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<h3>
Pierre Gruet pushed to branch master
at <a href="https://salsa.debian.org/med-team/drop-seq">Debian Med / drop-seq</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/763ed8c0f4837f541a449cc06c564738b22b0225">763ed8c0</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2021-10-12T09:38:35+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.4.1+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/67aa10930e635cf73ac2277f5979764f1a44883e">67aa1093</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-10-12T11:51:57+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.4.1+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/6d7c921f563e19a2df78cc983393ecaf1ea46877">6d7c921f</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-10-12T11:53:34+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/2.4.1+dfsg'
Update to upstream version '2.4.1+dfsg'
with Debian dir 5c84278da5942361be129fbefa50c0a54ddd9cc9</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/7dfeed78dd16c733f6b6c2ae20c456221cb0ff86">7dfeed78</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-10-12T13:58:18+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Depending on biojava4, with proper paths and manifest
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/4ed6ae9f9680a16fda782e062fe72f5f7dc986e7">4ed6ae9f</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-10-12T15:17:58+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Updating d/tests/ref after the PolyATrimmer class evolved
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/fe27731d43e36349ac5c21790e0ba9436f30f486">fe27731d</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-10-12T15:18:32+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Updating changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/drop-seq/-/commit/36456acfdf120d9ba5f1fec7e61ef1407ff543ff">36456acf</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-10-12T15:51:51+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#bdc348bf75801c527f51cdeddc8edf027f7ef35a">
build.xml
</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="#9741480530ebc774872ac828bd1c250d611e9d44">
debian/drop-seq-tools.manifest
</a>
</li>
<li class="file-stats">
<a href="#ea812c2fa082332e59c008510bfb5a900e310037">
<span class="new-file">
+
debian/patches/biojava4_packages.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#1c3e3d1132dfe3686c9216308bbd12e5df2d21c2">
debian/tests/ref/PolyATrimmer.sam
</a>
</li>
<li class="file-stats">
<a href="#126e844ff98b3c8e9ce07e5602abeea640905d7e">
public.iml
</a>
</li>
<li class="file-stats">
<a href="#e417d87785a703d5c8bb1cc5e82cddfae8efe265">
src/ant/defs.xml
</a>
</li>
<li class="file-stats">
<a href="#032778c8c38290444d9623154ed3953430fa3519">
src/java/org/broadinstitute/dropseqrna/annotation/EnhanceGTFRecords.java
</a>
</li>
<li class="file-stats">
<a href="#bf66897dbc44295e35876f589c838511ac83323b">
src/java/org/broadinstitute/dropseqrna/annotation/GTFReader.java
</a>
</li>
<li class="file-stats">
<a href="#fe1030726e5488d620ac0704e82f64e568a5bbaf">
src/java/org/broadinstitute/dropseqrna/annotation/GeneFromGTFBuilder.java
</a>
</li>
<li class="file-stats">
<a href="#a833f2b2e4bd626dbe653dd371caa5fc369aaec9">
src/java/org/broadinstitute/dropseqrna/annotation/ValidateReference.java
</a>
</li>
<li class="file-stats">
<a href="#091256f5e03f4a474aaacca323c45a3f064f9c38">
src/java/org/broadinstitute/dropseqrna/barnyard/BarcodeListRetrieval.java
</a>
</li>
<li class="file-stats">
<a href="#3fc29742029b59ebe687374cc84905308eef17b0">
src/java/org/broadinstitute/dropseqrna/barnyard/DGECommandLineBase.java
</a>
</li>
<li class="file-stats">
<a href="#2b9909c5b5a360e211167af9b686a599ea5d6681">
src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
</a>
</li>
<li class="file-stats">
<a href="#b7ea49725999e61f0bdf16c415245903969406ca">
src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
</a>
</li>
<li class="file-stats">
<a href="#fd3a5e40a45d2f4b41997710d2d546c6eb0197ef">
src/java/org/broadinstitute/dropseqrna/barnyard/SelectCellsByNumTranscripts.java
</a>
</li>
<li class="file-stats">
<a href="#0c6697ef52f14a2739123f0abddc573b0efce8bb">
src/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollector.java
</a>
</li>
<li class="file-stats">
<a href="#4d9eed73071d00f066f1fb8debfc896aefed6bae">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCounts.java
</a>
</li>
<li class="file-stats">
<a href="#aa743a24790013f9b239f7da44936fa5f998077f">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCountsBestGeneIterator.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#0d81bb6818097b48bbe062000c81d8afc7704d5c">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCountsGeneIteratorI.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#f2826e10c6a8820995bac0a6ee723ff847696e78">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/DigitalAlleleCountsIterator.java
</a>
</li>
<li class="file-stats">
<a href="#5eb1e45250b8c5b84727a387522f0f44ecc64cf6">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtils.java
</a>
</li>
<li class="file-stats">
<a href="#6b999f80356a68baf45823ffe07e622b4d63b198">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/MultiCellDigitalAlleleCounts.java
</a>
</li>
<li class="file-stats">
<a href="#4715f9c62db4691599b82c890fa92f0a970c173d">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/MultiCellDigitalAlleleCountsIterator.java
</a>
</li>
<li class="file-stats">
<a href="#64537137acc59da98550ca639376b0079e672ea1">
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPBasePileUp.java
</a>
</li>
<li class="file-stats">
<a href="#b39c23214908b9c503de5a341b56523b626eb888">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPInfoCollection.java
</span>
</a>
</li>
<li class="file-stats">
<a href="#1c332b8e01efb0944cfcd35871330813c7fdb5bd">
<span class="new-file">
+
src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPIntervalRecordI.java
</span>
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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