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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/pdb2pqr">Debian Med / pdb2pqr</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/f0c718487e0aa40bf7df30839dcd375f0f79ed03">f0c71848</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:14:41+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove ancient X-Python-Version field
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/bbc96b475e2e38c236ec8dd10e6637f51ee63205">bbc96b47</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:18:37+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix homepage
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/2d8c161796d2200dda93b2b43d9c63b20eb0d10d">2d8c1617</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:19:22+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/374fda0331a8c31418af938d920a6bb898b767f9">374fda03</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:19:38+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 11
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/da3af1adcfc3aaf541b72822e2878a7e9756a2c0">da3af1ad</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:20:29+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Point Vcs fields to salsa.debian.org
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/d88684ad4d6607eee109c0076508fe1d2cc69c3c">d88684ad</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:20:29+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.1.5
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/e99d1815ab4ec7eede35f939a56775cb64b339d0">e99d1815</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T22:24:58+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Adapt docbase paths
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/57f09ea88b43965155beb51d42aca7b5572cb891">57f09ea8</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T23:16:47+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">do not parse d/changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/4ccd5fd607e14ca5cd93776ed6daf7ec22ea7a8c">4ccd5fd6</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T23:20:52+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix spelling
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pdb2pqr/commit/ca581224593d4a73582be899adec415615e98471">ca581224</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-13T23:23:43+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>11 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
debian/compat
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
<li class="file-stats">
<a href="#a7c4ea78acbf653a73c5b674089aed1d1290c1e1">
debian/patches/fix_hardening_no_relro
</a>
</li>
<li class="file-stats">
<a href="#6f4cd6124fce0b07efdd557b19d5dd746e36f097">
debian/patches/fix_no_debug_symbols_warning
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#45ae034d1d71b2d961abb7c91cf3d2f1a02a59c6">
<span class="new-file">
+
debian/patches/spelling.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#e86362f3f98d26dcc9b25f4ddd66e338ce33999c">
debian/pdb2pqr-doc.doc-base
</a>
</li>
<li class="file-stats">
<a href="#27a7894397a58c8e90cc6d3f10355d3fa529ea90">
debian/pdb2pqr.1.xml
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
<hr>
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1
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<td class="diff-line-num new_line old" data-linenumber="1" 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="LC1" class="line" lang="plaintext">pdb2pqr (2.1.1+dfsg-3) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">pdb2pqr (2.1.1+dfsg-3) <span class="idiff left right">unstable</span>; urgency=medium</span>
</pre>
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<td class="diff-line-num new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> [ Steffen Moeller ]</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * debian/upstream/metadata:</span>
</pre>
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<tr class="line_holder match" id="" style="line-height: 1.6;">
<td class="diff-line-num unfold js-unfold old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,7 +8,15 @@ pdb2pqr (2.1.1+dfsg-3) UNRELEASED; urgency=medium</td>
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<td class="diff-line-num new_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> [ Tatiana Malygina ]</span>
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<td class="diff-line-num old_line" 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">
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<td class="diff-line-num new_line" 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">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> * Enhance README.test and README.Debian</span>
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<td class="diff-line-num old_line" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="10" 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">
10
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"></span>
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<td class="diff-line-num old old_line" data-linenumber="11" 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">
11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext"> -- Tatiana Malygina <merlettaia@gmail.com> Tue, 05 Jul 2016 17:02:33 +0200</span>
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<td class="diff-line-num new old_line" 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">
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<td class="diff-line-num new new_line" 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">
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> [ Andreas Tille ]</span>
</pre>
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<td class="diff-line-num new old_line" 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">
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> * Remove ancient X-Python-Version field</span>
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<td class="diff-line-num new new_line" data-linenumber="13" 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="LC13" class="line" lang="plaintext"> * Fix Homepage</span>
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<td class="diff-line-num new new_line" 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="plaintext"> * debhelper 11</span>
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<td class="diff-line-num new new_line" 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="plaintext"> * Point Vcs fields to salsa.debian.org</span>
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<td class="diff-line-num new new_line" 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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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> * Standards-Version: 4.1.5</span>
