The following commit has been merged in the master branch:
commit 46ead8f8a974d35e99df2978341deefaa09c3f44
Author: Olivier Sallou <[email protected]>
Date: Thu Jul 25 14:32:14 2013 +0200
include broad related files in picard jar file
diff --git a/debian/patches/01-build.xml b/debian/patches/01-build.xml
index d462572..d8f7ab3 100644
--- a/debian/patches/01-build.xml
+++ b/debian/patches/01-build.xml
@@ -28,15 +28,18 @@ Forwarded: no
</path>
<path id="metrics.classpath">
<pathelement path="${classpath}"/>
-@@ -195,7 +200,6 @@
+@@ -194,8 +199,9 @@
+ <mkdir dir="${dist}"/>
<jar destfile="${dist}/picard-${picard-version}.jar" compress="no">
<fileset dir="${classes}" includes ="net/sf/picard/**/*.*"/>
++ <fileset dir="${classes}" includes="org/broad/tribble/**/*.*"/>
++ <fileset dir="${classes}"
includes="org/broadinstitute/variant/**/*.*"/>
<fileset dir="${src.scripts}" includes="**/*.R"/>
- <zipfileset src="${lib}/apache-ant-1.8.2-bzip2.jar"/>
<manifest>
<attribute name="Implementation-Version"
value="${picard-version}(${repository.revision})"/>
<attribute name="Implementation-Vendor" value="Broad
Institute"/>
-@@ -225,6 +229,8 @@
+@@ -225,6 +231,8 @@
</copy>
</target>
--
manipulate SAM and BAM files
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