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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/circos">Debian Med / circos</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/a98ffa042f456b9e78db7726888c5d0ed24e8ffe">a98ffa04</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T08:44:25+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix config path
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/9b92b7fffbedf41a689f40c9410b98880bf1ea7a">9b92b7ff</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T08:47:12+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Standards-Version: 4.5.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/043ed4848dc6b78e651b672d2e5f0e6fb0ee4223">043ed484</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T08:47:17+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: debhelper-compat 13
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/ac9b88bde92a06fb8ab1289fcde583c541a42761">ac9b88bd</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T08:47:28+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: autopkgtest: s/ADTTMP/AUTOPKGTEST_TMP/g
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/8f493bd2e017778e496377d678d1c7f52622250e">8f493bd2</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T08:47:29+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Add salsa-ci file
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/d04a53c001b10b7e2ff4fc74281fe0aa300d9f7d">d04a53c0</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T08:47:29+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Rules-Requires-Root: no
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/7a3e2914d6d03d5c0b9ad6ef79267e47edfaa10d">7a3e2914</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T09:06:14+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Install error message
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/7d20e603f26f6517d251a63d8a993657319054ca">7d20e603</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T09:48:53+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">install example configuration as additional configuration files
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/circos/-/commit/9a3a8e439697f8a17f977e76570ecfcc07bdfeb4">9a3a8e43</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-05T10:20:01+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Do not ship copy of example configuration files but rather symlink to the files that are now provided in /etc/circos
</pre>
</li>
</ul>
<h4>9 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#868dd00b6786e753fd5772f6a40ef51826b71c84">
debian/circos.install
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<span class="deleted-file">
−
debian/compat
</span>
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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</li>
<li class="file-stats">
<a href="#82f81edd980b345d5b0000c9df616af92c73cbc8">
<span class="new-file">
+
debian/patches/fix_config_path.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#b1dbf22e88351ec0d5d1d1a7f53295504b480e61">
<span class="new-file">
+
debian/salsa-ci.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
debian/tests/run-unit-test
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">circos (0.69.9+dfsg-2) UNRELEASED; urgency=medium</span>
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<td class="diff-line-num new new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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<td class="diff-line-num new new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Fix config path and install example configuration as additional</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> configuration files</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> Closes: #962247</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Standards-Version: 4.5.0 (routine-update)</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * debhelper-compat 13 (routine-update)</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * autopkgtest: s/ADTTMP/AUTOPKGTEST_TMP/g (routine-update)</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> * Add salsa-ci file (routine-update)</span>
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<td class="diff-line-num new new_line" 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">
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> * Rules-Requires-Root: no (routine-update)</span>
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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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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> * Install error message</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> * Do not ship copy of example configuration files but rather symlink to</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"> the files that are now provided in /etc/circos</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Fri, 05 Jun 2020 08:43:04 +0200</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">circos (0.69.9+dfsg-1) unstable; urgency=medium</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"> * New upstream version</span>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#868dd00b6786e753fd5772f6a40ef51826b71c84"><strong>debian/circos.install</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="php"><span class="nx">bin</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">bin</span><span class="o" style="font-weight: 600;">/</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="php"><span class="nx">etc</span><span class="o" style="font-weight: 600;">/*</span> <span class="nx">etc</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span><span class="o" style="font-weight: 600;">/</span></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="php"><span class="nx">lib</span><span class="o" style="font-weight: 600;">/*</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">share</span><span class="o" style="font-weight: 600;">/</span><span class="nx">perl5</span><span class="o" style="font-weight: 600;">/</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="php"><span class="nx">tiles</span><span class="o" style="font-weight: 600;">/*</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">share</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span><span