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<h3>
Afif Elghraoui pushed to branch master
at <a href="https://salsa.debian.org/med-team/canu">Debian Med / canu</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/243aa28bbadf50782576fef67cdb8e467e299fc7">243aa28b</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T17:09:47-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.7+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/72ffbdd9a7f65aab530c07fa1222d341b1189805">72ffbdd9</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T17:09:51-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Merge tag 'upstream/1.7+dfsg'
Upstream version 1.7+dfsg
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/df26954420b08c61d7e6e9de6ddef64ca5a51257">df269544</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T18:51:20-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update handling of MHAP copy
The jar file is bundled rather than its source code.
The patches to exclude the build directory aren't needed,
but Files-Excluded needed to be changed.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/aba649621af68f52807b95245c9c802b17477546">aba64962</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T18:52:20-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh patches
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/ceb7a203d7642516e131d4d7cde79e6f3cf0fd82">ceb7a203</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T18:52:20-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">use a wrapper script and leave /usr/lib/canu/ as undisturbed as possible
Rather than patching paths, let the canu main program live where
it expects to be, just using a wrapper script in /usr/bin.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/6f15624ae2bb3dcc6f0a2a19679e5957131f78b8">6f15624a</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T18:53:46-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.7+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/24d6be52280ae5ff6397ae977557927b0d616eaf">24d6be52</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T18:53:50-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Merge tag 'upstream/1.7+dfsg'
Upstream version 1.7+dfsg
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/5419d316417d129f3b33e576d3259cb5577f425c">5419d316</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T19:08:53-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove build system dependency on bundled MHAP
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/0ce0b35d2ae20bc52294c70f1541dab8cad0a763">0ce0b35d</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T19:25:44-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fix typo in patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/2454ffa480e5c6d226403b46aa911f5fe8caed8e">2454ffa4</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T19:48:01-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fix path to mhap jar
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/d8b271be3305e9e06bd2b1a43aaa185611441332">d8b271be</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T19:48:21-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">move gnuplot to Depends
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/ae4c2a99a06db7860fb598f4002aeb6d942ed2ae">ae4c2a99</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T20:16:24-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Bump mhap minimum version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/b673b3d8ed697afda7f95221b025891129a95a5a">b673b3d8</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T20:17:39-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Bump Standards-Version to 4.1.3
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/canu/commit/4eafc31fe7e77b532289eb68cff4b3e81970b033">4eafc31f</a></strong>
<div>
<span>by Afif Elghraoui</span>
<i>at 2018-03-10T23:45:30-05:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update changelog (need update to mhap package)
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#66dc662d79659afdfe8c7e9f033078ef70236aea">
addCopyrights-BuildData.pl
</a>
</li>
<li class="file-stats">
<a href="#e2703f9da1cf4dec51328223b0436084140ccdc4">
addCopyrights.dat
</a>
</li>
<li class="file-stats">
<a href="#439c31264c1fdaba2f71dcd9e02765ffe0356da1">
addCopyrights.pl
</a>
</li>
<li class="file-stats">
<a href="#53fb8460f8329d0525348b190e2f923544a35364">
<span class="new-file">
+
debian/bin/canu
</span>
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
<li class="file-stats">
<a href="#68d8c5c6babbf5cf109b2584c454449dbff75772">
debian/install
</a>
</li>
<li class="file-stats">
<a href="#8349ebd0c596ef9478eb284b6a482b10861b7531">
<span class="deleted-file">
−
debian/links
</span>
</a>
</li>
<li class="file-stats">
<a href="#2f2cad14d9aa7a133cbfa0ddbaeaa027aa470bad">
<span class="deleted-file">
−
debian/patches/external-deps.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#e51fc3707619b600b059305f265f05549360199c">
<span class="new-file">
+
debian/patches/external-mhap.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#a45ddb7061c2aa96c6ba79ef5b037b964a075605">
debian/patches/gcc-7_format-security.patch
</a>
</li>
<li class="file-stats">
<a href="#42325db13cd98f8b3bfa6c7d4cda0a9ee95b168c">
<span class="deleted-file">
−
debian/patches/relative-paths.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#d6ea03cc85d2073a5b2915c04980df8eaff55951">
debian/patches/use-debian-mhap-at-runtime.patch
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#7b91f353b085ed3155dc2a440b01b4ed0e623e3d">
documentation/reST-markup-hints
</a>
</li>
<li class="file-stats">
<a href="#7def9864557e64b2623ba5ca655574437a70ff44">
documentation/source/conf.py
</a>
</li>
<li class="file-stats">
<a href="#5fc7faa82bbefa5debb34506f206e6ab4ea7f33c">
documentation/source/faq.rst
</a>
</li>
<li class="file-stats">
<a href="#416b60b5da96ab9a9cf078295dc4b0b13ecd593f">
documentation/source/parameter-reference.rst
</a>
</li>
<li class="file-stats">
<a href="#23a0b507713da0b98c504fe5bd8cf70fa48c87c2">
documentation/source/quick-start.rst
</a>
</li>
<li class="file-stats">
<a href="#bb791a0ab6c3e592b29631f9bbc8230d2542f6ed">
documentation/source/tutorial.rst
</a>
</li>
<li class="file-stats">
<a href="#3e8d80394a109ca8637b02e929c7b4497ea54795">
src/AS_UTL/AS_UTL_alloc.H
</a>
</li>
<li class="file-stats">
<a href="#8880b353c0d3465d5455fd76515d58e4e1cf021b">
src/AS_UTL/AS_UTL_fasta.C
</a>
</li>
<li class="file-stats">
<a href="#7ceacfaf4811b341c79bfa82f1037bd0cce5afba">
src/AS_UTL/AS_UTL_fasta.H
</a>
</li>
<li class="file-stats">
<a href="#7b2bdfeb7dcf1e75a38b98e998d1b49b920a5905">
src/AS_UTL/AS_UTL_fileIO.C
</a>
</li>
<li class="file-stats">
<a href="#e7a3a78fec897b786bc4277cbb4b6ecd591d5473">
src/AS_UTL/AS_UTL_fileIO.H
</a>
</li>
<li class="file-stats">
<a href="#e2c7cbbc9c7c5d2bbe90b772ceabe003571f5b6f">
src/AS_UTL/AS_UTL_reverseComplement.C
</a>
</li>
<li class="file-stats">
<a href="#065ac962d787cc111429b6f4507124a53a831451">
src/AS_UTL/AS_UTL_reverseComplement.H
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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