="line" lang="python">            <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">):</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC542" class="line" lang="python">                <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">child_spec</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">groups</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">datasets</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">links</span><span class="p">):</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC543" class="line" lang="python">                    <span class="n" style="color: #333;">__check_dependent_types_helper</span><span class="p">(</span><span class="n" style="color: #333;">child_spec</span><span class="p">,</span> <span class="n" style="color: #333;">namespace</span><span class="p">)</span></span>

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<br>

</li>

<li id="081339ea726b144257de10fddfa6ecef56983860">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#081339ea726b144257de10fddfa6ecef56983860"><strong>src/hdmf/spec/namespace.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">@@ -455,15 +455,10 @@ class NamespaceCatalog:</td>

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<pre style="margin: 0;"> <span id="LC455" 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;">"Could not load namespace '%s'"</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">s</span><span class="p">[</span><span class="s" style="color: #d14;">'namespace'</span><span class="p">])</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">e</span></span>

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<pre style="margin: 0;"> <span id="LC456" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">types_to_load</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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<td class="new_line diff-line-num" data-linenumber="457" 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="LC457" class="line" lang="python">                    <span class="n" style="color: #333;">types_to_load</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">.</span><span class="n" style="color: #333;">get_registered_types</span><span class="p">()</span>  <span class="c1" style="color: #998; font-style: italic;"># load all types in namespace</span></span>

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<pre style="margin: 0;">+<span id="LC458" class="line" lang="python">                <span class="n" style="color: #333;">registered_types</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">set</span><span class="p">()</span></span>

</pre>

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<td class="new_line diff-line-num" data-linenumber="459" 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="LC459" class="line" lang="python">                <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">ndt</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">types_to_load</span><span class="p">:</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="459" 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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<td class="new_line diff-line-num old" data-linenumber="460" 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="LC459" class="line" lang="python">                    <span class="n" style="color: #333;">spec</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">.</span><span class="n" style="color: #333;">get_spec</span><span class="p">(</span><span class="n" style="color: #333;">ndt</span><span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="460" 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="LC460" class="line" lang="python">                    <span class="n" style="color: #333;">spec_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">.</span><span class="n" style="color: #333;">catalog</span><span class="p">.</span><span class="n" style="color: #333;">get_spec_source_file</span><span class="p">(</span><span class="n" style="color: #333;">ndt</span><span class="p">)</span></span>

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<pre style="margin: 0;">-<span id="LC461" class="line" lang="python">                    <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">DatasetSpec</span><span class="p">):</span></span>

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<pre style="margin: 0;">-<span id="LC462" class="line" lang="python">                        <span class="n" style="color: #333;">spec</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;">dataset_spec_cls</span><span class="p">.</span><span class="n" style="color: #333;">build_spec</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">)</span></span>

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<pre style="margin: 0;">-<span id="LC463" 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="LC464" class="line" lang="python">                        <span class="n" style="color: #333;">spec</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;">group_spec_cls</span><span class="p">.</span><span class="n" style="color: #333;">build_spec</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">)</span></span>

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<pre style="margin: 0;">-<span id="LC465" class="line" lang="python">                    <span class="n" style="color: #333;">catalog</span><span class="p">.</span><span class="n" style="color: #333;">register_spec</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">spec_file</span><span class="p">)</span></span>

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<pre style="margin: 0;">-<span id="LC466" class="line" lang="python">                <span class="n" style="color: #333;">included_types</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="s" style="color: #d14;">'namespace'</span><span class="p">]]</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">tuple</span><span class="p">(</span><span class="n" style="color: #333;">types_to_load</span><span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC460" class="line" lang="python">                    <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__register_type</span><span class="p">(</span><span class="n" style="color: #333;">ndt</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC461" class="line" lang="python">                <span class="n" style="color: #333;">included_types</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="s" style="color: #d14;">'namespace'</span><span class="p">]]</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">tuple</span><span class="p">(</span><span class="nb" style="color: #0086b3;">sorted</span><span class="p">(</span><span class="n" style="color: #333;">registered_types</span><span class="p">))</span></span>

