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62 lines
1.3 KiB
62 lines
1.3 KiB
# Copyright 1999-2024 Gentoo Authors
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# Distributed under the terms of the GNU General Public License v2
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EAPI=8
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inherit autotools flag-o-matic toolchain-funcs
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DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
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HOMEPAGE="https://www.bcgsc.ca/resources/software/abyss/"
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SRC_URI="https://github.com/bcgsc/abyss/archive/${PV}.tar.gz -> ${P}.tar.gz"
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LICENSE="GPL-3"
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SLOT="0"
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IUSE="openmp misc-haskell"
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KEYWORDS="~amd64 ~x86"
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RDEPEND="
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dev-cpp/sparsehash
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dev-libs/boost:=
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misc-haskell? (
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dev-libs/gmp:0=
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dev-libs/libffi:0=
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)
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sys-cluster/openmpi
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dev-db/sqlite:3
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"
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DEPEND="${RDEPEND}
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misc-haskell? (
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dev-lang/ghc
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)
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"
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# todo: --enable-maxk=N configure option
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# todo: also allow build with mpich (--enable-mpich)
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pkg_pretend() {
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[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
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}
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pkg_setup() {
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[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
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}
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src_prepare() {
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default
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sed -i -e "s/-Werror//" configure.ac || die #365195
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eautoreconf
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}
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src_configure() {
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# -Werror=lto-type-mismatch
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# https://bugs.gentoo.org/862252
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# https://github.com/bcgsc/abyss/issues/474
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filter-lto
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# disable building haskell tool Misc/samtobreak
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# unless request by user: bug #534412
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use misc-haskell || export ac_cv_prog_ac_ct_GHC=
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econf $(use_enable openmp) --enable-maxk=256
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}
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