[gentoo-commits] gentoo-x86 commit in sci-biology/gatk: ChangeLog gatk-1.4.ebuild

[Andrey Kislyuk (weaver)]

weaver      12/01/29 22:10:21

  Modified:             ChangeLog
  Added:                gatk-1.4.ebuild
  Log:
  Version bump, resolves bug 400885
  
  (Portage version: 2.2.0_alpha74/cvs/Linux x86_64)

Revision  Changes    Path
1.3                  sci-biology/gatk/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/ChangeLog?rev=1.3&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/ChangeLog?rev=1.3&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/ChangeLog?r1=1.2&r2=1.3

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v
retrieving revision 1.2
retrieving revision 1.3
diff -u -r1.2 -r1.3
--- ChangeLog	26 Dec 2011 05:40:50 -0000	1.2
+++ ChangeLog	29 Jan 2012 22:10:21 -0000	1.3
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/gatk
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v 1.2 2011/12/26 05:40:50 weaver Exp $
+# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/ChangeLog,v 1.3 2012/01/29 22:10:21 weaver Exp $
+
+*gatk-1.4 (29 Jan 2012)
+
+  29 Jan 2012; Andrey Kislyuk <weaver@g.o> +gatk-1.4.ebuild:
+  Version bump, resolves bug 400885
 
 *gatk-1.3 (26 Dec 2011)
 



1.1                  sci-biology/gatk/gatk-1.4.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/gatk-1.4.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/gatk/gatk-1.4.ebuild?rev=1.1&content-type=text/plain

Index: gatk-1.4.ebuild
===================================================================
# Copyright 1999-2012 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/gatk/gatk-1.4.ebuild,v 1.1 2012/01/29 22:10:21 weaver Exp $

EAPI=4

MY_HASH=8439a51

EGIT_REPO_URI="https://github.com/broadgsa/gatk.git"

EANT_BUILD_TARGET="dist"
EANT_NEEDS_TOOLS="true"
JAVA_ANT_REWRITE_CLASSPATH="true"

#inherit java-pkg-2 java-ant-2 git
inherit java-pkg-2 java-ant-2

DESCRIPTION="The Genome Analysis Toolkit"
HOMEPAGE="http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit"
SRC_URI="https://github.com/broadgsa/gatk/tarball/${PV} -> ${P}.tar.gz"

LICENSE="as-is"
SLOT="0"
IUSE=""
KEYWORDS="~amd64"

COMMON_DEPS=""
DEPEND=">=virtual/jdk-1.6
	${COMMON_DEPS}"
RDEPEND=">=virtual/jre-1.6
	${COMMON_DEPS}"

S="${WORKDIR}/broadgsa-gatk-${MY_HASH}"

src_prepare() {
	sed -i '/property name="ivy.home"/ s|${user.home}|'${WORKDIR}'|' build.xml || die
	java-pkg-2_src_prepare
}

src_install() {
	java-pkg_dojar dist/*.jar
	java-pkg_dolauncher GenomeAnalysisTK --jar GenomeAnalysisTK.jar
	java-pkg_dolauncher AnalyzeCovariates --jar AnalyzeCovariates.jar
}