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<pre style="margin: 0;"> <span id="LC462" 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="LC463" 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;">"Spec '%s' schema must have either 'source' or 'namespace' key"</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">ns_name</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC464" class="line" lang="python">        <span class="c1" style="color: #998; font-style: italic;"># construct namespace</span></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="471" 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">@@ -471,6 +466,40 @@ class NamespaceCatalog:</td>

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<pre style="margin: 0;"> <span id="LC466" class="line" lang="python">        <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__namespaces</span><span class="p">[</span><span class="n" style="color: #333;">ns_name</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ns</span></span>

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<pre style="margin: 0;"> <span id="LC467" class="line" lang="python">        <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">included_types</span></span>

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<pre style="margin: 0;"> <span id="LC468" class="line" lang="python"></span>

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<pre style="margin: 0;">+<span id="LC469" class="line" lang="python">    <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">__register_type</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">ndt</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">):</span></span>

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<pre style="margin: 0;">+<span id="LC470" class="line" lang="python">        <span class="n" style="color: #333;">spec</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">.</span><span class="n" style="color: #333;">get_spec</span><span class="p">(</span><span class="n" style="color: #333;">ndt</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC471" class="line" lang="python">        <span class="n" style="color: #333;">spec_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">.</span><span class="n" style="color: #333;">catalog</span><span class="p">.</span><span class="n" style="color: #333;">get_spec_source_file</span><span class="p">(</span><span class="n" style="color: #333;">ndt</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC472" class="line" lang="python">        <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__register_dependent_types</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="473" 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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<pre style="margin: 0;">+<span id="LC473" class="line" lang="python">        <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">DatasetSpec</span><span class="p">):</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC474" class="line" lang="python">            <span class="n" style="color: #333;">built_spec</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;">dataset_spec_cls</span><span class="p">.</span><span class="n" style="color: #333;">build_spec</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC475" class="line" lang="python">        <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC476" class="line" lang="python">            <span class="n" style="color: #333;">built_spec</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;">group_spec_cls</span><span class="p">.</span><span class="n" style="color: #333;">build_spec</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC477" class="line" lang="python">        <span class="n" style="color: #333;">registered_types</span><span class="p">.</span><span class="n" style="color: #333;">add</span><span class="p">(</span><span class="n" style="color: #333;">ndt</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC478" class="line" lang="python">        <span class="n" style="color: #333;">catalog</span><span class="p">.</span><span class="n" style="color: #333;">register_spec</span><span class="p">(</span><span class="n" style="color: #333;">built_spec</span><span class="p">,</span> <span class="n" style="color: #333;">spec_file</span><span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="479" 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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<pre style="margin: 0;">+<span id="LC479" class="line" lang="python"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC480" class="line" lang="python">    <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">__register_dependent_types</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">):</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="481" 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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<pre style="margin: 0;">+<span id="LC481" class="line" lang="python">        <span class="s" style="color: #d14;">"""Ensure that classes for all types used by this type are registered</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="482" 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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<pre style="margin: 0;">+<span id="LC482" class="line" lang="python"><span class="s" style="color: #d14;">        """</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC483" class="line" lang="python">        <span class="c1" style="color: #998; font-style: italic;"># TODO test cross-namespace registration...</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="484" 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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<pre style="margin: 0;">+<span id="LC484" class="line" lang="python">        <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">__register_dependent_types_helper</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">):</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="485" 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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<pre style="margin: 0;">+<span id="LC485" class="line" lang="python">            <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">GroupSpec</span><span class="p">,</span> <span class="n" style="color: #333;">DatasetSpec</span><span class="p">)):</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="486" 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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<pre style="margin: 0;">+<span id="LC486" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_inc</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>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="487" 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">

487

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<pre style="margin: 0;">+<span id="LC487" class="line" lang="python">                    <span class="c1" style="color: #998; font-style: italic;"># TODO handle recursive definitions</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="488" 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">

488

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<pre style="margin: 0;">+<span id="LC488" class="line" lang="python">                    <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__register_type</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_inc</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="489" 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">

489

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<pre style="margin: 0;">+<span id="LC489" class="line" lang="python">                <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_def</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 class="c1" style="color: #998; font-style: italic;"># nested type definition</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="490" 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">

490

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<pre style="margin: 0;">+<span id="LC490" class="line" lang="python">                    <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__register_type</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_def</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="491" 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">

