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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/nanosv">Debian Med / nanosv</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanosv/-/commit/c56cb0fcdffea983b1bb87e5cbfa8d6b5964de52">c56cb0fc</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-08T14:24:19+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Do not require configparser which is part of Python3
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanosv/-/commit/efa86faebd73195e36429578841a88807776ae1b">efa86fae</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2020-06-08T14:24:31+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix depends
</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="#abef4c460dc37d022b6dea7eb1c9c6493f66bfd5">
debian/patches/fix_setup.patch
</a>
</li>
<li class="file-stats">
<a href="#cb77e41ee4e76e89e8f30fceff08eac6d5ae356a">
<span class="new-file">
+
debian/patches/python3_has_buildin_configparser.patch
</span>
</a>
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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</li>
</ul>
<h4>Changes:</h4>
<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/nanosv/-/compare/09f61d1ac5423a2117119df7d38cbf89c059a703...efa86faebd73195e36429578841a88807776ae1b#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Source: nanosv</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Steffen Moeller <moeller@debian.org></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12), dh-python, python3-setuptools, python3-all</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12),</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> dh-python,</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"> python3-setuptools,</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"> python3-all</span>
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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">Standards-Version: 4.5.0</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Homepage: https://github.com/mroosmalen/nanosv</span>
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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">Vcs-Browser: https://salsa.debian.org/med-team/nanosv</span>
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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">Vcs-Git: https://salsa.debian.org/med-team/nanosv.git</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">Homepage: https://github.com/mroosmalen/nanosv</span>
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<td class="diff-line-num old_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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<td class="diff-line-num new_line" data-linenumber="14" 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="LC14" class="line" lang="plaintext">Rules-Requires-Root: no</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext">#Testsuite: autopkgtest-pkg-python</span>
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<td class="diff-line-num new_line" data-linenumber="15" 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="LC15" class="line" lang="plaintext"></span>
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<td class="diff-line-num old_line" data-linenumber="14" 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="LC16" class="line" lang="plaintext">Package: nanosv</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Architecture: all</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext">Depends: ${python3:Depends}, ${misc:Depends}</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Depends: ${python3:Depends},</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> ${misc:Depends},</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> python3-pysam,</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> python3-vcf</span>
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17
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">Description: structural variant caller for nanopore data</span>
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18
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> NanoSV is a software package that can be used to identify structural</span>
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19
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> genomic variations in long-read sequencing data, such as data produced</span>
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<li id="abef4c460dc37d022b6dea7eb1c9c6493f66bfd5">
<a href="https://salsa.debian.org/med-team/nanosv/-/compare/09f61d1ac5423a2117119df7d38cbf89c059a703...efa86faebd73195e36429578841a88807776ae1b#abef4c460dc37d022b6dea7eb1c9c6493f66bfd5"><strong>debian/patches/fix_setup.patch</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Author: Steffen Möller</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Last-Update: 2020-06-07 17:34:55 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Description: Fix typo in setup.py</span></span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"></span>
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1
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff">Index: nanosv-1.2.4/setup.py</span>
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2
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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3
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- nanosv-1.2.4.orig/setup.py</span></span>
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<li id="cb77e41ee4e76e89e8f30fceff08eac6d5ae356a">
<a href="https://salsa.debian.org/med-team/nanosv/-/compare/09f61d1ac5423a2117119df7d38cbf89c059a703...efa86faebd73195e36429578841a88807776ae1b#cb77e41ee4e76e89e8f30fceff08eac6d5ae356a"><strong>debian/patches/python3_has_buildin_configparser.patch</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Last-Update: Mon, 08 Jun 2020 14:23:48 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Description: Do not require configparser which is part of Python3</span></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">--- a/setup.py</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/setup.py</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="p">@@ -27,7 +27,7 @@</span> setup( name='NanoSV',</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> author_email='m.vanroosmalen-2@umcutrecht.nl',</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> license='MIT',</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> python_requires='>=3',</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- install_requires=['pysam>=0.11','pyvcf','configparser'],</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ install_requires=['pysam>=0.11','pyvcf'],</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> packages=['nanosv','nanosv.utils','nanosv.classes'],</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> package_data={'nanosv': ['config.ini','bedfiles/*.bed']},</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> including_package_data=True,</span></pre>
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<a href="https://salsa.debian.org/med-team/nanosv/-/compare/09f61d1ac5423a2117119df7d38cbf89c059a703...efa86faebd73195e36429578841a88807776ae1b#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">fix_setup.patch</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">python3_has_buildin_configparser.patch</span></pre>
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