[gentoo-commits] repo/gentoo:master commit in: sci-biology/wgs-assembler/

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From: "Pacho Ramos" <pacho@gentoo.org>
To: gentoo-commits@lists.gentoo.org
Subject: [gentoo-commits] repo/gentoo:master commit in: sci-biology/wgs-assembler/
Date: Sun, 15 Jan 2017 11:20:42 +0000 (UTC)	[thread overview]
Message-ID: <1484479185.0dd4dd41f0e3417a4a934bbb248eaf4af6348c4b.pacho@gentoo> (raw)

commit:     0dd4dd41f0e3417a4a934bbb248eaf4af6348c4b
Author:     Pacho Ramos <pacho <AT> gentoo <DOT> org>
AuthorDate: Sun Jan 15 11:00:17 2017 +0000
Commit:     Pacho Ramos <pacho <AT> gentoo <DOT> org>
CommitDate: Sun Jan 15 11:19:45 2017 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=0dd4dd41

sci-biology/wgs-assembler: Drop old

Package-Manager: Portage-2.3.3, Repoman-2.3.1

 sci-biology/wgs-assembler/Manifest                 |  2 -
 sci-biology/wgs-assembler/wgs-assembler-5.4.ebuild | 70 ----------------------
 sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild | 70 ----------------------
 sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild | 70 ----------------------
 4 files changed, 212 deletions(-)

diff --git a/sci-biology/wgs-assembler/Manifest b/sci-biology/wgs-assembler/Manifest
index e71b6d8..dc9eb4b 100644
--- a/sci-biology/wgs-assembler/Manifest
+++ b/sci-biology/wgs-assembler/Manifest
@@ -1,3 +1 @@
-DIST wgs-5.4.tar.bz2 1876180 SHA256 698b22bd63fa2bb4fe7f164a92c92f82474bc8fc64c37704258ebb3bdc86d7bf SHA512 f0a01453d8fe80e991d3dae530d9cc2d061e3abe8ca1363985ffd91dee86dc65aef56fc31d0cfefc80b97b23377a3786dd54f2f5bf80137e08ba95636f40d538 WHIRLPOOL 9babb299f5820fdf7891f8ea603a8017e1a09df342198ac4d796ed6a9c22721bcb588bcbc46833121ab6fd0b44f5adb0156f66571ca9783c31ab0389b2c34c68
-DIST wgs-6.1.tar.bz2 1900084 SHA256 e00c1b64e857ea01f7e9a9f115dd91e290a380ccda217dd6a386f57754a3cff8 SHA512 3a9cfff43967bf28f557c71b387b3ca8fd56dcdaf15fa0cd1d4b845b7b4d006e8f2692b2097d281925d59bbc41eaac1c789b6993877cffd0e233a5a9050af83c WHIRLPOOL 88e9a3f85ddee01a8a17e989248857bb6483fbde59ce211986f64d8729e82174b6fc04b2f771eb1fc131706a6adb9710c75fb90be3923db8bce6387764e3fa03
 DIST wgs-7.0.tar.bz2 1952253 SHA256 fee425cf2ec6aec6e98d580cc7e43b53eb37abd7ca14e3edc1f953d2c09b3a6c SHA512 e5ef1d4533e3dd17d13c6aca9631f5300768a258f8241f3f7f90de3785bf7a340b6896febe335682c282434c9983bc4a02fe2128a5b0e7ec415dd65e0fe400ba WHIRLPOOL a158b882e51e8ff80fa4e6bcbe4322125fce65fc64900407882a728de9465b778f59cc6d543142ca65a255295e66e89e5303774eeef7a66362c5f492ae99a92b

