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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/python-biotools">Debian Med / python-biotools</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biotools/commit/3faf0f0499ae809bd42766b8da78649538b1fd75">3faf0f04</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-04T12:43:55Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Drop Python2 support
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biotools/commit/e623b0c8eab1e3e4a95402c06808bdfcd28e6828">e623b0c8</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-04T12:44:35Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper-compat 12
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-biotools/commit/c79a79199668a97cd00cfbed4269828d21ef7bf3">c79a7919</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-04T12:44:39Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.4.0
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<li>
<strong><a href="https://salsa.debian.org/med-team/python-biotools/commit/3e619a33ddd04dea9b1793f8751e62a1956a2bb4">3e619a33</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-04T12:45:36Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
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<h4>4 changed files:</h4>
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<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
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−
debian/compat
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/python-biotools/compare/0a1da6c15659007b56e6db22b25c2cfbf5196357...3e619a33ddd04dea9b1793f8751e62a1956a2bb4#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">python-biotools (1.2.12-4) unstable; urgency=medium</span>
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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"> * Drop Python2 support</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"> Closes: #937607</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"> * debhelper-compat 12</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: 4.4.0</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"></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"> -- Andreas Tille <tille@debian.org> Wed, 04 Sep 2019 14:44:40 +0200</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"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">python-biotools (1.2.12-3) unstable; urgency=medium</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"></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"> * Testsuite: autopkgtest-pkg-python</span>
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<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/python-biotools/compare/0a1da6c15659007b56e6db22b25c2cfbf5196357...3e619a33ddd04dea9b1793f8751e62a1956a2bb4#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong>
deleted
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">11</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/python-biotools/compare/0a1da6c15659007b56e6db22b25c2cfbf5196357...3e619a33ddd04dea9b1793f8751e62a1956a2bb4#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">@@ -4,41 +4,14 @@ Uploaders: Andreas Tille <tille@debian.org></td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Section: python</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Testsuite: autopkgtest-pkg-python</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"> (>= 11~</span>),</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 (= 12</span>),</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> dh-python,</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> python-all,</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> python3-all</span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">1.4</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">4.0</span></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/python-biotools</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/python-biotools.git</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Homepage: https://github.com/sonwell/biotools</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="LC16" class="line" lang="plaintext">Package: python-biotools</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="LC18" class="line" lang="plaintext">Depends: ${python: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"> python-numpy,</span>
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21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext"> python-matplotlib,</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext"> clustalw,</span>
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23
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext"> ncbi-blast+ | ncbi-blast+-legacy</span>
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24
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext">Description: Python bioinformatics utilities for high-throughput genomic sequencing</span>
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25
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext"> This package contains utilities like</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"> biotools.align - align sequences (hybrid between Needleman-Wunsch and</span>
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27
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext"> Smith-Waterman which is used to find the subsequence</span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="plaintext"> within a larger sequence that best aligns to a reference)</span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext"> biotools.annotation - create annotation files. The annotations can be used</span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="plaintext"> to create a hierarchy among the annotations</span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"> biotools.BLAST - manage BLAST databases and interface with the BLAST+</span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="plaintext"> standalone program available from NCBI.</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="plaintext"> biotools.clustal - interface to clustalw global (multiple nucleotide or</span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="plaintext"> peptide sequence alignment)</span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="plaintext"> biotools.complement - creates the complement of a sequence, which can then be</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> reversed</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext"> biotools.sequence - various tools to deal with sequences</span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="plaintext"> biotools.translate - translate a nucleotide using the standard genetic code</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="plaintext"> This package contains the Python 2 module.</span>
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41
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Package: python3-biotools</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Architecture: all</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Depends: ${python3:Depends},</span>
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<a href="https://salsa.debian.org/med-team/python-biotools/compare/0a1da6c15659007b56e6db22b25c2cfbf5196357...3e619a33ddd04dea9b1793f8751e62a1956a2bb4#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">@@ -6,9 +6,4 @@ export LC_ALL=C.UTF-8</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">export PYBUILD_NAME=biotools</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">%:</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> dh $@ --with python2,python3 --buildsystem=pybuild</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">override_dh_install:</span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> dh_install</span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> # enable parallel installation by providing /usr/bin/prok-geneseek only in Python3 package</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> rm -rf debian/python-$(PYBUILD_NAME)/usr/bin</span></pre>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> dh $@ --with python3 --buildsystem=pybuild</span></pre>
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