[gentoo-commits] gentoo-x86 commit in sci-biology/tophat: tophat-2.0.8.ebuild ChangeLog

[gentoo-commits] gentoo-x86 commit in sci-biology/tophat: tophat-2.0.8.ebuild ChangeLog

[Justin Lecher (jlec)]

jlec        13/03/13 16:33:37

  Modified:             ChangeLog
  Added:                tophat-2.0.8.ebuild
  Log:
  sci-biology/tophat: Version Bump; unbundle sci-biology/seqan
  
  (Portage version: 2.2.0_alpha166/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)

Revision  Changes    Path
1.11                 sci-biology/tophat/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/ChangeLog?rev=1.11&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/ChangeLog?rev=1.11&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/ChangeLog?r1=1.10&r2=1.11

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v
retrieving revision 1.10
retrieving revision 1.11
diff -u -r1.10 -r1.11
--- ChangeLog	12 Mar 2013 12:10:06 -0000	1.10
+++ ChangeLog	13 Mar 2013 16:33:37 -0000	1.11
@@ -1,6 +1,12 @@
 # ChangeLog for sci-biology/tophat
 # Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v 1.10 2013/03/12 12:10:06 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v 1.11 2013/03/13 16:33:37 jlec Exp $
+
+*tophat-2.0.8 (13 Mar 2013)
+
+  13 Mar 2013; Justin Lecher <jlec@gentoo.org> +tophat-2.0.8.ebuild,
+  +files/tophat-2.0.8-flags.patch:
+  Version Bump; unbundle sci-biology/seqan
 
   12 Mar 2013; Justin Lecher <jlec@gentoo.org> metadata.xml:
   Drop Andrey as maintainer so that bugs get assigned to sci-biology directly



1.1                  sci-biology/tophat/tophat-2.0.8.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/tophat-2.0.8.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/tophat/tophat-2.0.8.ebuild?rev=1.1&content-type=text/plain

Index: tophat-2.0.8.ebuild
===================================================================
# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/tophat-2.0.8.ebuild,v 1.1 2013/03/13 16:33:37 jlec Exp $

EAPI=5

AUTOTOOLS_AUTORECONF=yes

inherit autotools-utils

DESCRIPTION="A fast splice junction mapper for RNA-Seq reads"
HOMEPAGE="http://tophat.cbcb.umd.edu/"
SRC_URI="http://tophat.cbcb.umd.edu/downloads/${P}.tar.gz"

LICENSE="Artistic"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="debug"

DEPEND="
	dev-libs/boost
	sci-biology/samtools
	sci-biology/seqan"
RDEPEND="${DEPEND}
	sci-biology/bowtie"

PATCHES=( "${FILESDIR}"/${P}-flags.patch )

src_prepare() {
	rm -rf src/SeqAn* || die
	autotools-utils_src_prepare
}

src_configure() {
	local myeconfargs=(
		--disable-optim
		$(use_enable debug)
	)
	autotools-utils_src_configure
}