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<h3>
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/python-biopython">Debian Med / python-biopython</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biopython/-/commit/c165111e921920817e9ce474c45c8c6ac58d2851">c165111e</a></strong>
<div>
<span>by Peter Michael Green</span>
<i>at 2022-03-05T14:14:59+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Restrict architecture list of muscle build-dependency
Restrict architecture list of muscle build-dependency to reflect
architectures where the current version of muscle is available.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biopython/-/commit/dbc2bfb880d3a42f225e29b6b5c364f450b7ae6b">dbc2bfb8</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-03-05T14:30:43+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Peter Green's change closes 1006667
Gbp-Dch: ignore
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biopython/-/commit/f034f4243069a2af5b7894223010e2904011bb19">f034f424</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-03-05T15:32:45+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/control,d/python3-biopython.links: move to w3c-sgml-lib
This package provides mathml2.dtd, but in a slightly more recent
version than the one which is provided by w3-dtd-mathml.
Thanks: Peter Green and Vincent Lefevre
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biopython/-/commit/bd2ca993a65034c176cf57de777d75d5acae65e5">bd2ca993</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-03-05T15:33:16+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove d/python3-biopython.lintian-overrides
The corresponding override is not in use anymore.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biopython/-/commit/aa4b435a28df289d33d729a9a064746e820d8995">aa4b435a</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-03-05T15:36:18+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">ready to upload to unstable
</pre>
</li>
</ul>
<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#254024120db90e765f024e403e78653ce7173de6">
debian/python3-biopython.links
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<li class="file-stats">
<a href="#4f54ae2ba427341e16fce8429f01ffdfa30a8314">
<span class="deleted-file">
−
debian/python3-biopython.lintian-overrides
</span>
</a>
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/python-biopython/-/compare/ad70d27a8bf4d383a096c32390bced5b186f938d...aa4b435a28df289d33d729a9a064746e820d8995#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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1
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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="mosel"><span class="n" style="color: #333;">python</span><span class="p">-</span><span class="n" style="color: #333;">biopython</span> <span class="p">(</span><span class="m" style="color: #099;">1.79</span><span class="p">+</span><span class="n" style="color: #333;">dfsg</span><span class="p">-</span><span class="m" style="color: #099;">3</span><span class="p">)</span> <span class="n" style="color: #333;">unstable</span><span class="p">;</span> <span class="n" style="color: #333;">urgency</span><span class="p">=</span><span class="n" style="color: #333;">medium</span></span>
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<td class="new_line diff-line-num new" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
2
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0"><pre style="margin: 0;">+<span id="LC2" class="line" lang="mosel"></span>
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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">
3
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0"><pre style="margin: 0;">+<span id="LC3" class="line" lang="mosel"> <span class="p">[</span> <span class="n" style="color: #333;">Peter</span> <span class="n" style="color: #333;">Michael</span> <span class="n" style="color: #333;">Green</span> <span class="p">]</span></span>
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<td class="new_line diff-line-num new" data-linenumber="4" 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">
4
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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="LC4" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Restrict</span> <span class="n" style="color: #333;">architecture</span> <span class="k" style="font-weight: 600;">list</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">muscle</span> <span class="n" style="color: #333;">build</span><span class="p">-</span><span class="n" style="color: #333;">dependency</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">reflect</span></span>
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<td class="new_line diff-line-num new" data-linenumber="5" 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">
5
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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="LC5" class="line" lang="mosel"> <span class="n" style="color: #333;">architectures</span> <span class="n" style="color: #333;">where</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">current</span> <span class="k" style="font-weight: 600;">version</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">muscle</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">available</span><span class="p">.</span></span>
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<td class="new_line diff-line-num new" data-linenumber="6" 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">
6
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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="LC6" class="line" lang="mosel"> <span class="p">(</span><span class="n" style="color: #333;">Closes</span><span class="p">:</span> <span class="p">#</span><span class="m" style="color: #099;">1006667</span><span class="p">)</span></span>
