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<h3>
Olivier Sallou pushed to branch master
at <a href="https://salsa.debian.org/med-team/htsjdk">Debian Med / htsjdk</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/htsjdk/-/commit/cd038d1cafaa6e875e65e5fc52cd9cb17ec0fddb">cd038d1c</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2020-05-29T11:07:37+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.22.0+dfsg</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/htsjdk/-/commit/a2864851c4a39d6eab9e84573ecc0cd864a4b558">a2864851</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2020-05-29T11:08:11+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/2.22.0+dfsg'
Update to upstream version '2.22.0+dfsg'
with Debian dir 885909f1d3fabecdc94be6b4b79054cac44392aa</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/htsjdk/-/commit/d5151e88d809eddecf4213643f0a7aece61cadbb">d5151e88</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2020-06-16T04:18:18+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">new upstream release 2.22.0+dfsg
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/htsjdk/-/commit/010096d34276b7646e8c4ee7a2e414b2977a25f5">010096d3</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2020-06-16T04:57:24+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">new upstream release 2.22.0, compiles but still to be tested against picard-tools
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#e92266778ac0ab35c5df350376a55fe504bb38b8">
.github/ISSUE_TEMPLATE.md
</a>
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<li class="file-stats">
<a href="#b8baf23d7ed7f2b79b86aeb041867428fb196428">
.github/PULL_REQUEST_TEMPLATE.md
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<li class="file-stats">
<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">
.travis.yml
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<li class="file-stats">
<a href="#0834ae016f8fea5cff771880c0be1d55299732ff">
<span class="new-file">
+
CODE_OF_CONDUCT.md
</span>
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<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
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<li class="file-stats">
<a href="#f07866736216be0ee2aba49e392191aeae700a35">
build.gradle
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<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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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="#eacc88751a9dfebcbf60538e262fa864e473a2b8">
debian/patches/100-fix-java11
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<li class="file-stats">
<a href="#b4e355e83bca00202a902361a030a5e71f4c49ce">
<span class="new-file">
+
debian/patches/120-fix-build.patch
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<li class="file-stats">
<a href="#7f1911728fcb942b06eae783e11a5c11d91de2b6">
debian/patches/13-skip_network_tests
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<li class="file-stats">
<a href="#332134ca0ea8ce03ab7b9306e9ab516ad5c70bb6">
debian/patches/20-fix-version.patch
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<li class="file-stats">
<a href="#7e10b3631d1a294f02feb67ba029333d859573e3">
debian/patches/30-disable-scalatest.patch
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<li class="file-stats">
<a href="#0e145a9888f04e5bcc1b32e5ba78679670498477">
debian/patches/40-fix-java9
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<li class="file-stats">
<a href="#52b48dcfaeb86a97b0a2e932ab203797ce0ef59c">
debian/patches/60-enable-tests
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<li class="file-stats">
<a href="#1829ef4ce68fdf0343d52cba28050f16f50ac5d0">
debian/patches/70-removesometests-testng.patch
</a>
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<li class="file-stats">
<a href="#a69d7a92eb7bbb495ef85fc6c78e5166c47386b3">
debian/patches/90-disable-testftp.patch
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<li class="file-stats">
<a href="#45a5d5d6fee92c99102cebc37efea96fcbbb35b8">
debian/patches/92-disable-testhttp.patch
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<li class="file-stats">
<a href="#13fb0bb1aa5d78fa021dfaa9243e128b23b68753">
debian/patches/disable-network-tests.diff
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#025493272b19a1b07b82496d32512c2235facc82">
<span class="new-file">
+
gradle/spotbugs-exclude.xml
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<li class="file-stats">
<a href="#fbe448ebfc3eb2d4e308f6b8b043666f5b57235e">
gradle/wrapper/gradle-wrapper.properties
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<li class="file-stats">
<a href="#5bbfa66edb4db3c7c33c5181f43510990d3307f9">
gradlew
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<li class="file-stats">
<a href="#edd96395115de8a579ba1a96f9f0baa5cdc4ef63">
<span class="new-file">
+
java-style-eclipse.xml
</span>
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<li class="file-stats">
<a href="#0391bc3d21ac2789b5fb82c08cddbaf3c5231664">
<span class="new-file">
+
java-style-intellij.xml
</span>
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<li class="file-stats">
<a href="#c1fd3ddfa5246209d0d5cf69c072e1b6767bfac0">
<span class="new-file">
+
scripts/install-samtools.sh
</span>
</a>
</li>
<li class="file-stats">
<a href="#d8e288b0d8f75509f20e6539873de7018d793c83">
src/main/java/htsjdk/samtools/AbstractBAMFileIndex.java
</a>
</li>
<li class="file-stats">
<a href="#9a6a36d42466326e6098d2e7f5a6b7e444babb1e">
src/main/java/htsjdk/samtools/BAMFileConstants.java
</a>
</li>
<li class="file-stats">
<a href="#c6a6e96e6adb310d71c0adc7c198275c9add065b">
src/main/java/htsjdk/samtools/BAMFileReader.java
</a>
</li>
<li class="file-stats">
<a href="#52776e045edefe05ccd5daccebac565b6665bab9">
src/main/java/htsjdk/samtools/BAMFileWriter.java
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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