From ff9d1ad54b45df3371050a72f5f729b4cae97e4e Mon Sep 17 00:00:00 2001 From: azazello Date: Mon, 26 May 2008 15:31:44 +0000 Subject: In gentoo-x86 svn path=/sunrise/; revision=6227 --- sci-biology/mummer/ChangeLog | 15 ---------- sci-biology/mummer/Manifest | 4 --- sci-biology/mummer/metadata.xml | 5 ---- sci-biology/mummer/mummer-3.20.ebuild | 47 ------------------------------ sci-biology/twinscan/twinscan-4.1.2.ebuild | 2 +- 5 files changed, 1 insertion(+), 72 deletions(-) delete mode 100644 sci-biology/mummer/ChangeLog delete mode 100644 sci-biology/mummer/Manifest delete mode 100644 sci-biology/mummer/metadata.xml delete mode 100644 sci-biology/mummer/mummer-3.20.ebuild (limited to 'sci-biology') diff --git a/sci-biology/mummer/ChangeLog b/sci-biology/mummer/ChangeLog deleted file mode 100644 index 31cdc2344..000000000 --- a/sci-biology/mummer/ChangeLog +++ /dev/null @@ -1,15 +0,0 @@ -# ChangeLog for sci-biology/mummer -# Copyright 1999-2008 Gentoo Foundation; Distributed under the GPL v2 -# $Header: $ - - 15 Jan 2008; azazello -mummer-3.19.ebuild, - +mummer-3.20.ebuild: - Version bump - - 08 Mar 2007; AK mummer-3.19.ebuild: - Remove private lib from global PERL5LIB - probably wasn't a good idea - - 07 Mar 2007; AK +mummer-3.19.ebuild, - +metadata.xml: - New package, Bug 169793 - diff --git a/sci-biology/mummer/Manifest b/sci-biology/mummer/Manifest deleted file mode 100644 index 5085f2d26..000000000 --- a/sci-biology/mummer/Manifest +++ /dev/null @@ -1,4 +0,0 @@ -DIST MUMmer3.20.tar.gz 3155446 RMD160 7e5fefef359c6a6ee49f2ebf14dc18caa19f48fb SHA1 68d6742de93d8524236ccf538f32ba8bb4edf7cc SHA256 9c7880b4ce25ef3c6bed9ccdc26f1c4d7e74eb0ef1ce403907790c0f96c0f260 -EBUILD mummer-3.20.ebuild 1426 RMD160 d9ef2d9c25980d129da4af0b587f2e2f1b5d9729 SHA1 8054cae10463ed1befd1930cbde8d0e2dcfd8560 SHA256 e3ede464e2140d96b0b96c179305446d91e3cf1744671483e408ff5805662e73 -MISC ChangeLog 469 RMD160 1510c88c79c6949e72467f5f8d32849cb18398e4 SHA1 8f7206c2cf24ea91a2cccd3ac6642044e92592ee SHA256 263fecf44420a6b2d9ecac1d3e55bc856926d18d49689fb7fa31e60bb5b7b87d -MISC metadata.xml 170 RMD160 645927a396fdc21cdeb089fe42c5397332420ea6 SHA1 ac7f48a14fec325926f9ce1be8fbf1f311b4f2e4 SHA256 d797a2ec6f9dc516c9f9c1a758ee87ad3e8c43101b5dc76c2f872d5bd4639b42 diff --git a/sci-biology/mummer/metadata.xml b/sci-biology/mummer/metadata.xml deleted file mode 100644 index 7e3286984..000000000 --- a/sci-biology/mummer/metadata.xml +++ /dev/null @@ -1,5 +0,0 @@ - - - -maintainer-wanted - diff --git a/sci-biology/mummer/mummer-3.20.ebuild b/sci-biology/mummer/mummer-3.20.ebuild deleted file mode 100644 index dd9292a62..000000000 --- a/sci-biology/mummer/mummer-3.20.ebuild +++ /dev/null @@ -1,47 +0,0 @@ -# Copyright 1999-2008 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Header: $ - -MY_P="MUMmer${PV}" -DESCRIPTION="A rapid whole genome aligner" -HOMEPAGE="http://mummer.sourceforge.net/" -SRC_URI="mirror://sourceforge/mummer/${MY_P}.tar.gz" - -LICENSE="Artistic" -SLOT="0" -IUSE="doc" -KEYWORDS="~x86" - -DEPEND="" -RDEPEND="" - -S=${WORKDIR}/${MY_P} - -src_compile() { - emake || die "emake failed" - - sed -i -e 's|\($AUX_BIN_DIR = "\).*"|\1/usr/bin"|' \ - -e 's|\($BIN_DIR = "\).*"|\1/usr/bin"|' \ - -e 's|\($SCRIPT_DIR = "\).*"|\1/usr/share/'${PN}'/lib"|' \ - -e 's|\(set bindir = \).*|\1/usr/bin|' \ - -e 's|\(set scriptdir = \).*|\1/usr/share/'${PN}'/scripts|' \ - -e 's|\(use lib "\).*"|\1/usr/share/'${PN}'/lib"|' \ - scripts/* exact-tandems mapview mummerplot nucmer promer run-mummer{1,3} || die "Failed to replace paths" - sed -i 's|$bindir/annotate|$bindir/mummer-annotate|' run-mummer1 scripts/run-mummer1.csh -} - -src_install() { - dobin nucmer2xfig show-coords mapview show-snps run-mummer{1,3} \ - exact-tandems promer repeat-match show-aligns gaps mummer \ - show-tiling mgaps nucmer mummerplot delta-filter combineMUMs aux_bin/* - newbin annotate mummer-annotate - - insinto /usr/share/${PN}/scripts - doins scripts/{*.awk,*.csh,*.pl} - insinto /usr/share/${PN}/lib - doins scripts/Foundation.pm - - dodoc ACKNOWLEDGEMENTS ChangeLog README - insinto /usr/share/doc/${PF} - use doc && doins -r docs -} diff --git a/sci-biology/twinscan/twinscan-4.1.2.ebuild b/sci-biology/twinscan/twinscan-4.1.2.ebuild index 4d48fe293..7a1e3f1ca 100644 --- a/sci-biology/twinscan/twinscan-4.1.2.ebuild +++ b/sci-biology/twinscan/twinscan-4.1.2.ebuild @@ -2,7 +2,7 @@ # Distributed under the terms of the GNU General Public License v2 # $Header: $ -DESCRIPTION="A gene structure prediction pipeline" +DESCRIPTION="TwinScan, N-SCAN, and Pairagon: A gene structure prediction pipeline" LICENSE="as-is" HOMEPAGE="http://mblab.wustl.edu/software/twinscan" SLOT="0" -- cgit v1.2.3