class="o" style="font-weight: 600;">/</span><span class="nx">tiles</span><span class="o" style="font-weight: 600;">/</span></span></pre>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="php"><span class="nx">bin</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">bin</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="php"><span class="nx">etc</span><span class="o" style="font-weight: 600;">/*</span> <span class="nx">etc</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="php"><span class="nx">example</span><span class="o" style="font-weight: 600;">/</span><span class="nx">etc</span><span class="o" style="font-weight: 600;">/*</span> <span class="nx">etc</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="php"><span class="nx">lib</span><span class="o" style="font-weight: 600;">/*</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">share</span><span class="o" style="font-weight: 600;">/</span><span class="nx">perl5</span></span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="php"><span class="nx">tiles</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">share</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="php"><span class="nx">error</span> <span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">share</span><span class="o" style="font-weight: 600;">/</span><span class="nx">circos</span></span></pre>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">12</span></pre>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#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">@@ -4,11 +4,12 @@ Uploaders: Olivier Sallou <osallou@debian.org>,</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper<span class="idiff left right"> (>= 12~</span>)</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">4</span>.0</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper<span class="idiff left right">-compat (= 13</span>)</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">5</span>.0</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/circos</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/circos.git</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Homepage: http://circos.ca/</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Package: circos</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Architecture: all</span>
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<li id="82f81edd980b345d5b0000c9df616af92c73cbc8">
<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#82f81edd980b345d5b0000c9df616af92c73cbc8"><strong>debian/patches/fix_config_path.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: Fix config path</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Bug-Debian: https://bugs.debian.org/962247</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="p">Last-Update: Fri, 05 Jun 2020 08:43:04 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="p">Comment: May be it would be better to do in d/rules some</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> find debian/circos -type f | xargs sed -i 's:include etc/:include :g'</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff">--- a/bin/circos</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/bin/circos</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="p">@@ -143,10 +143,10 @@</span> A typical configuration file might look</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> </plots></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> # colors, fonts and fill patterns</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/colors_fonts_patterns.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include colors_fonts_patterns.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> # system parameters</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/housekeeping.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include housekeeping.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> =head2 Modularity</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="p">@@ -168,12 +168,12 @@</span> Parameter definitions that do not freque</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"> # image size, output file name</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> <image></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/image.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include image.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> </image></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> # color names and lists, location of fonts, fill patterns</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/colors_fonts_patterns.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include colors_fonts_patterns.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> # low-level system parameters</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/housekeeping.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include housekeeping.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"> =head2 Overriding with *</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"><span class="p">@@ -181,7 +181,7 @@</span> To override a parameter that has been in</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"> <image></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> # included file defines 'radius'</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/image.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include image.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="diff"> # this will override the radius value</span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="diff"> radius* = 2500p</span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="diff"> </image></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="diff"><span class="p">@@ -248,7 +248,7 @@</span> Multiple instances of the following bloc</span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="diff"> The purpose of this is to allow you to add to canonical definitions.</span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="diff"> # this file defines default <colors>, <fonts> and <patterns></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/colors_fonts_patterns.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include colors_fonts_patterns.