sci-biology/abyss: moved to main tree

1 files changed, 0 insertions, 59 deletions

diff --git a/sci-biology/abyss/abyss-1.3.6-r1.ebuild b/sci-biology/abyss/abyss-1.3.6-r1.ebuild
deleted file mode 100644
index a449c72dc..000000000
--- a/sci-biology/abyss/abyss-1.3.6-r1.ebuild
+++ /dev/null
@@ -1,59 +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
-
-DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
-HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
-SRC_URI="http://www.bcgsc.ca/downloads/abyss/${P}.tar.gz"
-
-LICENSE="abyss"
-SLOT="0"
-IUSE="+mpi openmp misc-haskell"
-KEYWORDS="~amd64 ~x86"
-
-RDEPEND="
-	dev-cpp/sparsehash
-	dev-libs/boost
-	misc-haskell? ( dev-libs/gmp:0=
-			virtual/libffi:0=
-	)
-	mpi? ( virtual/mpi )
-"
-DEPEND="${RDEPEND}
-	misc-haskell? ( dev-lang/ghc
-			dev-haskell/mmap )
-"
-
-# todo: --enable-maxk=N configure option
-# todo: fix automagic mpi toggling
-
-PATCHES=(
-	"${FILESDIR}"/${P}-gcc-4.7.patch
-	"${FILESDIR}"/${P}-ac_prog_ar.patch
-	"${FILESDIR}"/${P}-samtoafg.patch
-	)
-
-src_prepare() {
-	tc-export AR
-	sed -i -e "s/-Werror//" configure.ac || die #365195
-	sed -i -e "/dist_pkgdoc_DATA/d" Makefile.am || die
-	autotools-utils_src_prepare
-}
-
-src_configure() {
-	# disable building haskell tool Misc/samtobreak
-	# unless request by user: bug #534412
-	use misc-haskell || export ac_cv_prog_ac_ct_GHC=
-
-	local myeconfargs=(
-		--docdir="${EPREFIX}/usr/share/doc/${PF}"
-		$(use_enable openmp)
-	)
-	autotools-utils_src_configure
-}