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gatk-3.8
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Support dist target for externally written walkers. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4701 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
hanna 2010-11-17 20:41:04 +00:00
parent 90711d445c
commit 9942f436b4
1 changed files with 24 additions and 13 deletions
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37
build.xml
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@ -180,6 +180,20 @@
<!-- Create the build directory structure used by compile -->
<mkdir dir="${build.dir}"/>
<mkdir dir="${java.classes}"/>
<pathconvert property="external.build.dir">
<path path="${java.classes}"/>
</pathconvert>
<pathconvert property="external.dist.dir">
<path path="${dist.dir}" />
</pathconvert>
<!-- GATK dependencies consist of 3rd party plugins plus compiled GATK classes -->
<pathconvert property="external.gatk.classpath">
<path path="${java.classes}"/>
<path refid="external.dependencies" />
</pathconvert>
</target>
<target name="init.scalatasks" depends="resolve" if="scala.include"
@ -204,18 +218,9 @@
<exclude name="**/oneoffprojects/**" unless="include.oneoffs"/>
</javac>
<pathconvert property="external.build.dir">
<path path="${java.classes}"/>
</pathconvert>
<!-- GATK dependencies consist of 3rd party plugins plus compiled GATK classes -->
<pathconvert property="external.gatk.classpath">
<path path="${java.classes}"/>
<path refid="external.dependencies" />
</pathconvert>
<subant target="compile" genericantfile="build.xml">
<property name="build.dir" value="${external.build.dir}" />
<property name="dist.dir" value="${external.dist.dir}" />
<property name="gatk.classpath" value="${external.gatk.classpath}" />
<fileset dir="${basedir}" includes="external/*/build.xml" />
</subant>
@ -299,9 +304,9 @@
</manifest>
</jar>
<jar jarfile="${dist.dir}/Aligner.jar">
<fileset dir="${java.classes}" includes="**/alignment/**/*.class" />
</jar>
<jar jarfile="${dist.dir}/Aligner.jar">
<fileset dir="${java.classes}" includes="**/alignment/**/*.class" />
</jar>
<jar jarfile="${dist.dir}/AnalyzeCovariates.jar" whenmanifestonly="skip">
<fileset dir="${java.classes}">
@ -313,6 +318,12 @@
</manifest>
</jar>
<subant target="dist" genericantfile="build.xml">
<property name="build.dir" value="${external.build.dir}" />
<property name="dist.dir" value="${external.dist.dir}" />
<property name="gatk.classpath" value="${external.gatk.classpath}" />
<fileset dir="${basedir}" includes="external/*/build.xml" />
</subant>
</target>
<target name="queue.jar" depends="queue.compile, init.jar" if="queue.include">