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

["Justin Lecher" <jlec@gentoo.org>]

commit:     8ebd98c00dd68c1b4ff0aaeb4cadfc1980753655
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Wed Dec 23 16:34:43 2015 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Dec 23 18:55:56 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8ebd98c0

sci-biology/allpathslg: Drop old

Package-Manager: portage-2.2.26
Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>

 sci-biology/allpathslg/Manifest                |  2 -
 sci-biology/allpathslg/allpathslg-47093.ebuild | 36 -----------------
 sci-biology/allpathslg/allpathslg-52415.ebuild | 54 --------------------------
 3 files changed, 92 deletions(-)

diff --git a/sci-biology/allpathslg/Manifest b/sci-biology/allpathslg/Manifest
index 8db6db4..cd18242 100644
--- a/sci-biology/allpathslg/Manifest
+++ b/sci-biology/allpathslg/Manifest
@@ -1,4 +1,2 @@
 DIST allpathslg-42337.tar.gz 2739498 SHA256 a2c8f64f6ba1705b2331ca07761d189183c6745f8717ffc67ee98e9e3ca3dba6 SHA512 7595fbe14a5029578b57d16f781cbb2a0f0ad6b1af2dd770e2274f8fe2e11d0013fdff12cc85c1be748e769ffb23b7d5fe30920feef38e0e8b947d05b8bda31c WHIRLPOOL 79bda55d49877641eb55630950472a06d8f25db467dbfecde8b4d04c3ce16c071d32dd312fa9a0f72723bf4caa8f9b1d0346acf438b9671b4bed2c0672c788b9
-DIST allpathslg-47093.tar.gz 3057279 SHA256 493e21ae727250ea632b73b61545c32de2d8fb31e6a92605393ebb4af251f828 SHA512 499d23de52cad666fac663eb4a7d770b2129c4f9622f6c808ce30283429b6f67fb343f8712b07c7cb062c429117a0855da960ffc1d2ffb4e7ec2f544ba5a6314 WHIRLPOOL a3bc58dc140be3cddbd44c7035e628c4425bf86bc38592004df21d4dc91958ced9f08d667b43c15c214e53e3098805f368a856e66e5c2049b0e03d043b098ebc
-DIST allpathslg-52415.tar.gz 3129266 SHA256 3c62024a0eacdc223bc727be4718da644fb302f785c7c7347a09ff422ce96362 SHA512 afe25b07d2e07dee3ced2283ffe858f24acfb35d53e9c11fcbcc47373594453d798c344d5604eb24d5c8d3685a185a3b8807bb3547d8066cbaab8d8cf927d1d6 WHIRLPOOL de15dfeddeca2f64fd8780839c45096c28cb47ec219d781f6754f9cf65ad6dfc39b8a48aaa2c36f777282fb08ac78ef8cd04c2e1d79f4f797710d3bb38792785
 DIST allpathslg-52488.tar.gz 3121949 SHA256 035b49cb21b871a6b111976757d7aee9c2513dd51af04678f33375e620998542 SHA512 c44ef1a3ed5b343bf096663309cc399e79d65e83175232743cf330fd0d426633bd0d388922fd0c73ac0927d85ea9005549c8e4f7711c79fea7107068510ef30d WHIRLPOOL c63a13450c55fce8f2c5399bdd5d8f32939e31d9d13a120835b1d826ae96e251fea81caa134d5d45ad857af0777c22e4ad1d894c81a74db6d83a7d9ad83b12b4

diff --git a/sci-biology/allpathslg/allpathslg-47093.ebuild b/sci-biology/allpathslg/allpathslg-47093.ebuild
deleted file mode 100644
index ab971ec..0000000
--- a/sci-biology/allpathslg/allpathslg-47093.ebuild
+++ /dev/null
@@ -1,36 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-inherit autotools eutils 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/${P}.tar.gz"
-
-LICENSE="MIT"
-SLOT="0"
-IUSE=""
-KEYWORDS="~amd64 -x86"
-
-DEPEND="
-	dev-libs/boost
-	!sci-biology/allpaths
-	sci-biology/vaal"
-RDEPEND=""
-
-src_prepare() {
-	epatch "${FILESDIR}"/${P}-gcc4.9.patch
-	sed -i 's/-ggdb//' configure.ac || die
-	eautoreconf
-}
-
-src_install() {
-	default
-	# Provided by sci-biology/vaal
-	for i in QueryLookupTable ScaffoldAccuracy MakeLookupTable Fastb ShortQueryLookup; do
-		rm "${ED}/usr/bin/$i" || die
-	done
-}

diff --git a/sci-biology/allpathslg/allpathslg-52415.ebuild b/sci-biology/allpathslg/allpathslg-52415.ebuild
deleted file mode 100644
index 29de20e..0000000
--- a/sci-biology/allpathslg/allpathslg-52415.ebuild
+++ /dev/null
@@ -1,54 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-AUTOTOOLS_AUTORECONF=true
-
-inherit autotools-utils flag-o-matic
-
-DESCRIPTION="De novo assembly of whole-genome shotgun microreads"
-# see also http://www.broadinstitute.org/software/allpaths-lg/blog/?page_id=12
-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="MIT"
-SLOT="0"
-KEYWORDS="~amd64"
-IUSE="openmp"
-
-DEPEND="
-	dev-libs/boost
-	!sci-biology/allpaths
-	sci-biology/vaal"
-RDEPEND=""
-
-pkg_pretend() {
-	# as of release 44849, GCC 4.7.0 (or higher) is required
-	# seems pre gcc-4.7 users must stay with:
-	# ftp://ftp.broadinstitute.org/pub/crd/ALLPATHS/Release-LG/latest_source_code/2013/2013-01/allpathslg-44837.tar.gz
-	if [[ ${MERGE_TYPE} != binary ]]; then
-		[[ $(tc-getCC) == *gcc* ]] && [[ $(gcc-version) < 4.7 ]] && \
-		die "You need to use gcc >4.7"
-	fi
-}
-
-src_prepare() {
-	local i
-	sed \
-		-e 's/-ggdb//' \
-		-e 's:CEHCK:CHECK:g' \
-		-i configure.ac || die
-	for i in QueryLookupTable ScaffoldAccuracy MakeLookupTable Fastb ShortQueryLookup; do
-		sed -e "/bin_PROGRAMS/s: ${i} : :g" -i src/Makefile.am || die
-	done
-	autotools-utils_src_prepare
-}
-
-src_configure() {
-	local myeconfargs=(
-		$(use_enable openmp)
-	)
-	autotools-utils_src_configure
-}