491

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<pre style="margin: 0;">+<span id="LC491" class="line" lang="python">            <span class="k" style="font-weight: 600;">else</span><span class="p">:</span>  <span class="c1" style="color: #998; font-style: italic;"># spec is a LinkSpec</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="492" 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">

492

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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="LC492" class="line" lang="python">                <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__register_type</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">target_type</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="493" 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">

493

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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="LC493" class="line" lang="python">            <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">):</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="494" 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">

494

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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="LC494" class="line" lang="python">                <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">child_spec</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">groups</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">datasets</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">links</span><span class="p">):</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="495" 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">

495

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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="LC495" class="line" lang="python">                    <span class="n" style="color: #333;">__register_dependent_types_helper</span><span class="p">(</span><span class="n" style="color: #333;">child_spec</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="496" 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">

496

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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="LC496" class="line" lang="python"></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="497" 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">

497

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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="LC497" class="line" lang="python">        <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_inc</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>

</pre>

</td>

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</td>

<td class="new_line diff-line-num new" data-linenumber="498" 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">

498

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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="LC498" class="line" lang="python">            <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">__register_type</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">data_type_inc</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="499" 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">

499

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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="LC499" class="line" lang="python">        <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">isinstance</span><span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">,</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">):</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="500" 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">

500

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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="LC500" class="line" lang="python">            <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">child_spec</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">groups</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">datasets</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">spec</span><span class="p">.</span><span class="n" style="color: #333;">links</span><span class="p">):</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="501" 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">

501

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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="LC501" class="line" lang="python">                <span class="n" style="color: #333;">__register_dependent_types_helper</span><span class="p">(</span><span class="n" style="color: #333;">child_spec</span><span class="p">,</span> <span class="n" style="color: #333;">inc_ns</span><span class="p">,</span> <span class="n" style="color: #333;">catalog</span><span class="p">,</span> <span class="n" style="color: #333;">registered_types</span><span class="p">)</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="474" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="502" 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">

502

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<pre style="margin: 0;">+<span id="LC502" class="line" lang="python"></span>

</pre>

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474

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503

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<pre style="margin: 0;"> <span id="LC503" class="line" lang="python">    <span class="o" style="font-weight: 600;">@</span><span class="n" style="color: #333;">docval</span><span class="p">({</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'namespace_path'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the path to the file containing the namespaces(s) to load'</span><span class="p">},</span></span>

</pre>

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475

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504

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<pre style="margin: 0;"> <span id="LC504" class="line" lang="python">            <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'resolve'</span><span class="p">,</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="476" 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">

476

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505

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<pre style="margin: 0;"> <span id="LC505" class="line" lang="python">             <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">bool</span><span class="p">,</span></span>

</pre>

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<br>

</li>

<li id="fd7d7386c2ceda6dcb250e7b699d6d0642285604">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#fd7d7386c2ceda6dcb250e7b699d6d0642285604"><strong>src/hdmf/spec/spec.py</strong></a>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="836" 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="836" 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">@@ -836,14 +836,30 @@ class LinkSpec(Spec):</td>

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836

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836

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<pre style="margin: 0;"> <span id="LC836" class="line" lang="python"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="837" 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">

837

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837

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<pre style="margin: 0;"> <span id="LC837" class="line" lang="python"><span class="n" style="color: #333;">_group_args</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="838" 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">

838

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<td class="new_line diff-line-num" data-linenumber="838" 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">

838

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<pre style="margin: 0;"> <span id="LC838" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'a description about what this specification represents'</span><span class="p">},</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="839" 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">

839

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<td class="new_line diff-line-num old" data-linenumber="839" 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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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC839" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'name'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the name of this group'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="bp" style="color: #999;">None</span><span class="p">},</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="839" 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">

839

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<pre style="margin: 0;">+<span id="LC839" class="line" lang="python">    <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="840" 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">

840

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<pre style="margin: 0;">+<span id="LC840" class="line" lang="python">        <span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'name'</span><span class="p">,</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="841" 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">

841

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<pre style="margin: 0;">+<span id="LC841" class="line" lang="python">        <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">,</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="842" 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">

