[gentoo-commits] proj/sci:master commit in: sci-biology/BBmap/files/, sci-biology/BBmap/

[gentoo-commits] proj/sci:master commit in: sci-biology/BBmap/files/, sci-biology/BBmap/

[Martin Mokrejs]

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commit:     277988bc6789886e695d7a1ba4d2eeb3f352e0e7
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Fri Nov 13 10:00:04 2015 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Fri Nov 13 10:00:04 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=277988bc

sci-biology/BBmap-35.66: this version needs more cleanup, upstream will make a new release, dropping KEYWORD

Package-Manager: portage-2.2.18

 .../BBmap/{BBmap-34.56.ebuild => BBmap-35.66.ebuild}    |  3 ++-
 sci-biology/BBmap/files/UnicodeToAscii.patch            | 17 +++++++++++++++++
 2 files changed, 19 insertions(+), 1 deletion(-)

diff --git a/sci-biology/BBmap/BBmap-34.56.ebuild b/sci-biology/BBmap/BBmap-35.66.ebuild
similarity index 94%
rename from sci-biology/BBmap/BBmap-34.56.ebuild
rename to sci-biology/BBmap/BBmap-35.66.ebuild
index a898eff..982c762 100644
--- a/sci-biology/BBmap/BBmap-34.56.ebuild
+++ b/sci-biology/BBmap/BBmap-35.66.ebuild
@@ -12,7 +12,7 @@ SRC_URI="http://sourceforge.net/projects/bbmap/files/BBMap_"${PV}".tar.gz"
 
 LICENSE="BSD"
 SLOT="0"
-KEYWORDS="~amd64"
+KEYWORDS=""
 IUSE=""
 
 DEPEND="
@@ -30,6 +30,7 @@ src_prepare(){
 	# see bug #542700
 	sed -e 's#/usr/common/usg/hpc/openmpi/gnu4.6/sge/1.8.1/ib_2.1-1.0.0/lib/mpi.jar#/usr/share/openmpi/lib/mpi.jar#' -i build.xml
 	sed -e 's#compiler="${jcompiler}" ##' -i build.xml
+	epatch "${FILESDIR}"/UnicodeToAscii.patch
 }
 
 src_compile(){

diff --git a/sci-biology/BBmap/files/UnicodeToAscii.patch b/sci-biology/BBmap/files/UnicodeToAscii.patch
new file mode 100644
index 0000000..36e5a36
--- /dev/null
+++ b/sci-biology/BBmap/files/UnicodeToAscii.patch
@@ -0,0 +1,17 @@
+--- bbmap/current/jgi/UnicodeToAscii.java.ori	2015-11-12 20:24:13.704471341 +0100
++++ bbmap/current/jgi/UnicodeToAscii.java	2015-11-12 20:27:12.564474322 +0100
+@@ -20,14 +20,6 @@
+ public class UnicodeToAscii {
+ 	
+ 	public static void main(String[] args){
+-//		try {
+-//			System.err.println("AêñüC");
+-//			System.err.println(new String("AêñüC".getBytes("UTF8"), "UTF8"));
+-//		} catch (Exception e) {
+-//			// TODO Auto-generated catch block
+-//			e.printStackTrace();
+-//		}
+-//		assert(false);
+ 		
+ 		Timer t=new Timer();
+ 		t.start();