diff --git a/sci-biology/wgs-assembler/wgs-assembler-5.4.ebuild b/sci-biology/wgs-assembler/wgs-assembler-5.4.ebuild
deleted file mode 100644
index e0ed230..00000000
--- a/sci-biology/wgs-assembler/wgs-assembler-5.4.ebuild
+++ /dev/null
@@ -1,70 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI="2"
-
-inherit eutils multilib toolchain-funcs
-
-DESCRIPTION="A de novo whole-genome shotgun DNA sequence assembler, also known as the Celera Assembler and CABOG"
-HOMEPAGE="https://sourceforge.net/projects/wgs-assembler/"
-SRC_URI="mirror://sourceforge/${PN}/wgs-${PV}.tar.bz2"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="amd64 x86"
-
-DEPEND="x11-libs/libXt
-	!x11-terms/terminator"
-RDEPEND="${DEPEND}
-	app-shells/tcsh
-	dev-perl/Log-Log4perl"
-
-S="${WORKDIR}/wgs-${PV}"
-
-src_configure() {
-	sed -i -e "s/CC *= *gcc/CC = $(tc-getCC)/" \
-		-e "s/CXX *= *g++/CXX = $(tc-getCXX)/" \
-		"${S}"/src/c_make.as || die
-	sed -i -e "s/CC *:=.*/CC := $(tc-getCC)/" \
-		-e "s/CXX *:=.*/CXX := $(tc-getCXX)/" \
-		"${S}"/kmer/configure.sh || die
-	cd "${S}/kmer"
-	./configure.sh || die
-}
-
-src_compile() {
-	# not really an install target
-	emake -C kmer -j1 install || die
-	emake -C src -j1 SITE_NAME=LOCAL || die
-}
-
-src_install() {
-	OSTYPE=$(uname)
-	MACHTYPE=$(uname -m)
-	MACHTYPE=${MACHTYPE/x86_64/amd64}
-	MY_S="${OSTYPE}-${MACHTYPE}"
-	sed -i 's|#!/usr/local/bin/|#!/usr/bin/env |' $(find $MY_S -type f) || die
-
-	sed -i '/sub getBinDirectory ()/ a return "/usr/bin";' ${MY_S}/bin/runCA* || die
-	sed -i '/sub getBinDirectoryShellCode ()/ a return "bin=/usr/bin\n";' ${MY_S}/bin/runCA* || die
-	sed -i '1 a use lib "/usr/share/'${PN}'/lib";' $(find $MY_S -name '*.p*') || die
-
-	dobin kmer/${MY_S}/bin/* || die
-	insinto /usr/$(get_libdir)/${PN}
-	doins kmer/${MY_S}/lib/* || die
-	# Collisions
-	# dolib.a kmer/${MY_S}/lib/* || die
-	insinto /usr/include/${PN}
-	doins kmer/${MY_S}/include/*
-
-	insinto /usr/share/${PN}
-	doins -r ${MY_S}/bin/spec
-	insinto /usr/share/${PN}/lib
-	doins -r ${MY_S}/bin/TIGR || die
-	rm -rf ${MY_S}/bin/{TIGR,spec}
-	dobin ${MY_S}/bin/* || die
-	dolib.a ${MY_S}/lib/* || die
-	dodoc README
-}

diff --git a/sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild b/sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild
deleted file mode 100644
index 0bdd8fc..00000000
--- a/sci-biology/wgs-assembler/wgs-assembler-6.1.ebuild
+++ /dev/null
@@ -1,70 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI="2"
-
-inherit eutils multilib toolchain-funcs
-
-DESCRIPTION="A de novo whole-genome shotgun DNA sequence assembler, also known as the Celera Assembler and CABOG"
-HOMEPAGE="https://sourceforge.net/projects/wgs-assembler/"
-SRC_URI="mirror://sourceforge/${PN}/wgs-${PV}.tar.bz2"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 x86"
-
-DEPEND="x11-libs/libXt
-	!x11-terms/terminator"
-RDEPEND="${DEPEND}
-	app-shells/tcsh
-	dev-perl/Log-Log4perl"
-
-S="${WORKDIR}/wgs-${PV}"
-
-src_configure() {
-	sed -i -e "s/CC *= *gcc/CC = $(tc-getCC)/" \
-		-e "s/CXX *= *g++/CXX = $(tc-getCXX)/" \
-		"${S}"/src/c_make.as || die
-	sed -i -e "s/CC *:=.*/CC := $(tc-getCC)/" \
-		-e "s/CXX *:=.*/CXX := $(tc-getCXX)/" \
-		"${S}"/kmer/configure.sh || die
-	cd "${S}/kmer"
-	./configure.sh || die
-}
-
-src_compile() {
-	# not really an install target
-	emake -C kmer -j1 install || die
-	emake -C src -j1 SITE_NAME=LOCAL || die
-}
-
-src_install() {
-	OSTYPE=$(uname)
-	MACHTYPE=$(uname -m)
-	MACHTYPE=${MACHTYPE/x86_64/amd64}
-	MY_S="${OSTYPE}-${MACHTYPE}"
-	sed -i 's|#!/usr/local/bin/|#!/usr/bin/env |' $(find $MY_S -type f) || die
-
-	sed -i '/sub getBinDirectory ()/ a return "/usr/bin";' ${MY_S}/bin/runCA* || die
-	sed -i '/sub getBinDirectoryShellCode ()/ a return "bin=/usr/bin\n";' ${MY_S}/bin/runCA* || die
-	sed -i '1 a use lib "/usr/share/'${PN}'/lib";' $(find $MY_S -name '*.p*') || die
-
-	dobin kmer/${MY_S}/bin/* || die
-	insinto /usr/$(get_libdir)/${PN}
-	doins kmer/${MY_S}/lib/* || die
-	# Collisions
-	# dolib.a kmer/${MY_S}/lib/* || die
-	insinto /usr/include/${PN}
-	doins kmer/${MY_S}/include/*
-
-	insinto /usr/share/${PN}
-	doins -r ${MY_S}/bin/spec
-	insinto /usr/share/${PN}/lib
-	doins -r ${MY_S}/bin/TIGR || die
-	rm -rf ${MY_S}/bin/{TIGR,spec}
-	dobin ${MY_S}/bin/* || die
-	dolib.a ${MY_S}/lib/* || die
-	dodoc README
-}