842

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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="LC842" class="line" lang="python">        <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the name of the Group that is written to the file. If this argument is omitted, users will be '</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="843" 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">

843

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<pre style="margin: 0;">+<span id="LC843" class="line" lang="python">               <span class="s" style="color: #d14;">'required to enter a ``name`` field when creating instances of this data type in the API. Another '</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="844" 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">

844

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<pre style="margin: 0;">+<span id="LC844" class="line" lang="python">               <span class="s" style="color: #d14;">'option is to specify ``default_name``, in which case this name will be used as the name of the Group '</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="845" 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">

845

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<pre style="margin: 0;">+<span id="LC845" class="line" lang="python">               <span class="s" style="color: #d14;">'if no other name is provided.'</span><span class="p">,</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="840" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="846" 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">

846

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<pre style="margin: 0;">+<span id="LC846" class="line" lang="python">        <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="bp" style="color: #999;">None</span><span class="p">,</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="840" 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="new_line diff-line-num new" data-linenumber="847" 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">

847

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<pre style="margin: 0;">+<span id="LC847" class="line" lang="python">    <span class="p">},</span></span>

</pre>

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840

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<td class="new_line diff-line-num" data-linenumber="848" 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">

848

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<pre style="margin: 0;"> <span id="LC848" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'default_name'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'The default name of this group'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="bp" style="color: #999;">None</span><span class="p">},</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="841" 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">

841

</td>

<td class="new_line diff-line-num" data-linenumber="849" 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">

849

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<pre style="margin: 0;"> <span id="LC849" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'groups'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the subgroups in this group'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">()},</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="842" 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">

842

</td>

<td class="new_line diff-line-num" 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">

850

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC850" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'datasets'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the datasets in this group'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">()},</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="843" 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">

843

</td>

<td class="new_line diff-line-num" data-linenumber="851" 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">

851

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC851" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'attributes'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the attributes on this group'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">()},</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="844" 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">

844

</td>

<td class="new_line diff-line-num" data-linenumber="852" 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">

852

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<pre style="margin: 0;"> <span id="LC852" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'links'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the links in this group'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">list</span><span class="p">()},</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="845" 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">

845

</td>

<td class="new_line diff-line-num" data-linenumber="853" 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">

853

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<pre style="margin: 0;"> <span id="LC853" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'linkable'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">bool</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'whether or not this group can be linked'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="bp" style="color: #999;">True</span><span class="p">},</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="846" 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">

846

</td>

<td class="new_line diff-line-num old" data-linenumber="854" 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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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC846" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'quantity'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">int</span><span class="p">),</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the required number of allowed instance'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="mi" style="color: #099;">1</span><span class="p">},</span></span>

</pre>

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<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="854" 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">

854

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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="LC854" class="line" lang="python">    <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="855" 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">

855

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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="LC855" class="line" lang="python">        <span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'quantity'</span><span class="p">,</span></span>

</pre>

</td>

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<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="856" 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">

856

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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="LC856" class="line" lang="python">        <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">int</span><span class="p">),</span></span>

</pre>

</td>

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<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="857" 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">

857

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC857" class="line" lang="python">        <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">"the allowable number of instance of this group in a certain location. See table of options "</span></span>

</pre>

</td>

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<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="858" 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">

858

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC858" class="line" lang="python">               <span class="s" style="color: #d14;">"`here <https://schema-language.readthedocs.io/en/latest/description.html#quantity>`_. Note that if you"</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="859" 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">

859

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC859" class="line" lang="python">               <span class="s" style="color: #d14;">"specify ``name``, ``quantity`` cannot be ``'*'``, ``'+'``, or an integer greater that 1, because you "</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="860" 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">

860

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC860" class="line" lang="python">               <span class="s" style="color: #d14;">"cannot have more than one group of the same name in the same parent group."</span><span class="p">,</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="861" 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">

861

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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="LC861" class="line" lang="python">        <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="847" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="862" 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">

862

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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="LC862" class="line" lang="python">    <span class="p">},</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC863" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'data_type_def'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the data type this specification represents'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</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="LC864" class="line" lang="python">    <span class="p">{</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="s" style="color: #d14;">'data_type_inc'</span><span class="p">,</span> <span class="s" style="color: #d14;">'type'</span><span class="p">:</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">,</span> <span class="s" style="color: #d14;">'GroupSpec'</span><span class="p">),</span></span>

