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<h3>
Liubov Chuprikova pushed to branch master
at <a href="https://salsa.debian.org/med-team/python-cutadapt">Debian Med / python-cutadapt</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-cutadapt/commit/b3ced1e105010e74f385f944f4c130495b411679">b3ced1e1</a></strong>
<div>
<span>by Liubov Chuprikova</span>
<i>at 2019-06-28T17:18:17Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove no longer necessary patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-cutadapt/commit/2ea344fd429d446840abfe37f153ff16f2ff7d68">2ea344fd</a></strong>
<div>
<span>by Liubov Chuprikova</span>
<i>at 2019-06-28T17:27:20Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">delete everything related to Python 2
</pre>
</li>
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<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#411dce708815fc54019014a96d4126c14dfd3870">
<span class="deleted-file">
−
debian/patches/cython_version.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<span class="deleted-file">
−
debian/patches/series
</span>
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/python-cutadapt/compare/8c7d5dd7c735e13a745f889976380b8e2940a666...2ea344fd429d446840abfe37f153ff16f2ff7d68#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<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">@@ -8,12 +8,6 @@ Testsuite: autopkgtest-pkg-python</td>
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<td class="diff-line-num 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">
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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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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Priority: optional</span>
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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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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">Build-Depends: debhelper (>= 11~),</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">
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> dh-python,</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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<td class="diff-line-num new_line old" 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">
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext"> python-all,</span>
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<td class="diff-line-num old old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" 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">
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> python-all-dev,</span>
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<td class="diff-line-num old old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" 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">
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> python-setuptools,</span>
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<td class="diff-line-num old old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" 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">
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> python-nose,</span>
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<td class="diff-line-num old old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" 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">
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> python-xopen (>= 0.3.2),</span>
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<td class="diff-line-num old old_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" 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">
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext"> cython,</span>
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<td class="diff-line-num old_line" data-linenumber="17" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> python3-all,</span>
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<td class="diff-line-num old_line" data-linenumber="18" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="12" 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="LC12" class="line" lang="plaintext"> python3-all-dev,</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">
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<td class="diff-line-num new_line" data-linenumber="13" 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="LC13" class="line" lang="plaintext"> python3-setuptools,</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="26" 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="20" 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">@@ -26,22 +20,6 @@ Vcs-Browser: https://salsa.debian.org/med-team/python-cutadapt</td>
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<td class="diff-line-num old_line" data-linenumber="26" 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="LC20" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/python-cutadapt.git</span>
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<td class="diff-line-num old_line" data-linenumber="27" 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="21" 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="LC21" class="line" lang="plaintext">Homepage: http://pypi.python.org/pypi/cutadapt</span>
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<td class="diff-line-num old_line" data-linenumber="28" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="22" 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="LC22" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line old" data-linenumber="23" 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="LC29" class="line" lang="plaintext">Package: python-cutadapt</span>
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<td class="diff-line-num old old_line" data-linenumber="30" 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="LC30" class="line" lang="plaintext">Architecture: any</span>
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<td class="diff-line-num old old_line" data-linenumber="31" 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="LC31" class="line" lang="plaintext">Depends: ${misc:Depends},</span>
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<td class="diff-line-num old old_line" data-linenumber="32" 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="LC32" class="line" lang="plaintext"> ${python:Depends},</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="plaintext"> ${shlibs:Depends}</span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="plaintext">Description: Clean biological sequences from high-throughput sequencing reads (Python 2)</span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="plaintext"> Cutadapt helps with biological sequence clean tasks by finding the adapter</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> or primer sequences in an error-tolerant way.</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext"> It can also modify and filter reads in various ways.</span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="plaintext"> Adapter sequences can contain IUPAC wildcard characters.</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="plaintext"> Also, paired-end reads and even colorspace data is supported.</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="plaintext"> If you want, you can also just demultiplex your input data, without removing</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="plaintext"> adapter sequences at all.</span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="plaintext"> This package contains the Python 2 module.</span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Package: python3-cutadapt</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">Depends: ${misc:Depends},</span>
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<li id="411dce708815fc54019014a96d4126c14dfd3870">
<a href="https://salsa.debian.org/med-team/python-cutadapt/compare/8c7d5dd7c735e13a745f889976380b8e2940a666...2ea344fd429d446840abfe37f153ff16f2ff7d68#411dce708815fc54019014a96d4126c14dfd3870"><strong>debian/patches/cython_version.patch</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="diff">From: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="diff">Date: Fri, 2 Dec 2016 13:59:08 +1100</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="diff">Subject: cython_version</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>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="diff"> setup.py | 2 +-</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="diff"> 1 file changed, 1 insertion(+), 1 deletion(-)</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"><span class="gd" style="color: #000; background-color: #fdd;">--- a/setup.py</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/setup.py</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -10,7 +10,7 @@ from distutils.command.sdist import sdis</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="diff"> from distutils.command.build_ext import build_ext as _build_ext</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="diff"> import versioneer</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="diff"> </span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-MIN_CYTHON_VERSION = '0.24'</span></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+MIN_CYTHON_VERSION = '0.23.2'</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"> vi = sys.version_info</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="diff"> if (vi[0] == 2 and vi[1] < 7) or (vi[0] == 3 and vi[1] < 4):</span></pre>
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<a href="https://salsa.debian.org/med-team/python-cutadapt/compare/8c7d5dd7c735e13a745f889976380b8e2940a666...2ea344fd429d446840abfe37f153ff16f2ff7d68#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">cython_version.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/python-cutadapt/compare/8c7d5dd7c735e13a745f889976380b8e2940a666...2ea344fd429d446840abfe37f153ff16f2ff7d68#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">@@ -17,24 +17,19 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all</td>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">export PYBUILD_NAME=cutadapt</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext">PYTHON2 := $(shell pyversions -r)</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">PYTHON3 := $(shell py3versions -r)</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"># main packaging script based on dh7 syntax</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">%:</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext"> dh $@ --with python<span class="idiff left right">2,python</span>3 --buildsystem=pybuild</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext"> dh $@ --with python3 --buildsystem=pybuild</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext">override_dh_install:</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> dh_install</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> mkdir -p debian/cutadapt/usr/bin</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"> mv debian/python3-cutadapt/usr/bin/cutadapt debian/cutadapt/usr/bin/</span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"> rm -f debian/python-cutadapt/usr/bin/cutadapt</span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext">override_dh_auto_test:</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext">ifeq ($(filter nocheck,$(DEB_BUILD_OPTIONS)),)</span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="plaintext"> for py in $(PYTHON2) ; do\</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> $$py setup.py nosetests -v ; \</span>
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37
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext"> done</span>
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38
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> for py in $(PYTHON3) ; do\</span>
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39
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"> $$py setup.py nosetests -v ; \</span>
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40
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> done</span>
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