[med-svn] [Git][med-team/picard-tools][master] 7 commits: New upstream version 2.18.14+dfsg

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / picard-tools


Commits:
3c94ec94 by Andreas Tille at 2018-09-17T13:12:27Z
New upstream version 2.18.14+dfsg
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fa2a66b4 by Andreas Tille at 2018-09-17T13:13:19Z
Update upstream source from tag 'upstream/2.18.14+dfsg'

Update to upstream version '2.18.14+dfsg'
with Debian dir 13345f76ed698a995f622cc051baa2d5bf5f2976
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9fe71973 by Andreas Tille at 2018-09-17T13:13:19Z
New upstream version

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88dc0c15 by Andreas Tille at 2018-09-17T13:14:55Z
Standards-Version: 4.2.1

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95c45cfb by Andreas Tille at 2018-09-17T13:50:55Z
Adapt patches

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4da85197 by Andreas Tille at 2018-09-17T13:52:40Z
Fix link

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9325575e by Andreas Tille at 2018-09-17T13:57:37Z
Further adaption of patches

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30 changed files:

- − .classpath
- − .project
- Dockerfile
- build.gradle
- + build_push_docker.sh
- debian/changelog
- debian/control
- debian/libpicard-java-doc.links
- debian/patches/10-build.xml.patch
- debian/patches/20-shadowjar.patch
- debian/patches/40-tests-fix-testng.patch
- debian/patches/fix_javadoc_ascii.patch
- − debian/patches/fix_test_freezing
- debian/patches/series
- − project/plugins.sbt
- src/main/java/picard/analysis/AbstractWgsMetricsCollector.java
- src/main/java/picard/analysis/AlignmentSummaryMetrics.java
- src/main/java/picard/analysis/CollectMultipleMetrics.java
- src/main/java/picard/analysis/CollectWgsMetrics.java
- src/main/java/picard/analysis/CollectWgsMetricsWithNonZeroCoverage.java
- src/main/java/picard/analysis/MergeableMetricBase.java
- src/main/java/picard/analysis/TheoreticalSensitivity.java
- + src/main/java/picard/analysis/TheoreticalSensitivityMetrics.java
- src/main/java/picard/analysis/directed/CollectTargetedMetrics.java
- src/main/java/picard/analysis/directed/TargetMetricsCollector.java
- src/main/java/picard/analysis/replicates/CollectIndependentReplicateMetrics.java
- src/main/java/picard/cmdline/CommandLineProgram.java
- src/main/java/picard/cmdline/CommandLineSyntaxTranslater.java
- src/main/java/picard/cmdline/PicardCommandLine.java
- src/main/java/picard/illumina/ClusterDataToSamConverter.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/picard-tools/compare/790482cfbfaa93b00e36e91913412e5c47e7a8f1...9325575e20b129e379076ddced7a1583e26ab751

-- 
View it on GitLab: https://salsa.debian.org/med-team/picard-tools/compare/790482cfbfaa93b00e36e91913412e5c47e7a8f1...9325575e20b129e379076ddced7a1583e26ab751
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