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="diff"> # add to the colors block</span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="diff"> <colors></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="diff"><span class="p">@@ -315,7 +315,7 @@</span> Users who are unaware of this feature of</span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="diff"> If you want to redefine the search paths, see the C<data_path> parameter in C<etc/housekeeping.conf> in the distribution directory, or overide it in your configuration file</span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- <<include etc/housekeeping.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ <<include housekeeping.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="diff"> data_path* = ...</span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="diff"> =head1 OPTIONS</span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/etc/colors_fonts_patterns.conf</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/etc/colors_fonts_patterns.conf</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="diff"><span class="p">@@ -1,12 +1,12 @@</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="diff"> <colors></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-<<include etc/colors.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+<<include colors.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="diff"> </colors></span>
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74
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="diff"> <fonts></span>
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76
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-<<include etc/fonts.conf>></span></span>
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77
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+<<include fonts.conf>></span></span>
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78
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="diff"> </fonts></span>
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79
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<pre style="margin: 0;">+<span id="LC79" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="diff"> <patterns></span>
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81
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-<<include etc/patterns.conf>></span></span>
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82
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-</patterns></span></span>
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83
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="diff"><span class="err" style="color: #a61717; background-color: #e3d2d2;">\</span> No newline at end of file</span>
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84
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+<<include patterns.conf>></span></span>
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85
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+</patterns></span></span>
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86
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<pre style="margin: 0;">+<span id="LC86" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/etc/gddiag.conf</span></span>
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87
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<pre style="margin: 0;">+<span id="LC87" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/etc/gddiag.conf</span></span>
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="diff"><span class="p">@@ -18,6 +18,6 @@</span> marginy = 10</span>
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="diff"> output_file_root = gddiag</span>
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91
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="diff"> </span>
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92
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-<<include etc/colors_fonts_patterns.conf>></span></span>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-<<include etc/housekeeping.conf>></span></span>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+<<include colors_fonts_patterns.conf>></span></span>
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95
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+<<include housekeeping.conf>></span></span>
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96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/etc/brewer.conf</span></span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/etc/brewer.conf</span></span>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="diff"><span class="p">@@ -4,6 +4,6 @@</span></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="diff"> # Your color blocks should now be</span>
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="diff"> #</span>
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="diff"> # <colors></span>
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-# <<include etc/colors.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+# <<include colors.conf>></span></span>
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="diff"> # # any custom colors here</span>
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="diff"> # </colors></span>
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/lib/Circos/Error.pm</span></span>
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/lib/Circos/Error.pm</span></span>
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="diff"><span class="p">@@ -129,7 +129,7 @@</span> $ERROR{configuration} =</span>
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="diff"> no_debug_group=>"You asked for debug group [%s] using -debug_group. This group is not defined. Please use one of\n\n[%s]\n\nTo request all groups, use -debug_group _all.",</span>
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="diff"> deprecated =>"The configuration syntax [%s] is deprecated and no longer supported. Instead, use [%s].",</span>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="diff"> no_such_conf_item => "You attempted to reference a configuration parameter using %s, but no parameter was found at the configuration file position %s.\n\nTo reference a parameter in another block, provide the full block path, such as conf(ideogram,spacing,default). In general, conf(block1,block2,...,blockn,parameter).\n\nTo reference the first defined parameter above the block in which conf() is called, use conf(.,parameter).",</span>
