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| author |   Andrey Kislyuk <weaver@gentoo.org> | 2011-09-26 15:33:22 +0000 |
|---|---|---|
| committer | Andrey Kislyuk <weaver@gentoo.org> | 2011-09-26 15:33:22 +0000 |
| commit | f3c9ce1a75a8d1ebbb23eae82ecd3315453d78cd (patch) | |
| tree | 005bff5181400f36e3f4cf0cdbfe868f32014b35 /sci-biology/tophat | |
| parent | Version bump to 1.8_rc1, fixes #381117 and #384431 (diff) | |
| download | gentoo-2-f3c9ce1a75a8d1ebbb23eae82ecd3315453d78cd.tar.gz gentoo-2-f3c9ce1a75a8d1ebbb23eae82ecd3315453d78cd.tar.bz2 gentoo-2-f3c9ce1a75a8d1ebbb23eae82ecd3315453d78cd.zip | |
Version bump
(Portage version: 2.2.0_alpha45/cvs/Linux x86_64)
Diffstat (limited to 'sci-biology/tophat')
| -rw-r--r-- | sci-biology/tophat/ChangeLog | 9 | ||||
| -rw-r--r-- | sci-biology/tophat/metadata.xml | 3 | ||||
| -rw-r--r-- | sci-biology/tophat/tophat-1.3.2.ebuild | 30 |
3 files changed, 40 insertions, 2 deletions
diff --git a/sci-biology/tophat/ChangeLog b/sci-biology/tophat/ChangeLog index 8eca0dac623a..b6637cee9485 100644 --- a/sci-biology/tophat/ChangeLog +++ b/sci-biology/tophat/ChangeLog @@ -1,6 +1,11 @@ # ChangeLog for sci-biology/tophat -# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v 1.4 2010/04/05 12:08:12 phajdan.jr Exp $ +# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/ChangeLog,v 1.5 2011/09/26 15:33:22 weaver Exp $ + +*tophat-1.3.2 (26 Sep 2011) + + 26 Sep 2011; Andrey Kislyuk <weaver@gentoo.org> +tophat-1.3.2.ebuild: + Version bump 05 Apr 2010; Pawel Hajdan jr <phajdan.jr@gentoo.org> tophat-1.0.12.ebuild: x86 stable wrt bug #311829 diff --git a/sci-biology/tophat/metadata.xml b/sci-biology/tophat/metadata.xml index 3302123e5718..6631e9455420 100644 --- a/sci-biology/tophat/metadata.xml +++ b/sci-biology/tophat/metadata.xml @@ -6,4 +6,7 @@ <name>Andrey Kislyuk</name> </maintainer> <herd>sci-biology</herd> + <use> + <flag name='bam'>Compile support for the BAM format</flag> + </use> </pkgmetadata> diff --git a/sci-biology/tophat/tophat-1.3.2.ebuild b/sci-biology/tophat/tophat-1.3.2.ebuild new file mode 100644 index 000000000000..ad53ba9f2233 --- /dev/null +++ b/sci-biology/tophat/tophat-1.3.2.ebuild @@ -0,0 +1,30 @@ +# Copyright 1999-2011 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/tophat/tophat-1.3.2.ebuild,v 1.1 2011/09/26 15:33:22 weaver Exp $ + +EAPI=4 + +DESCRIPTION="A fast splice junction mapper for RNA-Seq reads" +HOMEPAGE="http://tophat.cbcb.umd.edu/" +SRC_URI="http://tophat.cbcb.umd.edu/downloads/${P}.tar.gz" + +LICENSE="Artistic" +SLOT="0" +IUSE="+bam" +KEYWORDS="~amd64 ~x86" + +DEPEND="bam? ( sci-biology/samtools )" +RDEPEND="${DEPEND} + sci-biology/bowtie" + +MAKEOPTS="${MAKEOPTS} -j1" + +src_configure() { + econf \ + $(use_with bam) || die +} + +src_install() { + einstall || die + dodoc AUTHORS NEWS THANKS +} |