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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/libseqlib">Debian Med / libseqlib</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/libseqlib/-/commit/438a32ffba00bda61a04d0ae06dad7fa101c0f37">438a32ff</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:16:09+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.1.2+git20201210+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libseqlib/-/commit/c20efbafec971d9d7640a43787102b06a1d8c4a2">c20efbaf</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:16:10+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.1.2+git20201210+dfsg'
Update to upstream version '1.1.2+git20201210+dfsg'
with Debian dir fbf7fa0084431e381afda473f9d89cd3f5b649cb</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libseqlib/-/commit/7766ff6d495f69e9ba2ed68c8299140aa6a5d50c">7766ff6d</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:16:35+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Snapshot from upstream.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libseqlib/-/commit/e73e0866a7b4ba3d94fdb228940d55823cf02985">e73e0866</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:19:24+01:00</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/libseqlib/-/commit/cd26a2f3e10fcd755b0ffe8c3b288a35a1bb50e2">cd26a2f3</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:26:54+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">build-deps: libbz2-dev
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libseqlib/-/commit/5920d71123b413d861f8b2ad559f22a422bf64a6">5920d711</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:36:29+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Added patch to fix compat with libjsoncpp 1.8.4+. Closes #976414
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libseqlib/-/commit/7555d3ac0922a0421d4cb1c0ad9c37a64f0186eb">7555d3ac</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-12-17T12:45:43+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">TODO: upstream uses libfml-dev r50, but debian's package is r41
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#7445606fbf8f3683cd42bdc54b05d7a0bc2dfc44">
.gitmodules
</a>
</li>
<li class="file-stats">
<a href="#d5b4de16d947214ec306bd57bed1bd23a939b5f9">
Makefile.am
</a>
</li>
<li class="file-stats">
<a href="#4faecea6d9857941b442698cdcbd38a141ff746e">
Makefile.in
</a>
</li>
<li class="file-stats">
<a href="#85f5da8574ea0561337e1c9bc738ced6f779391e">
SeqLib/BWAWrapper.h
</a>
</li>
<li class="file-stats">
<a href="#1e393c6e1d49b5be6bada990eb30b615963311a0">
SeqLib/BamReader.h
</a>
</li>
<li class="file-stats">
<a href="#13cdce5611929ca2bd67d904d500236ff82c97d4">
SeqLib/BamRecord.h
</a>
</li>
<li class="file-stats">
<a href="#d5cb3ffb204846bb99dc4408be7ed90119a7a7d0">
SeqLib/BamWalker.h
</a>
</li>
<li class="file-stats">
<a href="#499e16d5ee186b71dd754330880714184fed2aac">
SeqLib/BamWriter.h
</a>
</li>
<li class="file-stats">
<a href="#b863b017f74027c4881ac2816a5de472db06382b">
SeqLib/FastqReader.h
</a>
</li>
<li class="file-stats">
<a href="#f462e0796c415210cddbd41869bfbc754a057856">
SeqLib/FermiAssembler.h
</a>
</li>
<li class="file-stats">
<a href="#99c9f1b5a03ad9678c742f7ade0493a7df923bb5">
SeqLib/GenomicRegion.h
</a>
</li>
<li class="file-stats">
<a href="#df67f9eb123b5ff685409d7cb006649d03cb2ffb">
SeqLib/GenomicRegionCollection.cpp
</a>
</li>
<li class="file-stats">
<a href="#ee007565e2277a45e2ccd4e5b4801d82f501baff">
SeqLib/ReadFilter.h
</a>
</li>
<li class="file-stats">
<a href="#ceda5719938e1569fec8e2ad2eb0ca5c715c156a">
<span class="new-file">
+
SeqLib/ThreadPool.h
</span>
</a>
</li>
<li class="file-stats">
<a href="#7ec2e186dd054a0410ba9b4f3c7923b9c3b4206e">
SeqLib/UnalignedSequence.h
</a>
</li>
<li class="file-stats">
<a href="#152c3993c79ed609cfec1b4276c2eb31f4d518b3">
autogen.sh
</a>
</li>
<li class="file-stats">
<a href="#09be8533ff0a6ee5d577f971145ed449399fcda4">
configure
</a>
</li>
<li class="file-stats">
<a href="#87db583be5c13c1f7b3c958b10e03d67b6a2ca06">
configure.ac
</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="#a6d48c845db44214d4c06ec11a3f09515d155e6e">
debian/patches/adapt_to_debian_fermi-lite.patch
</a>
</li>
<li class="file-stats">
<a href="#88fc8c6a50e2a0c0769f24498b3f64d5cf60081f">
debian/patches/dynamic_lib.patch
</a>
</li>
<li class="file-stats">
<a href="#e1319e3be642ca291bf4ab694440cdeefa812d34">
<span class="deleted-file">
−
debian/patches/fix_private_htslib_usage.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#a747e101e62b200a112a8777b6ccb650cd6d0666">
debian/patches/fml_include_path.patch
</a>
</li>
<li class="file-stats">
<a href="#048b5ae89520cce3db7f014096ac06f2a590cd25">
<span class="new-file">
+
debian/patches/libjsoncpp_1_8_4_compat
</span>
</a>
</li>
<li class="file-stats">
<a href="#9282af4050bfc4ccfdc58b03281755547772cffa">
debian/patches/pkg-config.patch
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#ee54dc79014b3def963898e50c98877d46c6b27e">
debian/patches/use_debian_packaged_libs.patch
</a>
</li>
<li class="file-stats">
<a href="#5aa6c9654a7639ddacbbe04bd52246b592153bea">
src/BWAWrapper.cpp
</a>
</li>
<li class="file-stats">
<a href="#8833c1cb7e5471bf3817229b99775b6a332c73cd">
src/BamReader.cpp
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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