In gentoo-x86

svn path=/sunrise/; revision=6227

diff --git a/sci-biology/mummer/ChangeLog b/sci-biology/mummer/ChangeLog
deleted file mode 100644 (file)
index 31cdc23..0000000
--- 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 <gentoo@horizon.ath.cx> -mummer-3.19.ebuild,
-  +mummer-3.20.ebuild:
-  Version bump
-
-  08 Mar 2007; AK <gentoo@horizon.ath.cx> mummer-3.19.ebuild:
-  Remove private lib from global PERL5LIB - probably wasn't a good idea
-
-  07 Mar 2007; AK <gentoo@horizon.ath.cx> +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 (file)
index 5085f2d..0000000
--- 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 (file)
index 7e32869..0000000
--- a/sci-biology/mummer/metadata.xml
+++ /dev/null
@@ -1,5 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-<herd>maintainer-wanted</herd>
-</pkgmetadata>

diff --git a/sci-biology/mummer/mummer-3.20.ebuild b/sci-biology/mummer/mummer-3.20.ebuild
deleted file mode 100644 (file)
index dd9292a..0000000
--- 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 4d48fe2931a801e881acea91f2823639498a88d7..7a1e3f1ca554a5791cdcc52c428a18ee4c6d2d82 100644 (file)
--- 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"