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<td class="new_line diff-line-num new" data-linenumber="7" 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">
7
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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="LC7" class="line" lang="mosel"></span>
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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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0"><pre style="margin: 0;">+<span id="LC8" class="line" lang="mosel"> <span class="p">[</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">É</span><span class="n" style="color: #333;">tienne</span> <span class="n" style="color: #333;">Mollier</span> <span class="p">]</span></span>
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<td class="new_line diff-line-num new" data-linenumber="9" 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">
9
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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="LC9" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">d</span><span class="p">/</span><span class="n" style="color: #333;">control</span><span class="p">,</span><span class="n" style="color: #333;">d</span><span class="p">/</span><span class="n" style="color: #333;">python3</span><span class="p">-</span><span class="n" style="color: #333;">biopython</span><span class="p">.</span><span class="n" style="color: #333;">links</span><span class="p">:</span> <span class="n" style="color: #333;">move</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">w3</span><span class="p">-</span><span class="n" style="color: #333;">dtd</span><span class="p">-</span><span class="n" style="color: #333;">mathml</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">slightly</span></span>
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<td class="new_line diff-line-num new" data-linenumber="10" 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">
10
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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="LC10" class="line" lang="mosel"> <span class="n" style="color: #333;">more</span> <span class="n" style="color: #333;">recent</span> <span class="n" style="color: #333;">w3c</span><span class="p">-</span><span class="n" style="color: #333;">sgml</span><span class="p">-</span><span class="n" style="color: #333;">lib</span><span class="p">.</span></span>
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<td class="new_line diff-line-num new" data-linenumber="11" 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">
11
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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="LC11" class="line" lang="mosel"> <span class="n" style="color: #333;">Thanks</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">Peter</span> <span class="n" style="color: #333;">Green</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">Vincent</span> <span class="n" style="color: #333;">Lefevre</span><span class="p">.</span></span>
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<td class="new_line diff-line-num new" data-linenumber="12" 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">
12
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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="LC12" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Remove</span> <span class="n" style="color: #333;">d</span><span class="p">/</span><span class="n" style="color: #333;">python3</span><span class="p">-</span><span class="n" style="color: #333;">biopython</span><span class="p">.</span><span class="n" style="color: #333;">lintian</span><span class="p">-</span><span class="n" style="color: #333;">overrides</span><span class="p">;</span> <span class="k" style="font-weight: 600;">not</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">use</span> <span class="n" style="color: #333;">anymore</span><span class="p">.</span></span>
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13
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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="LC13" class="line" lang="mosel"></span>
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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">
14
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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="LC14" class="line" lang="mosel"> <span class="p">--</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">É</span><span class="n" style="color: #333;">tienne</span> <span class="n" style="color: #333;">Mollier</span> <span class="p"><</span><span class="n" style="color: #333;">emollier</span><span class="p">@</span><span class="n" style="color: #333;">debian</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">></span> <span class="n" style="color: #333;">Sat</span><span class="p">,</span> <span class="m" style="color: #099;">05</span> <span class="n" style="color: #333;">Mar</span> <span class="m" style="color: #099;">2022</span> <span class="m" style="color: #099;">15</span><span class="p">:</span><span class="m" style="color: #099;">36</span><span class="p">:</span><span class="m" style="color: #099;">12</span> <span class="p">+</span><span class="m" style="color: #099;">0100</span></span>
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15
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC16" class="line" lang="mosel"><span class="n" style="color: #333;">python</span><span class="p">-</span><span class="n" style="color: #333;">biopython</span> <span class="p">(</span><span class="m" style="color: #099;">1.79</span><span class="p">+</span><span class="n" style="color: #333;">dfsg</span><span class="p">-</span><span class="m" style="color: #099;">2</span><span class="p">)</span> <span class="n" style="color: #333;">unstable</span><span class="p">;</span> <span class="n" style="color: #333;">urgency</span><span class="p">=</span><span class="n" style="color: #333;">medium</span></span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC17" class="line" lang="mosel"></span>
