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Make sure that the temporary ReadWalker performance improvement hack 

works well in the binary release, jic GATK 1.4 arrives before I get
a Picard patch.
This commit is contained in:
Matt Hanna 2011-12-20 21:42:30 -05:00
parent b472bab54e
commit d50f9b98bb
1 changed files with 6 additions and 1 deletions
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7
build.xml
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@ -847,7 +847,6 @@
<path id="testng.default.classpath"> <path id="testng.default.classpath">
<path refid="external.dependencies" />
<pathelement location="${java.classes}" /> <pathelement location="${java.classes}" />
<pathelement location="${scala.classes}" /> <pathelement location="${scala.classes}" />
<pathelement location="${java.contracts}" /> <pathelement location="${java.contracts}" />
@ -858,6 +857,7 @@
<pathelement location="${R.tar.dir}" /> <pathelement location="${R.tar.dir}" />
<pathelement location="${R.public.scripts.dir}" /> <pathelement location="${R.public.scripts.dir}" />
<pathelement location="${R.private.scripts.dir}" /> <pathelement location="${R.private.scripts.dir}" />
<path refid="external.dependencies" />
</path> </path>
<path id="testng.gatk.releasetest.classpath"> <path id="testng.gatk.releasetest.classpath">
@ -1118,6 +1118,11 @@
<patternset refid="dependency.mask" /> <patternset refid="dependency.mask" />
</fileset> </fileset>
</unjar> </unjar>
<!-- HACK: The GATK jar itself contains overrides for some core classes. Make sure the GATK.jar is unrolled last. -->
<unjar dest="${staging.dir}" overwrite="true">
<fileset dir="${dist.dir}" includes="**/GenomeAnalysisTK.jar"/>
</unjar>
</target> </target>
<!-- Build a package consisting of all supporting files --> <!-- Build a package consisting of all supporting files -->