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<td class="diff-line-num new new_line" data-linenumber="17" 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="LC17" class="line" lang="plaintext"> * d/rules: do not parse d/changelog</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Fri, 13 Jul 2018 23:21:02 +0200</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">pdb2pqr (2.1.1+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">9</span></span></pre>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">11</span></span></pre>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#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">@@ -5,7 +5,7 @@ Uploaders: Steffen Moeller <moeller@debian.org>,</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Build-Depends: debhelper (>= <span class="idiff left right">9</span>),</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">Build-Depends: debhelper (>= <span class="idiff left right">11~</span>),</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> gfortran,</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> swig,</span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> xmlto,</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">@@ -14,11 +14,10 @@ Build-Depends: debhelper (>= 9),</td>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> python-numpy,</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> scons,</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> dos2unix</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext">Standards-Version: 3.9.8</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext">Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/pdb2pqr.git</span>
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19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext">Vcs-Git: https://anonscm.debian.org/git/debian-med/pdb2pqr.git</span>
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20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext">Homepage: http://pdb2pqr.poissonboltzmann.org/pdb2pqr/</span>
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21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext">X-Python-Version: 2.7</span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">Standards-Version: 4.1.5</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/pdb2pqr</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/pdb2pqr.git</span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">Homepage: https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/apbs/pdb2pqr.html</span>
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22
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
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23
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">Package: pdb2pqr</span>
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24
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Architecture: any</span>
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<li id="adb7f75f79e3bb85eb62912a2904c5d24af878fb">
<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Format: http<span class="idiff left right">s</span>://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Upstream-Name: pdb2pqr</span>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Source: http://sourceforge.net/projects/pdb2pqr/</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Files-Excluded:</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="95" 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="95" 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">@@ -95,7 +95,7 @@ License: GPL-2+</td>
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95
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="plaintext">Files: debian/*</span>
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<td class="diff-line-num old_line" data-linenumber="96" 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">
96
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="plaintext">Copyright: © 2007-2010 Steffen Moeller <moeller@debian.org></span>
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<td class="diff-line-num old_line" data-linenumber="97" 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="LC97" class="line" lang="plaintext"> © 2010-2012 Manuel Prinz <manuel@debian.org></span>
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98
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="plaintext"> © 2013-201<span class="idiff left right">5</span> Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="plaintext"> © 2013-201<span class="idiff left right">8</span> Andreas Tille <tille@debian.org></span>
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99
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="plaintext">License: GPL-2+</span>
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="plaintext"></span>
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101
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="plaintext">License: GPL-2+</span>
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<li id="a7c4ea78acbf653a73c5b674089aed1d1290c1e1">
<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#a7c4ea78acbf653a73c5b674089aed1d1290c1e1"><strong>debian/patches/fix_hardening_no_relro</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<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 @@ Description: this fix prevents hardening-no-relro warning from appearing during</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/SConscript-main.py</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/SConscript-main.py</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -100,6 +100,9 @@</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -100,6 +100,9 @@<span class="idiff left right"> if env['EXTRA_CXXFLAGS']:</span></span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="diff"> if env['EXTRA_LINKFLAGS']:</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="diff"> env.Append(LINKFLAGS = [env['EXTRA_LINKFLAGS']])</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="diff"> </span>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#6f4cd6124fce0b07efdd557b19d5dd746e36f097"><strong>debian/patches/fix_no_debug_symbols_warning</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,8 +3,8 @@ Last-Update: 2016-06-15</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="diff">Description: this fix prevents debug-file-with-no-debug-symbols warning from </span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="diff">appearing during lintian run</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- <span class="idiff left right">pdb2pqr.orig</span>/build_config.py</span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ <span class="idiff left right">pdb2pqr</span>/build_config.py</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- <span class="idiff left right">a</span>/build_config.py</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ <span class="idiff left right">b</span>/build_config.py</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -58,7 +58,7 @@</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="diff"> #Set to True to build compiled extentions with debug headers.</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="diff"> #Defaults to False</span>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,3 +3,4 @@ no_privacy_breach_logo.patch</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">do_not_try_to_build_removed_js_target.patch</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">fix_hardening_no_relro</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">fix_no_debug_symbols_warning</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">spelling.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#45ae034d1d71b2d961abb7c91cf3d2f1a02a59c6"><strong>debian/patches/spelling.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Description: Fix spelling</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Author: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Last-Update: Fri, 13 Jul 2018 22:26:48 +0200</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/pdb2pka/substruct/Algorithms.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/pdb2pka/substruct/Algorithms.