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<pre style="margin: 0;"> <span id="LC865" class="line" lang="python">     <span class="s" style="color: #d14;">'doc'</span><span class="p">:</span> <span class="s" style="color: #d14;">'the data type this specification data_type_inc'</span><span class="p">,</span> <span class="s" style="color: #d14;">'default'</span><span class="p">:</span> <span class="bp" style="color: #999;">None</span><span class="p">},</span></span>

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<li id="e634b58c50eae97f7d51e262020b2fc4a0f210d5">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#e634b58c50eae97f7d51e262020b2fc4a0f210d5"><strong>tests/unit/spec_tests/test_load_namespace.py</strong></a>

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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>

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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">@@ -301,8 +301,8 @@ class TestCustomSpecClasses(TestCase):</td>

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<pre style="margin: 0;"> <span id="LC301" class="line" lang="python">        <span class="n" style="color: #333;">namespace_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;">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;">realpath</span><span class="p">(</span><span class="n" style="color: #333;">__file__</span><span class="p">)),</span> <span class="s" style="color: #d14;">'test.namespace.yaml'</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;">namespace_deps</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;">ns_catalog</span><span class="p">.</span><span class="n" style="color: #333;">load_namespaces</span><span class="p">(</span><span class="n" style="color: #333;">namespace_path</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 class="c1" style="color: #998; font-style: italic;"># test that the dependencies are correct</span></span>

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<pre style="margin: 0;">-<span id="LC305" class="line" lang="python">        <span class="n" style="color: #333;">expected</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">set</span><span class="p">([</span><span class="s" style="color: #d14;">'Data'</span><span class="p">,</span> <span class="s" style="color: #d14;">'Container'</span><span class="p">,</span> <span class="s" style="color: #d14;">'DynamicTable'</span><span class="p">])</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;"># test that the dependencies are correct<span class="idiff left right">, including dependencies of the dependencies</span></span></span>

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<pre style="margin: 0;">+<span id="LC305" class="line" lang="python">        <span class="n" style="color: #333;">expected</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">set</span><span class="p">([</span><span class="s" style="color: #d14;">'Data'</span><span class="p">,</span> <span class="s" style="color: #d14;">'Container'</span><span class="p">,</span> <span class="s" style="color: #d14;">'DynamicTable'</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'ElementIdentifiers'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">'VectorData'</span></span><span class="p">])</span></span>

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<pre style="margin: 0;"> <span id="LC306" class="line" lang="python">        <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">assertSetEqual</span><span class="p">(</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="n" style="color: #333;">namespace_deps</span><span class="p">[</span><span class="s" style="color: #d14;">'test'</span><span class="p">][</span><span class="s" style="color: #d14;">'hdmf-common'</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="LC307" class="line" lang="python"></span>

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<pre style="margin: 0;"> <span id="LC308" class="line" lang="python">        <span class="c1" style="color: #998; font-style: italic;"># test that the types are loaded</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">@@ -341,8 +341,9 @@ class TestCustomSpecClasses(TestCase):</td>

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<pre style="margin: 0;"> <span id="LC341" class="line" lang="python">        <span class="n" style="color: #333;">ext_namespace_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;">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;">realpath</span><span class="p">(</span><span class="n" style="color: #333;">__file__</span><span class="p">)),</span> <span class="s" style="color: #d14;">'test-ext.namespace.yaml'</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC342" class="line" lang="python">        <span class="n" style="color: #333;">ext_namespace_deps</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;">ns_catalog</span><span class="p">.</span><span class="n" style="color: #333;">load_namespaces</span><span class="p">(</span><span class="n" style="color: #333;">ext_namespace_path</span><span class="p">)</span></span>

</pre>

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343

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<pre style="margin: 0;"> <span id="LC343" class="line" lang="python"></span>

</pre>

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<pre style="margin: 0;">-<span id="LC344" class="line" lang="python">        <span class="c1" style="color: #998; font-style: italic;"># test that the dependencies are correct</span></span>

