[med-svn] [SCM] picard-tools branch, master, updated. debian/1.90-3-7-g53b7a12
Olivier Sallou
olivier.sallou at debian.org
Thu Jul 25 12:38:34 UTC 2013
The following commit has been merged in the master branch:
commit c332c8f4574bf4305e635289d7309d96c30d5a74
Author: Olivier Sallou <olivier.sallou at debian.org>
Date: Thu Jul 25 13:38:33 2013 +0200
update patches for new release
diff --git a/debian/patches/01-build.xml b/debian/patches/01-build.xml
index ffa30a1..d462572 100644
--- a/debian/patches/01-build.xml
+++ b/debian/patches/01-build.xml
@@ -16,16 +16,7 @@ Forwarded: no
<property name="src" value="src/java"/>
<property name="src.scripts" value="src/scripts"/>
-@@ -51,7 +51,7 @@
- <property name="command_tmp" value=".command_tmp"/>
- <property name="command-line-html-dir" value="${dist}/html"/>
- <property name="testng.verbosity" value="2"/>
-- <property name="contracts.jar" value="${lib}/cofoja-1.0-r139.jar"/>
-+ <property name="contracts.jar" value="/usr/share/java/cofoja.jar"/>
-
- <property environment="env"/>
-
-@@ -72,6 +72,11 @@
+@@ -70,6 +70,11 @@
<fileset dir="${lib}">
<include name="**/*.jar"/>
</fileset>
@@ -37,16 +28,15 @@ Forwarded: no
</path>
<path id="metrics.classpath">
<pathelement path="${classpath}"/>
-@@ -209,7 +214,7 @@
- <mkdir dir="${dist}"/>
+@@ -195,7 +200,6 @@
<jar destfile="${dist}/picard-${picard-version}.jar" compress="no">
<fileset dir="${classes}" includes ="net/sf/picard/**/*.*"/>
+ <fileset dir="${src.scripts}" includes="**/*.R"/>
- <zipfileset src="${lib}/apache-ant-1.8.2-bzip2.jar"/>
-+ <fileset dir="${src.scripts}" includes="**/*.R"/>
<manifest>
<attribute name="Implementation-Version" value="${picard-version}(${repository.revision})"/>
<attribute name="Implementation-Vendor" value="Broad Institute"/>
-@@ -239,6 +244,8 @@
+@@ -225,6 +229,8 @@
</copy>
</target>
--
manipulate SAM and BAM files
More information about the debian-med-commit
mailing list