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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/picard-tools">Debian Med / picard-tools</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/3c94ec9479705d58bfa23dc753278bd36d7236a8">3c94ec94</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:12:27Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.18.14+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/fa2a66b4002f81c9244c131124b2156e77fe8c11">fa2a66b4</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:13:19Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/2.18.14+dfsg'
Update to upstream version '2.18.14+dfsg'
with Debian dir 13345f76ed698a995f622cc051baa2d5bf5f2976</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/9fe719733a8c1787978bcd9f88209d5d0194eabe">9fe71973</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:13:19Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/88dc0c15fc295fc029b7b9ea4f027b5ea14212cc">88dc0c15</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:14:55Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.2.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/95c45cfb39ffb81e666999d626bb85da1027c826">95c45cfb</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:50:55Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Adapt patches
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/4da851972983cee93a3cce27bfbb40f9648dcc3d">4da85197</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:52:40Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix link
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/picard-tools/commit/9325575e20b129e379076ddced7a1583e26ab751">9325575e</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-09-17T13:57:37Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Further adaption of patches
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
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<a href="#354079a72b91a4280407c16a36f47d1986fd85a5">
<span class="deleted-file">
−
.classpath
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<li class="file-stats">
<a href="#f8b41ce76d7b80d2b47e91b5f92c15f00eccf187">
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−
.project
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<li class="file-stats">
<a href="#6651ddff6eb82c840ced7c1dddee15c6e1913dd4">
Dockerfile
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<li class="file-stats">
<a href="#f07866736216be0ee2aba49e392191aeae700a35">
build.gradle
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<li class="file-stats">
<a href="#6909ff640be7be2de90d276c91938e5bcd21a003">
<span class="new-file">
+
build_push_docker.sh
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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="#677f1a41cc8d241abe1e71b374335912c7eb0402">
debian/libpicard-java-doc.links
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<li class="file-stats">
<a href="#e186644cad34bbb8e38eb75706855e6cd177ad48">
debian/patches/10-build.xml.patch
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<li class="file-stats">
<a href="#4851dcaa1d5c2005435e71f102230da1daac1df0">
debian/patches/20-shadowjar.patch
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<li class="file-stats">
<a href="#2112a29d6b2dc089fd18634ad82cb140e99b56c6">
debian/patches/40-tests-fix-testng.patch
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<li class="file-stats">
<a href="#9126f334daf6ad90527cca2c80f2dc88b472204a">
debian/patches/fix_javadoc_ascii.patch
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<a href="#9617e45305272acf3ee187971d66f1be952face9">
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debian/patches/fix_test_freezing
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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project/plugins.sbt
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<a href="#025d792d6ca480e8aa317c5d5200191baa96e8b1">
src/main/java/picard/analysis/AbstractWgsMetricsCollector.java
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<li class="file-stats">
<a href="#bac4c9ac8d5063b8b48c84e1a30915ee1d4b4523">
src/main/java/picard/analysis/AlignmentSummaryMetrics.java
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<li class="file-stats">
<a href="#2269f0b41b877093e5ef84c96198be511137ddbc">
src/main/java/picard/analysis/CollectMultipleMetrics.java
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<li class="file-stats">
<a href="#ef17ffbbef833877458003eb2f12fc07610dfc1e">
src/main/java/picard/analysis/CollectWgsMetrics.java
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<li class="file-stats">
<a href="#9a97429e0fb33ada2f86ffefa4c68b6a1554dab7">
src/main/java/picard/analysis/CollectWgsMetricsWithNonZeroCoverage.java
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<li class="file-stats">
<a href="#02bcb093ea28463e03e7455edcb86c49c1853e64">
src/main/java/picard/analysis/MergeableMetricBase.java
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<a href="#8e4878a852074154d4ceb788ddcf68b23642354f">
src/main/java/picard/analysis/TheoreticalSensitivity.java
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<li class="file-stats">
<a href="#cd8764eb81707925cc1df2a58b7fd40ec6349c94">
<span class="new-file">
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src/main/java/picard/analysis/TheoreticalSensitivityMetrics.java
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<li class="file-stats">
<a href="#9af105d9cdd2d7f8a89fb06cade4843d35624ea0">
src/main/java/picard/analysis/directed/CollectTargetedMetrics.java
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<li class="file-stats">
<a href="#7dc078e8a631cb6833fea5fe97f4d605fadaef7f">
src/main/java/picard/analysis/directed/TargetMetricsCollector.java
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<li class="file-stats">
<a href="#ad1f1dc5e8b9664bb405dbc8386d79b194eada83">
src/main/java/picard/analysis/replicates/CollectIndependentReplicateMetrics.java
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<li class="file-stats">
<a href="#1fa2570ced8b3c33e4b3bd1f563ab3786ec64e29">
src/main/java/picard/cmdline/CommandLineProgram.java
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<li class="file-stats">
<a href="#b0fb6d369c897904de774cb77b8f07d244dcea78">
src/main/java/picard/cmdline/CommandLineSyntaxTranslater.java
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</li>
<li class="file-stats">
<a href="#ca0acf17531387f8a95053d24c87c9deed09c2f7">
src/main/java/picard/cmdline/PicardCommandLine.java
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</li>
<li class="file-stats">
<a href="#318f759ec0d8287f1a6a480e32feee8b65b0f5ff">
src/main/java/picard/illumina/ClusterDataToSamConverter.java
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</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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