diff options
| -rw-r--r-- | sci-biology/allpathslg/ChangeLog | 10 | ||||
| -rw-r--r-- | sci-biology/allpathslg/allpathslg-40063.ebuild | 34 | ||||
| -rw-r--r-- | sci-biology/allpathslg/allpathslg-41839.ebuild (renamed from sci-biology/allpathslg/allpathslg-38573.ebuild) | 4 | ||||
| -rw-r--r-- | sci-biology/bedtools/ChangeLog | 8 | ||||
| -rw-r--r-- | sci-biology/bedtools/bedtools-2.13.3.ebuild | 32 | ||||
| -rw-r--r-- | sci-biology/bedtools/bedtools-2.16.2.ebuild (renamed from sci-biology/bedtools/bedtools-2.15.0.ebuild) | 2 |
6 files changed, 18 insertions, 72 deletions
diff --git a/sci-biology/allpathslg/ChangeLog b/sci-biology/allpathslg/ChangeLog index 58b51e9efb48..f1b3747e4344 100644 --- a/sci-biology/allpathslg/ChangeLog +++ b/sci-biology/allpathslg/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/allpathslg -# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/ChangeLog,v 1.6 2011/12/28 03:48:22 weaver Exp $ +# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/ChangeLog,v 1.7 2012/05/29 02:51:11 weaver Exp $ + +*allpathslg-41839 (29 May 2012) + + 29 May 2012; Andrey Kislyuk <weaver@gentoo.org> -allpathslg-38573.ebuild, + -allpathslg-40063.ebuild, +allpathslg-41839.ebuild: + version bump *allpathslg-40063 (28 Dec 2011) diff --git a/sci-biology/allpathslg/allpathslg-40063.ebuild b/sci-biology/allpathslg/allpathslg-40063.ebuild deleted file mode 100644 index b00a62e2451a..000000000000 --- a/sci-biology/allpathslg/allpathslg-40063.ebuild +++ /dev/null @@ -1,34 +0,0 @@ -# Copyright 1999-2011 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/allpathslg-40063.ebuild,v 1.1 2011/12/28 03:48:22 weaver Exp $ - -EAPI=4 - -inherit autotools flag-o-matic - -DESCRIPTION="De novo assembly of whole-genome shotgun microreads" -HOMEPAGE="http://www.broadinstitute.org/science/programs/genome-biology/crd" -SRC_URI="ftp://ftp.broadinstitute.org/pub/crd/ALLPATHS/Release-LG/latest_source_code/${P}.tar.gz" - -LICENSE="as-is" -SLOT="0" -IUSE="" -KEYWORDS="~amd64" - -DEPEND="dev-libs/boost - >=sys-devel/gcc-4.3.3 - sci-biology/vaal" -RDEPEND="" - -src_prepare() { - sed -i 's/-ggdb3//' configure.ac || die - eautoreconf -} - -src_install() { - einstall || die - # Provided by sci-biology/vaal - for i in QueryLookupTable ScaffoldAccuracy MakeLookupTable Fastb ShortQueryLookup; do - rm "${D}/usr/bin/$i" || die - done -} diff --git a/sci-biology/allpathslg/allpathslg-38573.ebuild b/sci-biology/allpathslg/allpathslg-41839.ebuild index a4e17ea399ff..9fb76e4cae4d 100644 --- a/sci-biology/allpathslg/allpathslg-38573.ebuild +++ b/sci-biology/allpathslg/allpathslg-41839.ebuild @@ -1,6 +1,6 @@ -# Copyright 1999-2011 Gentoo Foundation +# Copyright 1999-2012 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/allpathslg-38573.ebuild,v 1.2 2011/09/27 17:40:02 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/allpathslg/allpathslg-41839.ebuild,v 1.1 2012/05/29 02:51:11 weaver Exp $ EAPI=4 diff --git a/sci-biology/bedtools/ChangeLog b/sci-biology/bedtools/ChangeLog index a6c655ef86dd..81fed3087ccb 100644 --- a/sci-biology/bedtools/ChangeLog +++ b/sci-biology/bedtools/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/bedtools # Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bedtools/ChangeLog,v 1.2 2012/01/02 22:13:24 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bedtools/ChangeLog,v 1.3 2012/05/29 02:54:40 weaver Exp $ + +*bedtools-2.16.2 (29 May 2012) + + 29 May 2012; Andrey Kislyuk <weaver@gentoo.org> +bedtools-2.16.2.ebuild, + -bedtools-2.13.3.ebuild, -bedtools-2.15.0.ebuild: + version bump *bedtools-2.15.0 (02 Jan 2012) diff --git a/sci-biology/bedtools/bedtools-2.13.3.ebuild b/sci-biology/bedtools/bedtools-2.13.3.ebuild deleted file mode 100644 index c635c3de7f27..000000000000 --- a/sci-biology/bedtools/bedtools-2.13.3.ebuild +++ /dev/null @@ -1,32 +0,0 @@ -# Copyright 1999-2011 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bedtools/bedtools-2.13.3.ebuild,v 1.1 2011/10/09 04:01:53 weaver Exp $ - -EAPI=4 - -inherit flag-o-matic - -DESCRIPTION="Tools for manipulation and analysis of BED, GFF/GTF, VCF, and SAM/BAM file formats" -HOMEPAGE="http://code.google.com/p/bedtools/" -SRC_URI="http://bedtools.googlecode.com/files/BEDTools.v${PV}.tar.gz" - -LICENSE="GPL-2" -SLOT="0" -KEYWORDS="~x86 ~amd64" -IUSE="" - -S="${WORKDIR}/BEDTools-Version-${PV}" - -src_prepare() { - filter-ldflags -Wl,--as-needed - sed -i -e '1 a SHELL := /bin/bash -e' \ - -e '/export CXXFLAGS/ d' \ - -e '/export CXX/ d' \ - Makefile || die -} - -src_install(){ - dobin bin/* - dodoc README* RELEASE_HISTORY - newbin bin/overlap bt_ovelap -} diff --git a/sci-biology/bedtools/bedtools-2.15.0.ebuild b/sci-biology/bedtools/bedtools-2.16.2.ebuild index 69f825cbe108..73256d6535c4 100644 --- a/sci-biology/bedtools/bedtools-2.15.0.ebuild +++ b/sci-biology/bedtools/bedtools-2.16.2.ebuild @@ -1,6 +1,6 @@ # Copyright 1999-2012 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bedtools/bedtools-2.15.0.ebuild,v 1.1 2012/01/02 22:13:24 weaver Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bedtools/bedtools-2.16.2.ebuild,v 1.1 2012/05/29 02:54:40 weaver Exp $ EAPI=4 |