[gentoo-commits] proj/sci:master commit in: sci-biology/VarScan/

["Martin Mokrejs" <mmokrejs@fold.natur.cuni.cz>]

commit:     790ca1f9862fd92d6a0edc5068e3ae0779d24e55
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Fri Mar 13 12:28:31 2015 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Fri Mar 13 12:28:31 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=790ca1f9

fix SRC_URI to fetch real source code, ebuild improvements but not working

Package-Manager: portage-2.2.15

 sci-biology/VarScan/ChangeLog                             |  6 ++++++
 .../{VarScan-2.3.6.ebuild => VarScan-2.3.7.ebuild}        | 15 ++++++++++++---
 2 files changed, 18 insertions(+), 3 deletions(-)

diff --git a/sci-biology/VarScan/ChangeLog b/sci-biology/VarScan/ChangeLog
index bfcfc5c..a7470a6 100644
--- a/sci-biology/VarScan/ChangeLog
+++ b/sci-biology/VarScan/ChangeLog
@@ -2,6 +2,12 @@
 # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+*VarScan-2.3.7 (13 Mar 2015)
+
+  13 Mar 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
+  +VarScan-2.3.7.ebuild, -VarScan-2.3.6.ebuild:
+  fix SRC_URI to fetch real source code, ebuild improvements but not working
+
   18 Feb 2015; Justin Lecher <jlec@gentoo.org> VarScan-2.3.6.ebuild,
   metadata.xml:
   sci-biology/VarScan: fix SLOT operators

diff --git a/sci-biology/VarScan/VarScan-2.3.6.ebuild b/sci-biology/VarScan/VarScan-2.3.7.ebuild
similarity index 64%
rename from sci-biology/VarScan/VarScan-2.3.6.ebuild
rename to sci-biology/VarScan/VarScan-2.3.7.ebuild
index a9a9a07..ad7eaa8 100644
--- a/sci-biology/VarScan/VarScan-2.3.6.ebuild
+++ b/sci-biology/VarScan/VarScan-2.3.7.ebuild
@@ -8,7 +8,11 @@ inherit java-pkg-2
 
 DESCRIPTION="Variant detection (germline, multi-sample, somatic mut., som. cp nr alterations (CNA)), SNP calls"
 HOMEPAGE="http://varscan.sourceforge.net/"
-SRC_URI="http://downloads.sourceforge.net/project/varscan/${PN}.v${PV}.jar"
+
+# binary
+#http://downloads.sourceforge.net/project/varscan/VarScan.v2.3.7.jar
+#SRC_URI="http://downloads.sourceforge.net/project/varscan/${PN}.v${PV}.jar"
+SRC_URI="http://downloads.sourceforge.net/project/varscan/${PN}.v${PV}.source.jar"
 
 LICENSE="Non-profit-OSL-3.0"
 SLOT="0"
@@ -16,6 +20,11 @@ KEYWORDS=""
 IUSE=""
 
 DEPEND="
-	>=virtual/jdk-1.5:*
-	dev-java/ant-core"
+	>=virtual/jdk-1.5:*"
 RDEPEND=">=virtual/jre-1.5:*"
+
+S="${WORKDIR}"/net/sf/varscan
+
+src_compile(){
+	javac *.java
+}