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55 lines
1.4 KiB
55 lines
1.4 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 flag-o-matic toolchain-funcs
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DESCRIPTION="A suite of algorithms for ecological bioinformatics"
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HOMEPAGE="https://mothur.org/"
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SRC_URI="https://github.com/mothur/mothur/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz"
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LICENSE="GPL-3"
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SLOT="0"
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KEYWORDS="~amd64 ~x86"
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IUSE="boost gsl hdf5 mpi +readline"
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RDEPEND="
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sci-biology/uchime
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boost? ( dev-libs/boost:=[zlib] )
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gsl? ( sci-libs/gsl:= )
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hdf5? ( sci-libs/hdf5:=[cxx] )
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mpi? ( virtual/mpi )
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"
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DEPEND="${RDEPEND}"
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PATCHES=(
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"${FILESDIR}"/${PN}-1.48.0-build.patch
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)
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src_configure() {
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use mpi && export CXX=mpicxx || tc-export CXX
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use amd64 && append-cppflags -DBIT_VERSION
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}
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src_compile() {
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# bug #862273
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append-flags -fno-strict-aliasing
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filter-lto
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# USEBOOST - link with boost libraries. Must install boost. Allows the make.contigs command to read .gz files.
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# USEHDF5 - link with HDF5cpp libraries. Must install HDF5. Allows the biom.info command to read Biom format 2.0.
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# USEGSL - link with GNU Scientific libraries. Must install GSL. Allows the estimiator.single command to find diversity estimates.
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emake \
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USEBOOST=$(usex boost) \
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USEHDF5=$(usex hdf5) \
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USEGSL=$(usex gsl) \
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USEMPI=$(usex mpi) \
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USEREADLINE=$(usex readline) \
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OPTIMIZE=no
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}
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src_install() {
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dobin mothur
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}
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