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- no_housekeeping => "You did not include the etc/housekeeping.conf file in your configuration file. This file contains many important system parameters and must be included in each Circos configuration.\n\nTo do so, use\n\n <<include etc/housekeeping.conf>>\n\nin your main configuration file. For an example, see\n\n http://www.circos.ca/documentation/tutorials/quick_guide/hello_world/configuration\n\nIf you have made other provisions to include these parameters, make sure you have\n\n housekeeping = yes\n\ndefined to skip this check.",</span></span>
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ no_housekeeping => "You did not include the etc/housekeeping.conf file in your configuration file. This file contains many important system parameters and must be included in each Circos configuration.\n\nTo do so, use\n\n <<include housekeeping.conf>>\n\nin your main configuration file. For an example, see\n\n http://www.circos.ca/documentation/tutorials/quick_guide/hello_world/configuration\n\nIf you have made other provisions to include these parameters, make sure you have\n\n housekeeping = yes\n\ndefined to skip this check.",</span></span>
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="diff"> multi_word_key => "Your parameter [%s] contains a white space. This is not allowed. You either forgot a '=' in assignment (e.g. 'red 255,0,0' vs 'red = 255,0,0') or used a multi-word parameter name\n (e.g. 'my red = 255,0,0' vs 'my_red = 255,0,0'",</span>
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="diff"> missing => "file(error/configuration.missing.txt)",</span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="diff"> bad_parameter_type => "You attempted to reference a configuration parameter group with name [%s], but it is not defined",</span></pre>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#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 @@ configpath_add_etc</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">fix_examples</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">fix_manpage</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">fix_pod_syntax.patch</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">fix_config_path.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;">#!/usr/bin/make -f</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># -*- makefile -*-</span></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># debian/rules file for circos</span></span>
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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;">include</span><span class="sx" style="color: #d14;"> /usr/share/dpkg/default.mk</span></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="c" style="color: #998; font-style: italic;"># Uncomment this to turn on verbose mode.</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;">#export DH_VERBOSE=1</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,16 +9,23 @@</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="make"><span class="nl">%</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="make"> dh <span class="nv" style="color: #008080;">$@</span></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="make"></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="make"><span class="nl">override_dh_install</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="make"> dh_install</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="make"> <span class="c" style="color: #998; font-style: italic;"># Update <span class="idiff left right">circos</span> relative path to absolute debian paths</span></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="make"> find debian/<span class="idiff left">circos </span><span class="nt" style="color: #000080;"><span class="idiff">-type</span></span><span class="idiff"> f | xargs </span><span class="nb" style="color: #0086b3;"><span class="idiff">sed</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-i</span></span><span class="idiff"> </span><span class="s1" style="color: #d14;"><span class="idiff right">'s/include etc/include \/usr\/share\/circos</span>\/etc/g'</span></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="make"> find debian/<span class="idiff left">circos </span><span class="nt" style="color: #000080;"><span class="idiff">-type</span></span><span class="idiff"> f | xargs </span><span class="nb" style="color: #0086b3;"><span class="idiff">sed</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-i</span></span><span class="idiff"> </span><span class="s1" style="color: #d14;"><span class="idiff right">'s/include fonts/include \/usr\/share\/circos</span>\/fonts/g'</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="make"> find debian/<span class="idiff left">circos </span><span class="nt" style="color: #000080;"><span class="idiff">-type</span></span><span class="idiff"> f | xargs </span><span class="nb" style="color: #0086b3;"><span class="idiff">sed</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-i</span></span><span class="idiff"> </span><span class="s1" style="color: #d14;"><span class="idiff right">'s/include tiles/include \/usr\/share\/circos</span>\/tiles/g'</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="make"> <span class="c" style="color: #998; font-style: italic;"># Update </span><span class="nv" style="color: #008080;"><span class="idiff left right">$(DEB_SOURCE)</span></span> relative path to absolute debian paths</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="make"> find debian/<span class="nv" style="color: #008080;"><span class="idiff left">$(DEB_SOURCE)</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-type</span></span><span class="idiff"> f | xargs </span><span class="nb" style="color: #0086b3;"><span class="idiff">sed</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-i</span></span><span class="idiff"> </span><span class="s1" style="color: #d14;"><span class="idiff">'s/include etc/include \/usr\/share\/</span></span><span class="nv" style="color: #008080;"><span class="idiff right">$(DEB_SOURCE)</span></span><span