[med-svn] [Git][med-team/htsjdk][master] 6 commits: New upstream version 2.16.1+dfsg

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / htsjdk


Commits:
5c5e2f76 by Andreas Tille at 2018-09-17T14:00:42Z
New upstream version 2.16.1+dfsg
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0b5eb2a6 by Andreas Tille at 2018-09-17T14:01:03Z
Update upstream source from tag 'upstream/2.16.1+dfsg'

Update to upstream version '2.16.1+dfsg'
with Debian dir 927de226c94872f2efbb8b294ffb6da754089b77
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4cf4fba0 by Andreas Tille at 2018-09-17T14:01:03Z
New upstream version

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ab2abc91 by Andreas Tille at 2018-09-17T14:01:03Z
debhelper 11

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102a32b3 by Andreas Tille at 2018-09-17T14:01:07Z
Standards-Version: 4.2.1

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f0bb4b0e by Andreas Tille at 2018-09-17T14:19:03Z
Refresh patches

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30 changed files:

- .travis.yml
- build.gradle
- debian/changelog
- debian/compat
- debian/control
- debian/patches/10-build.xml.patch
- debian/patches/13-skip_network_tests
- debian/patches/30-disable-scalatest.patch
- debian/patches/40-fix-java9
- debian/patches/60-enable-tests
- gradle/wrapper/gradle-wrapper.properties
- gradlew
- src/main/java/htsjdk/samtools/BAMFileWriter.java
- src/main/java/htsjdk/samtools/BAMRecord.java
- src/main/java/htsjdk/samtools/BAMRecordCodec.java
- src/main/java/htsjdk/samtools/BamFileIoUtils.java
- src/main/java/htsjdk/samtools/BinaryBAMIndexWriter.java
- src/main/java/htsjdk/samtools/CRAMFileReader.java
- src/main/java/htsjdk/samtools/CRAMFileWriter.java
- src/main/java/htsjdk/samtools/CachingBAMFileIndex.java
- src/main/java/htsjdk/samtools/Defaults.java
- src/main/java/htsjdk/samtools/SAMBinaryTagAndValue.java
- src/main/java/htsjdk/samtools/SAMFileWriterFactory.java
- src/main/java/htsjdk/samtools/SAMFileWriterImpl.java
- src/main/java/htsjdk/samtools/SAMRecord.java
- src/main/java/htsjdk/samtools/SAMRecordSetBuilder.java
- src/main/java/htsjdk/samtools/SAMTag.java
- src/main/java/htsjdk/samtools/SAMTagUtil.java
- src/main/java/htsjdk/samtools/SAMTextWriter.java
- src/main/java/htsjdk/samtools/SAMUtils.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/htsjdk/compare/311a23e0abf3d8f109e58ac9cd4062fb8987d244...f0bb4b0ecfb581cb58c2a3fba28e8347f77617d0

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View it on GitLab: https://salsa.debian.org/med-team/htsjdk/compare/311a23e0abf3d8f109e58ac9cd4062fb8987d244...f0bb4b0ecfb581cb58c2a3fba28e8347f77617d0
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