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3
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<td class="new_line diff-line-num" data-linenumber="18" 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">
18
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC18" class="line" lang="mosel"> <span class="p">*</span> <span class="n" style="color: #333;">Move</span> <span class="n" style="color: #333;">w3</span><span class="p">-</span><span class="n" style="color: #333;">dtd</span><span class="p">-</span><span class="n" style="color: #333;">mathml</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">Suggests</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">Depends</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">avoid</span> <span class="n" style="color: #333;">dangling</span> <span class="n" style="color: #333;">symlink</span></span>
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<a href="https://salsa.debian.org/med-team/python-biopython/-/compare/ad70d27a8bf4d383a096c32390bced5b186f938d...aa4b435a28df289d33d729a9a064746e820d8995#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="line_content match" style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -25,7 +25,7 @@ Build-Depends: debhelper-compat (= 13),</td>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> emboss <!nocheck>,</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> fasttree <!nocheck>,</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> mafft <!nocheck>,</span>
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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="LC28" class="line" lang="plaintext"> muscle <!nocheck>,</span>
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0"><pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> muscle <span class="idiff left right addition">[i386 amd64 x32] </span><!nocheck>,</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> ncbi-blast+ <!nocheck>,</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"> phylip <!nocheck>,</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> phyml [any-amd64 any-i386] <!nocheck>,</span>
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<td class="line_content match" style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -60,7 +60,7 @@ Depends: ${python3:Depends},</td>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC60" class="line" lang="plaintext"> ${misc:Depends},</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC61" class="line" lang="plaintext"> python3-renderpm,</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC62" class="line" lang="plaintext"> python3-reportlab,</span>
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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="LC63" class="line" lang="plaintext"> w3<span class="idiff left right deletion">-dtd-mathml</span></span>
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0"><pre style="margin: 0;">+<span id="LC63" class="line" lang="plaintext"> w3<span class="idiff left right addition">c-sgml-lib</span></span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC64" class="line" lang="plaintext">Recommends: python-biopython-doc (= ${source:Version}),</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC65" class="line" lang="plaintext"> ncbi-blast+ (>= 2.10.1-3)</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;"><pre style="margin: 0;"> <span id="LC66" class="line" lang="plaintext">Suggests: python3-tk,</span>
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<a href="https://salsa.debian.org/med-team/python-biopython/-/compare/ad70d27a8bf4d383a096c32390bced5b186f938d...aa4b435a28df289d33d729a9a064746e820d8995#254024120db90e765f024e403e78653ce7173de6"><strong>debian/python3-biopython.links</strong></a>
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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="LC1" class="line" lang="plaintext">/usr/share/xml/<span class="idiff left right deletion">schema/w3c/mathml/dtd</span>/mathml2.dtd /usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd</span></pre></td>
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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">/usr/share/xml/<span class="idiff left right addition">w3c-sgml-lib/schema/dtd/XX-MathML2-20031104</span>/mathml2.dtd /usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd</span></pre></td>
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<a href="https://salsa.debian.org/med-team/python-biopython/-/compare/ad70d27a8bf4d383a096c32390bced5b186f938d...aa4b435a28df289d33d729a9a064746e820d8995#4f54ae2ba427341e16fce8429f01ffdfa30a8314"><strong>debian/python3-biopython.lintian-overrides</strong>
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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="LC1" class="line" lang="plaintext"># This link has been introduced with the resolution of #672407 and might not</span>
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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="LC2" class="line" lang="plaintext"># be as much a concern as if it were an architecture dependent shared object.</span>
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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="LC3" class="line" lang="plaintext">ldconfig-escape usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd -> usr/share/xml/schema/w3c/mathml/dtd/mathml2.dtd</span></pre></td>
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