</pre>

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<pre style="margin: 0;">-<span id="LC345" class="line" lang="python">        <span class="n" style="color: #333;">expected_deps</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">set</span><span class="p">([</span><span class="s" style="color: #d14;">'TestData'</span><span class="p">,</span> <span class="s" style="color: #d14;">'TestContainer'</span><span class="p">,</span> <span class="s" style="color: #d14;">'TestTable'</span><span class="p">,</span> <span class="s" style="color: #d14;">'Container'</span><span class="p">,</span> <span class="s" style="color: #d14;">'Data'</span><span class="p">,</span> <span class="s" style="color: #d14;">'DynamicTable'</span><span class="p">])</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC344" class="line" lang="python">        <span class="c1" style="color: #998; font-style: italic;"># test that the dependencies are correct, including dependencies of the dependencies</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="345" 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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<pre style="margin: 0;">+<span id="LC345" class="line" lang="python">        <span class="n" style="color: #333;">expected_deps</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">set</span><span class="p">([</span><span class="s" style="color: #d14;">'TestData'</span><span class="p">,</span> <span class="s" style="color: #d14;">'TestContainer'</span><span class="p">,</span> <span class="s" style="color: #d14;">'TestTable'</span><span class="p">,</span> <span class="s" style="color: #d14;">'Container'</span><span class="p">,</span> <span class="s" style="color: #d14;">'Data'</span><span class="p">,</span> <span class="s" style="color: #d14;">'DynamicTable'</span><span class="p">,</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC346" class="line" lang="python">                             <span class="s" style="color: #d14;">'ElementIdentifiers'</span><span class="p">,</span> <span class="s" style="color: #d14;">'VectorData'</span><span class="p">])</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC347" class="line" lang="python">        <span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">assertSetEqual</span><span class="p">(</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="n" style="color: #333;">ext_namespace_deps</span><span class="p">[</span><span class="s" style="color: #d14;">'test-ext'</span><span class="p">][</span><span class="s" style="color: #d14;">'test'</span><span class="p">]),</span> <span class="n" style="color: #333;">expected_deps</span><span class="p">)</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC348" class="line" lang="python"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC349" class="line" lang="python">    <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_load_namespaces_bad_path</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>

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<br>

</li>

<li id="5093f719e4c56a77813ec9e671234c2e22f75fad">

<a href="https://salsa.debian.org/med-team/hdmf/-/compare/bc64292650f557fb25a969a3a5b2900298071394...e814e04be6201c776cff1de353f4b69b40d78e42#5093f719e4c56a77813ec9e671234c2e22f75fad"><strong>tests/unit/test_io_hdf5_h5tools.py</strong></a>

<hr>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1980" 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="1980" 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">@@ -1980,23 +1980,27 @@ class TestLoadNamespaces(TestCase):</td>

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1980

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1980

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<pre style="margin: 0;"> <span id="LC1980" class="line" lang="python"></span>

</pre>

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1981

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1981

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<pre style="margin: 0;"> <span id="LC1981" class="line" lang="python">    <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_load_namespaces_with_dependencies</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>

</pre>

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1982

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1982

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<pre style="margin: 0;"> <span id="LC1982" class="line" lang="python">        <span class="s" style="color: #d14;">"""Test loading namespaces where one includes another."""</span></span>

</pre>

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1983

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<td class="new_line diff-line-num old" data-linenumber="1983" 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="LC1983" class="line" lang="python">        <span class="n" style="color: #333;">file_spec</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">(</span><span class="n" style="color: #333;">doc</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"A FooFile"</span><span class="p">,</span> <span class="n" style="color: #333;">data_type_def</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'FooFile'</span><span class="p">)</span></span>

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<td class="new_line diff-line-num new" data-linenumber="1983" 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">

1983

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<pre style="margin: 0;">+<span id="LC1983" class="line" lang="python">        <span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">MyFoo</span><span class="p">(</span><span class="n" style="color: #333;">Container</span><span class="p">):</span></span>

</pre>

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</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1984" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="1984" 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">

1984

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1984" class="line" lang="python">            <span class="k" style="font-weight: 600;">pass</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1984" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="1985" 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">

1985

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1985" class="line" lang="python"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1984" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="1986" 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">

