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Picard made major changes post-v1.123. Update our tools to handle them

This commit is contained in:
Phillip Dexheimer 2014-10-23 21:42:05 -04:00
parent b69b256003
commit b3b569f43a
5 changed files with 5 additions and 5 deletions
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4
public/gatk-root/pom.xml
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@ -44,8 +44,8 @@
<test.listeners>org.testng.reporters.FailedReporter,org.testng.reporters.JUnitXMLReporter,org.broadinstitute.gatk.utils.TestNGTestTransformer,org.broadinstitute.gatk.utils.GATKTextReporter,org.uncommons.reportng.HTMLReporter</test.listeners> <test.listeners>org.testng.reporters.FailedReporter,org.testng.reporters.JUnitXMLReporter,org.broadinstitute.gatk.utils.TestNGTestTransformer,org.broadinstitute.gatk.utils.GATKTextReporter,org.uncommons.reportng.HTMLReporter</test.listeners>
<!-- Version numbers for picard and htsjdk --> <!-- Version numbers for picard and htsjdk -->
<htsjdk.version>1.120.1620</htsjdk.version> <htsjdk.version>1.123.1654</htsjdk.version>
<picard.version>1.120.1579</picard.version> <picard.version>1.123.1612</picard.version>
</properties> </properties>
<!-- Dependency configuration (versions, etc.) --> <!-- Dependency configuration (versions, etc.) -->

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public/repo/picard/picard/1.120.1579/picard-1.120.1579.jar → public/repo/picard/picard/1.123.1612/picard-1.123.1612.jar
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public/repo/picard/picard/1.120.1579/picard-1.120.1579.pom → public/repo/picard/picard/1.123.1612/picard-1.123.1612.pom
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@ -3,13 +3,13 @@
<modelVersion>4.0.0</modelVersion> <modelVersion>4.0.0</modelVersion>
<groupId>picard</groupId> <groupId>picard</groupId>
<artifactId>picard</artifactId> <artifactId>picard</artifactId>
<version>1.120.1579</version> <version>1.123.1612</version>
<name>picard</name> <name>picard</name>
<dependencies> <dependencies>
<dependency> <dependency>
<groupId>samtools</groupId> <groupId>samtools</groupId>
<artifactId>htsjdk</artifactId> <artifactId>htsjdk</artifactId>
<version>1.120.1620</version> <version>1.123.1654</version>
</dependency> </dependency>
<!-- TODO: Picard is using a custom zip with just ant's BZip2 classes. See also: http://www.kohsuke.org/bzip2 --> <!-- TODO: Picard is using a custom zip with just ant's BZip2 classes. See also: http://www.kohsuke.org/bzip2 -->
<dependency> <dependency>

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public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.jar → public/repo/samtools/htsjdk/1.123.1654/htsjdk-1.123.1654.jar
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public/repo/samtools/htsjdk/1.120.1620/htsjdk-1.120.1620.pom → public/repo/samtools/htsjdk/1.123.1654/htsjdk-1.123.1654.pom
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@ -3,7 +3,7 @@
<modelVersion>4.0.0</modelVersion> <modelVersion>4.0.0</modelVersion>
<groupId>samtools</groupId> <groupId>samtools</groupId>
<artifactId>htsjdk</artifactId> <artifactId>htsjdk</artifactId>
<version>1.120.1620</version> <version>1.123.1654</version>
<name>htsjdk</name> <name>htsjdk</name>
<dependencies> <dependencies>
<dependency> <dependency>