<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN" "http://www.w3.org/TR/REC-html40/loose.dtd">

<html lang="en">

<head>

<meta content="text/html; charset=utf-8" http-equiv="Content-Type">

<title>

GitLab

</title>

<style>img {

max-width: 100%; height: auto;

}

</style>

</head>

<body>

<div class="content">

<h3>

Andreas Tille pushed to branch upstream

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/5c5e2f76d0fb254e387d16fffcbb898dce45badb">5c5e2f76</a></strong>

<div>

<span>by Andreas Tille</span>

<i>at 2018-09-17T14:00:42Z</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.16.1+dfsg</pre>

</li>

</ul>

<h4>30 changed files:</h4>

<ul>

<li class="file-stats">

<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">

.travis.yml

</a>

</li>

<li class="file-stats">

<a href="#f07866736216be0ee2aba49e392191aeae700a35">

build.gradle

</a>

</li>

<li class="file-stats">

<a href="#fbe448ebfc3eb2d4e308f6b8b043666f5b57235e">

gradle/wrapper/gradle-wrapper.properties

</a>

</li>

<li class="file-stats">

<a href="#5bbfa66edb4db3c7c33c5181f43510990d3307f9">

gradlew

</a>

</li>

<li class="file-stats">

<a href="#52776e045edefe05ccd5daccebac565b6665bab9">

src/main/java/htsjdk/samtools/BAMFileWriter.java

</a>

</li>

<li class="file-stats">

<a href="#993dacb3974ba8ae9df67faf7d12d33647fdb7d3">

src/main/java/htsjdk/samtools/BAMRecord.java

</a>

</li>

<li class="file-stats">

<a href="#61dad633b446e3eb67d2cdc43e2ebc9dd4878345">

src/main/java/htsjdk/samtools/BAMRecordCodec.java

</a>

</li>

<li class="file-stats">

<a href="#80e16130a35788d7564c430d4392321991238f9d">

src/main/java/htsjdk/samtools/BamFileIoUtils.java

</a>

</li>

<li class="file-stats">

<a href="#d5f9b57588db1d4a34f0f98dc0b8ce09e84b87fb">

src/main/java/htsjdk/samtools/BinaryBAMIndexWriter.java

</a>

</li>

<li class="file-stats">

<a href="#089d4c72e361a0f8eecae22b77155e0a07b870ed">

src/main/java/htsjdk/samtools/CRAMFileReader.java

</a>

</li>

<li class="file-stats">

<a href="#2527486a516a38ab96f541be00b269701f60d232">

src/main/java/htsjdk/samtools/CRAMFileWriter.java

</a>

</li>

<li class="file-stats">

<a href="#6137a58ff7318431b5061d64c2aec4e14880fe1e">

src/main/java/htsjdk/samtools/CachingBAMFileIndex.java

</a>

</li>

<li class="file-stats">

<a href="#0cfa6bc34a953a2fd3fc7d50e0b68753c6c67373">

src/main/java/htsjdk/samtools/Defaults.java

</a>

</li>

<li class="file-stats">

<a href="#7c4164c40fb89ec9c0643b8dd378c1cf0957f5d1">

src/main/java/htsjdk/samtools/SAMBinaryTagAndValue.java

</a>

</li>

<li class="file-stats">

<a href="#bd57c0919da7536e98f056e9bf8692209ba43488">

src/main/java/htsjdk/samtools/SAMFileWriterFactory.java

</a>

</li>

<li class="file-stats">

<a href="#e6cdc1abc0fa0f0287c09c4cf048f8deee507291">

src/main/java/htsjdk/samtools/SAMFileWriterImpl.java

</a>

</li>

<li class="file-stats">

<a href="#b9092567a6b258b395f6b5e3d1a66b3a0db66272">

src/main/java/htsjdk/samtools/SAMRecord.java

</a>

</li>

<li class="file-stats">

<a href="#8a44f49ee7d97ebcc7900c487672a832950d4de5">

src/main/java/htsjdk/samtools/SAMRecordSetBuilder.java

</a>

</li>

<li class="file-stats">

<a href="#c9ff1e32eeacbae344955f9c13d7f3ae806925c0">

src/main/java/htsjdk/samtools/SAMTag.java

</a>

</li>

<li class="file-stats">

<a href="#4d82de20676ba51df39d89929d1f2e1281388b05">

src/main/java/htsjdk/samtools/SAMTagUtil.java

</a>

</li>

<li class="file-stats">

<a href="#726c2ec7c30496bab01d5f046f0ecc650a8f7a1e">

src/main/java/htsjdk/samtools/SAMTextWriter.java

</a>

</li>

<li class="file-stats">

<a href="#d4460f31fc299d131ced2a583813743b1cab9afd">

src/main/java/htsjdk/samtools/SAMUtils.java

</a>

</li>

<li class="file-stats">

<a href="#8dcdf1341d0110669b942d8ec543f914d8afbb7e">

src/main/java/htsjdk/samtools/SAMValidationError.java

</a>

</li>

<li class="file-stats">

<a href="#dd7e7f9ef58d444c69a7e006a153fc8e4aedd2aa">

src/main/java/htsjdk/samtools/SamFileValidator.java

</a>

</li>

<li class="file-stats">

<a href="#33a1b3b3387df0d8b0fe743cd1a762e025a66248">

src/main/java/htsjdk/samtools/SamFiles.java

</a>

</li>

<li class="file-stats">

<a href="#ae408041267fd1eeeac55a0d326f90514b4f5dcc">

src/main/java/htsjdk/samtools/SamInputResource.java

</a>

</li>

<li class="file-stats">

<a href="#39d4e19d290901edb25bc0ad2caaae6b68ecd66d">

src/main/java/htsjdk/samtools/SamReader.java

</a>

</li>

<li class="file-stats">

<a href="#8ade29bf41936dfa97ffd3ffa00afe3a2942f4fd">

src/main/java/htsjdk/samtools/SamReaderFactory.java

</a>

</li>

<li class="file-stats">

<a href="#ec75bdee93ceb62ad3b1b8404efceb0abb1db58f">

<span class="new-file">

+

src/main/java/htsjdk/samtools/cram/build/CramContainerHeaderIterator.java

</span>

</a>

</li>

<li class="file-stats">

<a href="#5062ddf3c71aeede09087a3c7e9183288e91a836">

src/main/java/htsjdk/samtools/cram/build/CramContainerIterator.java

</a>

</li>

</ul>

<h5>The diff was not included because it is too large.</h5>

</div>

<div class="footer" style="margin-top: 10px;">

<p style="font-size: small; color: #777;">

—

<br>

<a href="https://salsa.debian.org/med-team/htsjdk/commit/5c5e2f76d0fb254e387d16fffcbb898dce45badb">View it on GitLab</a>.

<br>

You're receiving this email because of your account on salsa.debian.org.

If you'd like to receive fewer emails, you can

adjust your notification settings.

<script type="application/ld+json">{"@context":"http://schema.org","@type":"EmailMessage","action":{"@type":"ViewAction","name":"View Commit","url":"https://salsa.debian.org/med-team/htsjdk/commit/5c5e2f76d0fb254e387d16fffcbb898dce45badb"}}</script>

</p>

</div>

</body>

</html>