1986

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1986" class="line" lang="python">        <span class="n" style="color: #333;">myfoo_spec</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">GroupSpec</span><span class="p">(</span><span class="n" style="color: #333;">doc</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"A MyFoo"</span><span class="p">,</span> <span class="n" style="color: #333;">data_type_def</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'MyFoo'</span><span class="p">,</span> <span class="n" style="color: #333;">data_type_inc</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'Foo'</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1984" 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">

1984

</td>

<td class="new_line diff-line-num" data-linenumber="1987" 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">

1987

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1987" class="line" lang="python">        <span class="n" style="color: #333;">spec_catalog</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">SpecCatalog</span><span class="p">()</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1985" 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">

1985

</td>

<td class="new_line diff-line-num" data-linenumber="1988" 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">

1988

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1988" class="line" lang="python">        <span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'test_core2'</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1986" 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">

1986

</td>

<td class="new_line diff-line-num" data-linenumber="1989" 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">

1989

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1989" class="line" lang="python">        <span class="n" style="color: #333;">namespace</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">SpecNamespace</span><span class="p">(</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1987" 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">

1987

</td>

<td class="new_line diff-line-num" data-linenumber="1990" 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">

1990

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1990" class="line" lang="python">            <span class="n" style="color: #333;">doc</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'a test namespace'</span><span class="p">,</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1988" 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">

1988

</td>

<td class="new_line diff-line-num" data-linenumber="1991" 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">

1991

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1991" class="line" lang="python">            <span class="n" style="color: #333;">name</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">name</span><span class="p">,</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1989" 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">

1989

</td>

<td class="new_line diff-line-num old" data-linenumber="1992" 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">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1989" class="line" lang="python">            <span class="n" style="color: #333;">schema</span><span class="o" style="font-weight: 600;">=</span><span class="p">[{</span><span class="s" style="color: #d14;">'source'</span><span class="p">:</span> <span class="s" style="color: #d14;">'test.yaml'</span><span class="p">,</span> <span class="s" style="color: #d14;">'namespace'</span><span class="p">:</span> <span class="s" style="color: #d14;">'test_core'</span><span class="p">}],</span>  <span class="c1" style="color: #998; font-style: italic;"># depends on test_core</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1990" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="1992" 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">

1992

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1992" class="line" lang="python">            <span class="n" style="color: #333;">schema</span><span class="o" style="font-weight: 600;">=</span><span class="p">[{</span><span class="s" style="color: #d14;">'source'</span><span class="p">:</span> <span class="s" style="color: #d14;">'test<span class="idiff left right">2</span>.yaml'</span><span class="p">,</span> <span class="s" style="color: #d14;">'namespace'</span><span class="p">:</span> <span class="s" style="color: #d14;">'test_core'</span><span class="p">}],</span>  <span class="c1" style="color: #998; font-style: italic;"># depends on test_core</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1990" 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">

1990

</td>

<td class="new_line diff-line-num" data-linenumber="1993" 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">

1993

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1993" class="line" lang="python">            <span class="n" style="color: #333;">version</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'0.1.0'</span><span class="p">,</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1991" 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">

1991

</td>

<td class="new_line diff-line-num" data-linenumber="1994" 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">

1994

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1994" class="line" lang="python">            <span class="n" style="color: #333;">catalog</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">spec_catalog</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1992" 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">

1992

</td>

<td class="new_line diff-line-num" data-linenumber="1995" 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">

1995

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1995" class="line" lang="python">        <span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1993" 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">

1993

</td>

<td class="new_line diff-line-num old" data-linenumber="1996" 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">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1993" class="line" lang="python">        <span class="n" style="color: #333;">spec_catalog</span><span class="p">.</span><span class="n" style="color: #333;">register_spec</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left right">file</span>_spec</span><span class="p">,</span> <span class="s" style="color: #d14;">'test.yaml'</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1994" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="1996" 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">

1996

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1996" class="line" lang="python">        <span class="n" style="color: #333;">spec_catalog</span><span class="p">.</span><span class="n" style="color: #333;">register_spec</span><span class="p">(</span><span class="n" style="color: #333;"><span class="idiff left">myfoo</span>_spec</span><span class="p">,</span> <span class="s" style="color: #d14;">'test<span class="idiff right">2</span>.yaml'</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1994" 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">