class="s1" style="color: #d14;">\/etc/g'</span></span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="make"> find debian/<span class="nv" style="color: #008080;"><span class="idiff left">$(DEB_SOURCE)</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-type</span></span><span class="idiff"> f | xargs </span><span class="nb" style="color: #0086b3;"><span class="idiff">sed</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-i</span></span><span class="idiff"> </span><span class="s1" style="color: #d14;"><span class="idiff">'s/include fonts/include \/usr\/share\/</span></span><span class="nv" style="color: #008080;"><span class="idiff right">$(DEB_SOURCE)</span></span><span class="s1" style="color: #d14;">\/fonts/g'</span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="make"> find debian/<span class="nv" style="color: #008080;"><span class="idiff left">$(DEB_SOURCE)</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-type</span></span><span class="idiff"> f | xargs </span><span class="nb" style="color: #0086b3;"><span class="idiff">sed</span></span><span class="idiff"> </span><span class="nt" style="color: #000080;"><span class="idiff">-i</span></span><span class="idiff"> </span><span class="s1" style="color: #d14;"><span class="idiff">'s/include tiles/include \/usr\/share\/</span></span><span class="nv" style="color: #008080;"><span class="idiff right">$(DEB_SOURCE)</span></span><span class="s1" style="color: #d14;">\/tiles/g'</span></span>
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18
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18
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="make"> <span class="k" style="font-weight: 600;">for </span>pl <span class="k" style="font-weight: 600;">in</span> <span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">grep</span> <span class="nt" style="color: #000080;">-Rl</span> <span class="s1" style="color: #d14;">'#![[:space:]]*/usr/bin/env[[:space:]]\+perl'</span> debian/<span class="k" style="font-weight: 600;">*</span>/<span class="k" style="font-weight: 600;">*</span><span class="sb" style="color: #d14;">`</span> <span class="p">;</span> <span class="k" style="font-weight: 600;">do</span> <span class="se" style="color: #d14;">\</span></span>
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<td class="diff-line-num old_line" data-linenumber="19" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
19
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19
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="make"> <span class="nb" style="color: #0086b3;">sed</span> <span class="nt" style="color: #000080;">-i</span> <span class="s1" style="color: #d14;">'1s?^#![[:space:]]*/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?'</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">$</span><span class="nv" style="color: #008080;">${pl}</span> <span class="p">;</span> <span class="se" style="color: #d14;">\</span></span>
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20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="make"> <span class="k" style="font-weight: 600;">done</span></span>
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21
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21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="make"></span>
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22
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22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="make"><span class="nl">override_dh_installman</span><span class="o" style="font-weight: 600;">:</span></span>
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23
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="make"> pod2man bin/circos <span class="o" style="font-weight: 600;">></span> <span class="nv" style="color: #008080;">$(CURDIR)</span>/debian/circos/usr/share/man/man1/circos.1</span></pre>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="make"> pod2man bin/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span> <span class="o" style="font-weight: 600;">></span> <span class="nv" style="color: #008080;">$(CURDIR)</span>/debian/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span>/usr/share/man/man1/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span>.1</span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="make"></span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="make"><span class="nl">override_dh_link</span><span class="o" style="font-weight: 600;">:</span></span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="make"> dh_link</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="make"> <span class="k" style="font-weight: 600;">for </span>cfgfile <span class="k" style="font-weight: 600;">in </span>debian/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span>/usr/share/doc/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span>/examples/etc/<span class="k" style="font-weight: 600;">*</span>.conf <span class="p">;</span> <span class="k" style="font-weight: 600;">do</span> <span class="se" style="color: #d14;">\</span></span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="make"> <span class="nb" style="color: #0086b3;">rm</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">$</span><span class="nv" style="color: #008080;">${cfgfile}</span> <span class="p">;</span> <span class="se" style="color: #d14;">\</span></span>
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29
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="make"> dh_link etc/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span>/<span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">basename</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">$</span><span class="nv" style="color: #008080;">${cfgfile}</span><span class="sb" style="color: #d14;">`</span> usr/share/doc/<span class="nv" style="color: #008080;">$(DEB_SOURCE)</span>/examples/etc/<span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">basename</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">$</span><span class="nv" style="color: #008080;">${cfgfile}</span><span class="sb" style="color: #d14;">`</span> <span class="p">;</span> <span class="se" style="color: #d14;">\</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="make"> <span class="k" style="font-weight: 600;">done</span></span>