diff --git a/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild b/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild
deleted file mode 100644
index f368043..00000000
--- a/sci-biology/wgs-assembler/wgs-assembler-7.0.ebuild
+++ /dev/null
@@ -1,70 +0,0 @@
-# Copyright 1999-2012 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI="2"
-
-inherit eutils multilib toolchain-funcs
-
-DESCRIPTION="A de novo whole-genome shotgun DNA sequence assembler, also known as the Celera Assembler and CABOG"
-HOMEPAGE="https://sourceforge.net/projects/wgs-assembler/"
-SRC_URI="mirror://sourceforge/${PN}/wgs-${PV}.tar.bz2"
-
-LICENSE="GPL-2"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 ~x86"
-
-DEPEND="x11-libs/libXt
-	!x11-terms/terminator"
-RDEPEND="${DEPEND}
-	app-shells/tcsh
-	dev-perl/Log-Log4perl"
-
-S="${WORKDIR}/wgs-${PV}"
-
-src_configure() {
-	sed -i -e "s/CC *= *gcc/CC = $(tc-getCC)/" \
-		-e "s/CXX *= *g++/CXX = $(tc-getCXX)/" \
-		"${S}"/src/c_make.as || die
-	sed -i -e "s/CC *:=.*/CC := $(tc-getCC)/" \
-		-e "s/CXX *:=.*/CXX := $(tc-getCXX)/" \
-		"${S}"/kmer/configure.sh || die
-	cd "${S}/kmer"
-	./configure.sh || die
-}
-
-src_compile() {
-	# not really an install target
-	emake -C kmer -j1 install || die
-	emake -C src -j1 SITE_NAME=LOCAL || die
-}
-
-src_install() {
-	OSTYPE=$(uname)
-	MACHTYPE=$(uname -m)
-	MACHTYPE=${MACHTYPE/x86_64/amd64}
-	MY_S="${OSTYPE}-${MACHTYPE}"
-	sed -i 's|#!/usr/local/bin/|#!/usr/bin/env |' $(find $MY_S -type f) || die
-
-	sed -i '/sub getBinDirectory ()/ a return "/usr/bin";' ${MY_S}/bin/runCA* || die
-	sed -i '/sub getBinDirectoryShellCode ()/ a return "bin=/usr/bin\n";' ${MY_S}/bin/runCA* || die
-	sed -i '1 a use lib "/usr/share/'${PN}'/lib";' $(find $MY_S -name '*.p*') || die
-
-	dobin kmer/${MY_S}/bin/* || die
-	insinto /usr/$(get_libdir)/${PN}
-	doins kmer/${MY_S}/lib/* || die
-	# Collisions
-	# dolib.a kmer/${MY_S}/lib/* || die
-	insinto /usr/include/${PN}
-	doins kmer/${MY_S}/include/*
-
-	insinto /usr/share/${PN}
-	doins -r ${MY_S}/bin/spec
-	insinto /usr/share/${PN}/lib
-	doins -r ${MY_S}/bin/TIGR || die
-	rm -rf ${MY_S}/bin/{TIGR,spec}
-	dobin ${MY_S}/bin/* || die
-	dolib.a ${MY_S}/lib/* || die
-	dodoc README
-}

next             reply	other threads:[~2017-01-15 11:20 UTC|newest]

Thread overview: 6+ messages / expand[flat|nested]  mbox.gz  Atom feed  top
2017-01-15 11:20 Pacho Ramos [this message]
  -- strict thread matches above, loose matches on Subject: below --
2017-02-06 21:27 [gentoo-commits] repo/gentoo:master commit in: sci-biology/wgs-assembler/ David Seifert
2017-02-20 15:51 Michał Górny
2018-05-07  0:24 Thomas Deutschmann
2018-05-08  7:11 Agostino Sarubbo
2018-05-21 17:05 Aaron Bauman

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