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -74,7 +74,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> /*----------------------------------------------------------------------------*/</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> static char find_max_clique__doc__[] = </span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> "This function takes a two-dimensional Numeric-array and \</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-interpretes it as the adjacency matrix of a graph. It then \</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+interprets it as the adjacency matrix of a graph. It then \</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> uses the algorithm of Bron and Kerbosch to detect maximal \</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> cliques in that graph and returns the nodes of a maximal clique. \</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> It is assumed that the nodes 0..n-1 are given in the order as they \</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -173,7 +173,7 @@ int collect_cliques(const _set *st, void</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> /*----------------------------------------------------------------------------*/</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> static char find_cliques__doc__[] = </span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> "This function takes a two-dimensional Numeric-array and \</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-interpretes it as the adjacency matrix of a graph. It then \</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+interprets it as the adjacency matrix of a graph. It then \</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> uses the algorithm of Bron and Kerbosch to detect maximal \</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> cliques in that graph and returns a list of lists containing \</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> the nodes of all maximal cliques (up to 10000). It is assumed \</span></pre>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#e86362f3f98d26dcc9b25f4ddd66e338ce33999c"><strong>debian/pdb2pqr-doc.doc-base</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">@@ -5,5 +5,5 @@ Abstract: This guide explains the use of PDB2PQR</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Section: Science/Chemistry</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Format: HTML</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Index: /usr/share/doc/pdb2pqr<span class="idiff left right">-doc</span>/userguide.html</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Files: /usr/share/doc/pdb2pqr<span class="idiff left right">-doc</span>/userguide.html</span></pre>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">Index: /usr/share/doc/pdb2pqr/userguide.html</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Files: /usr/share/doc/pdb2pqr/userguide.html</span></pre>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#27a7894397a58c8e90cc6d3f10355d3fa529ea90"><strong>debian/pdb2pqr.1.xml</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">@@ -110,7 +110,7 @@</td>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="xml"> <span class="nt" style="color: navy;"><term><option></span>--clean<span class="nt" style="color: navy;"></option></term></span></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="xml"> <span class="nt" style="color: navy;"><listitem></span></span>
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="xml"> <span class="nt" style="color: navy;"><para></span>Do no optimization, atom addition, or parameter assignment, just return</span>
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="xml"> the original <span class="nt" style="color: navy;"><acronym></span>PDB<span class="nt" style="color: navy;"></acronym></span> file in al<span class="idiff left right">l</span>igned format.<span class="nt" style="color: navy;"></para></span></span>
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="xml"> the original <span class="nt" style="color: navy;"><acronym></span>PDB<span class="nt" style="color: navy;"></acronym></span> file in aligned format.<span class="nt" style="color: navy;"></para></span></span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="xml"> <span class="nt" style="color: navy;"></listitem></span></span>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="xml"> <span class="nt" style="color: navy;"></varlistentry></span></span>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="xml"> <span class="nt" style="color: navy;"><varlistentry></span></span>
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<a href="https://salsa.debian.org/med-team/pdb2pqr/compare/a3711e859a99bcb76fcbd53a8826110c513d3248...ca581224593d4a73582be899adec415615e98471#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,10 +3,6 @@</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="make"><span class="k" style="font-weight: 600;">export </span><span class="nv" style="color: teal;">DEB_BUILD_MAINT_OPTIONS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: teal;">hardening</span><span class="o" style="font-weight: 600;">=</span>+all</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="make"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="make"><span class="nv" style="color: teal;">PACKAGE</span> <span class="o" style="font-weight: 600;">:=</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">$</span><span class="o" style="font-weight: 600;">(</span>firstword <span class="nf" style="color: #900; font-weight: 600;">$(</span><span class="nb" style="color: #0086b3;">shell</span> dh_listpackages<span class="nv" style="color: teal;">)</span><span class="o" style="font-weight: 600;">)</span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="make"><span class="nv" style="color: teal;">VERSION</span> <span class="o" style="font-weight: 600;">:=</span> <span class="nf" style="color: #900; font-weight: 600;">$(</span><span class="nb" style="color: #0086b3;">shell</span> dpkg-parsechangelog | <span class="nb" style="color: #0086b3;">awk</span> <span class="s1" style="color: #d14;">'/^Version:/ { print $$2 }'</span><span class="nv" style="color: teal;">)</span></span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="make"><span class="nv" style="color: teal;">UPSTREAM</span> <span class="o" style="font-weight: 600;">:=</span> <span class="nf" style="color: #900; font-weight: 600;">$(</span><span class="nb" style="color: #0086b3;">shell</span> <span class="nb" style="color: #0086b3;">echo</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: teal;">$(VERSION)</span><span class="s2" style="color: #d14;">"</span> | <span class="nb" style="color: #0086b3;">sed</span> <span class="s1" style="color: #d14;">'s/-.\+$$//'</span><span class="nv" style="color: teal;">)</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># Compile with -fPIC on all platforms (fix for #636204, #654240)</span></span>
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11
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="make"><span class="k" style="font-weight: 600;">export </span><span class="nv" style="color: teal;">DEB_CFLAGS_MAINT_APPEND</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: navy;">-fPIC</span> <span class="nt" style="color: navy;">-I</span>/usr/share/pyshared/numpy/core/include/numpy</span>
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12
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="make"><span class="k" style="font-weight: 600;">export </span><span class="nv" style="color: teal;">DEB_CPPFLAGS_MAINT_APPEND</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: navy;">-fPIC</span> <span class="nt" style="color: navy;">-I</span>/usr/share/pyshared/numpy/core/include/numpy</span>
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