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31
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="make"></span></pre>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#b1dbf22e88351ec0d5d1d1a7f53295504b480e61"><strong>debian/salsa-ci.yml</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="yaml"><span class="nn" style="color: #555;">---</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="yaml"><span class="na" style="color: #008080;">include</span><span class="pi">:</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="yaml"> <span class="pi">-</span> <span class="s" style="color: #d14;">https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="yaml"> <span class="pi">-</span> <span class="s" style="color: #d14;">https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml</span></span></pre>
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<a href="https://salsa.debian.org/med-team/circos/-/compare/83be615103743566efe5398763176890dac10b5f...9a3a8e439697f8a17f977e76570ecfcc07bdfeb4#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f"><strong>debian/tests/run-unit-test</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#!/bin/sh -e</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="shell"><span class="nv" style="color: #008080;">pkg</span><span class="o" style="font-weight: 600;">=</span>circos</span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="shell"><span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">[</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$A<span class="idiff left right">DT</span>TMP</span><span class="s2" style="color: #d14;">"</span> <span class="o" style="font-weight: 600;">=</span> <span class="s2" style="color: #d14;">""</span> <span class="o" style="font-weight: 600;">]</span> <span class="p">;</span> <span class="k" style="font-weight: 600;">then</span></span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="shell"><span class="k" style="font-weight: 600;"> </span><span class="nv" style="color: #008080;">A<span class="idiff left right">DT</span>TMP</span><span class="o" style="font-weight: 600;">=</span><span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">mktemp</span> <span class="nt" style="color: #000080;">-d</span> /tmp/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">pkg</span><span class="k" style="font-weight: 600;">}</span><span class="nt" style="color: #000080;">-test</span>.XXXXXX<span class="sb" style="color: #d14;">`</span></span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="shell"> <span class="nb" style="color: #0086b3;">trap</span> <span class="s2" style="color: #d14;">"rm -rf </span><span class="nv" style="color: #008080;">$A<span class="idiff left right">DT</span>TMP</span><span class="s2" style="color: #d14;">"</span> 0 INT QUIT ABRT PIPE TERM</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="shell"><span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">[</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$A<span class="idiff left right">UTOPKGTEST_</span>TMP</span><span class="s2" style="color: #d14;">"</span> <span class="o" style="font-weight: 600;">=</span> <span class="s2" style="color: #d14;">""</span> <span class="o" style="font-weight: 600;">]</span> <span class="p">;</span> <span class="k" style="font-weight: 600;">then</span></span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="shell"><span class="k" style="font-weight: 600;"> </span><span class="nv" style="color: #008080;">A<span class="idiff left right">UTOPKGTEST_</span>TMP</span><span class="o" style="font-weight: 600;">=</span><span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">mktemp</span> <span class="nt" style="color: #000080;">-d</span> /tmp/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">pkg</span><span class="k" style="font-weight: 600;">}</span><span class="nt" style="color: #000080;">-test</span>.XXXXXX<span class="sb" style="color: #d14;">`</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="shell"> <span class="nb" style="color: #0086b3;">trap</span> <span class="s2" style="color: #d14;">"rm -rf </span><span class="nv" style="color: #008080;">$A<span class="idiff left right">UTOPKGTEST_</span>TMP</span><span class="s2" style="color: #d14;">"</span> 0 INT QUIT ABRT PIPE TERM</span>
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="shell"><span class="k" style="font-weight: 600;">fi</span></span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cd</span> <span class="nv" style="color: #008080;">$A<span class="idiff left right">DT</span>TMP</span></span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cp</span> <span class="nt" style="color: #000080;">-a</span> /usr/share/doc/<span class="nv" style="color: #008080;">$pkg</span>/examples/<span class="k" style="font-weight: 600;">*</span> <span class="nv" style="color: #008080;">$A<span class="idiff left right">DT</span>TMP</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cd</span> <span class="nv" style="color: #008080;">$A<span class="idiff left right">UTOPKGTEST_</span>TMP</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cp</span> <span class="nt" style="color: #000080;">-a</span> /usr/share/doc/<span class="nv" style="color: #008080;">$pkg</span>/examples/<span class="k" style="font-weight: 600;">*</span> <span class="nv" style="color: #008080;">$A<span class="idiff left right">UTOPKGTEST_</span>TMP</span></span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="shell"><span class="nb" style="color: #0086b3;">ln</span> <span class="nt" style="color: #000080;">-s</span> /etc/circos/tracks etc</span>
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11
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="shell">find <span class="nb" style="color: #0086b3;">.</span> <span class="nt" style="color: #000080;">-name</span> <span class="s2" style="color: #d14;">"*.gz"</span> <span class="nt" style="color: #000080;">-exec</span> <span class="nb" style="color: #0086b3;">gunzip</span> <span class="se" style="color: #d14;">\{\}</span> <span class="se" style="color: #d14;">\;</span></span>
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cp</span> <span class="nt" style="color: #000080;">-a</span> circos.svg circos-orig.svg</span>
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