1994

</td>

<td class="new_line diff-line-num" data-linenumber="1997" 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">

1997

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1997" class="line" lang="python">        <span class="n" style="color: #333;">namespace_catalog</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">NamespaceCatalog</span><span class="p">()</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1995" 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">

1995

</td>

<td class="new_line diff-line-num" data-linenumber="1998" 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">

1998

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1998" class="line" lang="python">        <span class="n" style="color: #333;">namespace_catalog</span><span class="p">.</span><span class="n" style="color: #333;">add_namespace</span><span class="p">(</span><span class="n" style="color: #333;">name</span><span class="p">,</span> <span class="n" style="color: #333;">namespace</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1996" 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">

1996

</td>

<td class="new_line diff-line-num" data-linenumber="1999" 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">

1999

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1999" class="line" lang="python">        <span class="n" style="color: #333;">type_map</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">TypeMap</span><span class="p">(</span><span class="n" style="color: #333;">namespace_catalog</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1997" 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">

1997

</td>

<td class="new_line diff-line-num old" data-linenumber="2000" 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">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1997" class="line" lang="python">        <span class="n" style="color: #333;">type_map</span><span class="p">.</span><span class="n" style="color: #333;">register_container_type</span><span class="p">(</span><span class="n" style="color: #333;">name</span><span class="p">,</span> <span class="s" style="color: #d14;">'FooFile'</span><span class="p">,</span> <span class="n" style="color: #333;">FooFile</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1998" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="2000" 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">

2000

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2000" class="line" lang="python">        <span class="n" style="color: #333;">type_map</span><span class="p">.</span><span class="n" style="color: #333;">register_container_type</span><span class="p">(</span><span class="n" style="color: #333;">name</span><span class="p">,</span> <span class="s" style="color: #d14;">'MyFoo'</span><span class="p">,</span> <span class="n" style="color: #333;">MyFoo</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1998" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="2001" 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">

2001

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2001" class="line" lang="python">        <span class="n" style="color: #333;">type_map</span><span class="p">.</span><span class="n" style="color: #333;">merge</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">manager</span><span class="p">.</span><span class="n" style="color: #333;">type_map</span><span class="p">,</span> <span class="n" style="color: #333;">ns_catalog</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1998" 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">

1998

</td>

<td class="new_line diff-line-num" data-linenumber="2002" 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">

2002

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2002" class="line" lang="python">        <span class="n" style="color: #333;">manager</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BuildManager</span><span class="p">(</span><span class="n" style="color: #333;">type_map</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1999" 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">

1999

</td>

<td class="new_line diff-line-num old" data-linenumber="2003" 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">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1999" class="line" lang="python">        <span class="n" style="color: #333;">container</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Foo<span class="idiff left">File</span></span><span class="p"><span class="idiff right">(</span>)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="2000" 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">

</td>

<td class="new_line diff-line-num new" data-linenumber="2003" 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">

2003

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2003" class="line" lang="python">        <span class="n" style="color: #333;">container</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">My</span>Foo</span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">name</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="s" style="color: #d14;"><span class="idiff right">'myfoo'</span></span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="2000" 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">

2000

</td>

<td class="new_line diff-line-num" data-linenumber="2004" 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">

2004

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2004" class="line" lang="python">        <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">HDF5IO</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">,</span> <span class="n" style="color: #333;">manager</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">manager</span><span class="p">,</span> <span class="n" style="color: #333;">mode</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'a'</span><span class="p">)</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">io</span><span class="p">:</span>  <span class="c1" style="color: #998; font-style: italic;"># append to file</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="2001" 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">

2001

</td>

<td class="new_line diff-line-num" data-linenumber="2005" 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">

2005

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2005" class="line" lang="python">            <span class="n" style="color: #333;">io</span><span class="p">.</span><span class="n" style="color: #333;">write</span><span class="p">(</span><span class="n" style="color: #333;">container</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="2002" 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">

2002

</td>

<td class="new_line diff-line-num" data-linenumber="2006" 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">

2006

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2006" class="line" lang="python"></span>

</pre>

</td>

</tr>

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