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<h3>
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/ivar">Debian Med / ivar</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/ivar/-/commit/a149542490e846204001a5009b756f2750bd9169">a1495424</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2020-12-13T22:18:53+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ivar/-/commit/3c32219833232169942724a968ff17c9de81c683">3c322198</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2020-12-13T22:18:54+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.3+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ivar/-/commit/4d1e809eee64c7390ffd917131c338a2375829f1">4d1e809e</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2020-12-13T22:18:55+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/1.3+dfsg'
Update to upstream version '1.3+dfsg'
with Debian dir 3d0e78d36b4f1f4d86c0b6660351e68bacef5a7a</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ivar/-/commit/72eb8928a107ea15c685fb9772e9bc469deec860">72eb8928</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2020-12-13T22:18:55+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Standards-Version: 4.5.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ivar/-/commit/1eeb0acac2aebf1497da7aa7465fe0e37355e69a">1eeb0aca</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2020-12-13T22:19:33+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Ready to upload to unstable
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ivar/-/commit/e97c7fe547a34b4dd3ee98b513b508122f736a34">e97c7fe5</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2020-12-13T23:10:15+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Run the test suite in a single thread.
Run run with the host default thread count, it would seem several
tests are colliding, and leading to random failures. The issue
has been caught on i386, but did affect amd64 as well.
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#87db583be5c13c1f7b3c958b10e03d67b6a2ca06">
configure.ac
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<li class="file-stats">
<a href="#dcce97c7f260970403cea9d60c33d3685bbcb376">
<span class="new-file">
+
data/pair_info_2.tsv
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<li class="file-stats">
<a href="#430047b202e85b627ce9f93f7e1b15ed0b644872">
<span class="new-file">
+
data/test_amplicon.sorted.bam
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<li class="file-stats">
<a href="#118cdf54d558c2132d24a587dcaae2dbb3e7b990">
<span class="new-file">
+
data/test_isize.bed
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<li class="file-stats">
<a href="#65faa5b80ecaf5639d58447b1064ff673d8700b7">
<span class="new-file">
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data/test_isize.sorted.bam
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<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<li class="file-stats">
<a href="#f90d77509d9d998ba68e6c318915da545505db09">
docs/MANUAL.md
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<li class="file-stats">
<a href="#67e794015a01b8816bd16290e5f8538236da8245">
src/Makefile.am
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<li class="file-stats">
<a href="#393887da53235ee427bfdfb35cd6b4e07e880da4">
<span class="new-file">
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src/interval_tree.cpp
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<li class="file-stats">
<a href="#a81369f32a4ff6b6f704aa029f6c65bd099a6dd9">
<span class="new-file">
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src/interval_tree.h
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<li class="file-stats">
<a href="#1ed56bc299f4a6bb415bcf995da6bf4ba876e7a4">
src/ivar.cpp
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<li class="file-stats">
<a href="#00b6081be5179b8efd2e37aec59ecf773a10c3ed">
src/trim_primer_quality.cpp
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<li class="file-stats">
<a href="#fdbb3539733405317eca774fe99c6ab1d8306beb">
src/trim_primer_quality.h
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<li class="file-stats">
<a href="#cd4a49a19da4998db914e7cb10b78953338a4273">
tests/Makefile.am
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<li class="file-stats">
<a href="#75bffbb11d25186dd3d2c6aa35d85c3bf441a4d0">
tests/check_quality_trim.cpp
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<li class="file-stats">
<a href="#b18ced2596d1721a0809e608ceb67f5eddae95ca">
tests/test_allele_depth.cpp
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<li class="file-stats">
<a href="#0c55f5b6f21374c58c1ef1f9fd933d0d419350a2">
<span class="new-file">
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tests/test_amplicon_search.cpp
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</a>
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<li class="file-stats">
<a href="#d43f6322762f392df319ba47f2d091a91673a725">
tests/test_call_consensus_from_plup.cpp
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<li class="file-stats">
<a href="#f1a7855452e5bfbe5c5fd05ac4c434e8aa3fbbe2">
tests/test_common_variants.cpp
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<li class="file-stats">
<a href="#cc537d8192ad73764985b8cb628b4e7371a78a18">
tests/test_consensus_min_depth.cpp
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<li class="file-stats">
<a href="#a5cd08d01d59b4eef27e30105aa8893394a12cad">
tests/test_consensus_seq_id.cpp
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<li class="file-stats">
<a href="#fbd44e824e3c8ff83e5a6f4a21b8d94c58199d25">
tests/test_consensus_threshold.cpp
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<li class="file-stats">
<a href="#e0b2f123a81564bf31738653c669118954480d42">
tests/test_getmasked.cpp
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<li class="file-stats">
<a href="#5b33689eb2b190a723341547830d23181ca6d242">
<span class="new-file">
+
tests/test_interval_tree.cpp
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<li class="file-stats">
<a href="#461dd163e8fdef342b3dcb28bba477068047700f">
<span class="new-file">
+
tests/test_isize_trim.cpp
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</a>
</li>
<li class="file-stats">
<a href="#712dcf8b21fcd10da8be76422f7b79a3841cd9e4">
tests/test_primer_bed.cpp
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</li>
<li class="file-stats">
<a href="#5e14845d439307e7a73e85d110f0b545b6265fa9">
tests/test_primer_trim.cpp
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</li>
<li class="file-stats">
<a href="#bc53edf1aafd372a6a2ab1583c4dce2eb60702a7">
tests/test_primer_trim_edge_cases.cpp
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</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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