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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/mapdamage">Debian Med / mapdamage</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/a2d0318841ebbe31757bd3bf38d1103019ccb6de">a2d03188</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T09:10:37Z</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/mapdamage/commit/46fb003fccbf4d8ff1494c8d1b7e0faca6435b9f">46fb003f</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T09:10:45Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.4.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/735f30ac15aa7d0b0afedc1e469f8326360aad91">735f30ac</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T09:10:45Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Trim trailing whitespace.
Fixes lintian: file-contains-trailing-whitespace
See https://lintian.debian.org/tags/file-contains-trailing-whitespace.html for more details.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/9664b3ee8e931232335d2cbac274cb1ec244c035">9664b3ee</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T09:18:23Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">buildsystem=pybuild
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/b252da3edea25c3b3ee096e3735b7ba9fa8557b1">b252da3e</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T09:22:10Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Another Python3 fix
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/26fc3cff8d5721df5149fbb4f216f46b61c096f5">26fc3cff</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T09:24:20Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">python3-pysam <!nocheck>
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/00efffd277c51e31676d5b53688627bc446264d4">00efffd2</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T15:55:14Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">python3:Depends
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/mapdamage/commit/2aa3d4df4c0dfa23f6dca110af1999f2b91c0e07">2aa3d4df</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-09-03T16:06:51Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">override_dh_python3
</pre>
</li>
</ul>
<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</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
</a>
</li>
<li class="file-stats">
<a href="#555c85016bd79aa8bbb523506af81b69d9c69534">
debian/patches/2to3.patch
</a>
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/mapdamage/compare/874e9f7ec42dc1c01527cfc53fc44b00fcbbd938...2aa3d4df4c0dfa23f6dca110af1999f2b91c0e07#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2,6 +2,11 @@ mapdamage (2.0.9+dfsg-2) UNRELEASED; urgency=medium</td>
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<td class="diff-line-num new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> * Use 2to3 to port to Python3</span>
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<td class="diff-line-num old_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Closes: #936989</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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<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"> * Trim trailing whitespace.</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"> * buildsystem=pybuild</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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> * python3-pysam <!nocheck></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"></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"> -- Andreas Tille <tille@debian.org> Tue, 03 Sep 2019 11:02:34 +0200</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"></span>
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<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/mapdamage/compare/874e9f7ec42dc1c01527cfc53fc44b00fcbbd938...2aa3d4df4c0dfa23f6dca110af1999f2b91c0e07#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong>
deleted
</a>
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">11</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/mapdamage/compare/874e9f7ec42dc1c01527cfc53fc44b00fcbbd938...2aa3d4df4c0dfa23f6dca110af1999f2b91c0e07#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,18 +3,19 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org></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<span class="idiff left right"> (>= 11~</span>),</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper<span class="idiff left right">-compat (= 12</span>),</span>
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> python3-all,</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"> python3-setuptools</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext">Standards-Version: 4.2.1</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> python3-setuptools,</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> python3-pysam <!nocheck></span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">Standards-Version: 4.4.0</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/mapdamage</span>
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12
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/mapdamage.git</span>
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14
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Homepage: https://ginolhac.github.io/mapDamage/</span>
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14
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Package: mapdamage</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="LC17" class="line" lang="plaintext">Depends: ${python:Depends},</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Depends: ${python<span class="idiff left right">3</span>: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"> r-base-core,</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> r-cran-gam,</span>
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<li id="555c85016bd79aa8bbb523506af81b69d9c69534">
<a href="https://salsa.debian.org/med-team/mapdamage/compare/874e9f7ec42dc1c01527cfc53fc44b00fcbbd938...2aa3d4df4c0dfa23f6dca110af1999f2b91c0e07#555c85016bd79aa8bbb523506af81b69d9c69534"><strong>debian/patches/2to3.patch</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">@@ -310,12 +310,18 @@ Last-Update: Tue, 03 Sep 2019 11:02:34 +0200</td>
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<pre style="margin: 0;"> <span id="LC310" class="line" lang="diff"> # No missing libraries</span>
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/mapdamage/seq.py</span></span>
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<pre style="margin: 0;"> <span id="LC312" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/mapdamage/seq.py</span></span>
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<pre style="margin: 0;">-<span id="LC313" class="line" lang="diff"><span class="p">@@ -1,<span class="idiff left right">4 +1,4</span> @@</span></span>
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<pre style="margin: 0;">+<span id="LC313" class="line" lang="diff"><span class="p">@@ -1,<span class="idiff left right">9 +1,9</span> @@</span></span>
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<pre style="margin: 0;"> <span id="LC314" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-#!/usr/bin/env python</span></span>
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<pre style="margin: 0;"> <span id="LC315" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#!/usr/bin/python3</span></span>
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<pre style="margin: 0;"> <span id="LC316" class="line" lang="diff"> import sys</span>
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317
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<pre style="margin: 0;"> <span id="LC317" class="line" lang="diff"> import string</span>
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<pre style="margin: 0;"> <span id="LC318" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC319" class="line" lang="diff"> # from Martin Kircher, to complement DNA</span>
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<pre style="margin: 0;">+<span id="LC320" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-TABLE = string.maketrans('TGCAMRWSYKVHDBtgcamrwsykvhdb', \</span></span>
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<pre style="margin: 0;">+<span id="LC321" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+TABLE = str.maketrans('TGCAMRWSYKVHDBtgcamrwsykvhdb', \</span></span>
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<pre style="margin: 0;">+<span id="LC322" class="line" lang="diff"> 'ACGTKYWSRMBDHVacgtkywsrmbdhv')</span>
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<pre style="margin: 0;">+<span id="LC323" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC324" class="line" lang="diff"> LETTERS = ("A", "C", "G", "T")</span>
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<pre style="margin: 0;"> <span id="LC325" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/mapdamage/tables.py</span></span>
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<pre style="margin: 0;"> <span id="LC326" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/mapdamage/tables.py</span></span>
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<pre style="margin: 0;"> <span id="LC327" class="line" lang="diff"><span class="p">@@ -1,4 +1,4 @@</span></span>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/mapdamage/compare/874e9f7ec42dc1c01527cfc53fc44b00fcbbd938...2aa3d4df4c0dfa23f6dca110af1999f2b91c0e07#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">@@ -6,7 +6,7 @@ include /usr/share/dpkg/default.mk</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">TESTDIR := debian/$(DEB_SOURCE)/usr/share/doc/$(DEB_SOURCE)/tests</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 python3</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> dh $@ --with python3<span class="idiff left right"> --buildsystem=pybuild</span></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_fixperms:</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> dh_fixperms</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">@@ -18,3 +18,5 @@ override_dh_install:</td>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"> mv `find debian -name rescale_test.py` $(TESTDIR)</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> sed -i 's/^import rescale/from mapdamage &/' $(TESTDIR)/rescale_test.py</span>
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20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"></span>
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<td class="diff-line-num new old_line" data-linenumber="21" 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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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext">override_dh_python3:</span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> dh_python3 --no-ext-rename</span></pre>
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