Diff augustus-2.5.5 with a augustus-3.4.0-r3
| /usr/portage/sci-biology/augustus/augustus-3.4.0-r3.ebuild 2023-10-09 14:52:34.996368489 +0300 | ||
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# Copyright 1999-2023 Gentoo Authors |
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# Distributed under the terms of the GNU General Public License v2 |
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EAPI=7 |
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EAPI=8 |
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inherit toolchain-funcs |
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DOCS_BUILDER="doxygen" |
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DOCS_CONFIG_NAME="doxygen.conf" |
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inherit docs toolchain-funcs |
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DESCRIPTION="Eukaryotic gene predictor" |
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HOMEPAGE="http://augustus.gobics.de/" |
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SRC_URI="http://augustus.gobics.de/binaries/${PN}.${PV}.tar.gz"
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HOMEPAGE="https://bioinf.uni-greifswald.de/augustus/" |
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SRC_URI="https://github.com/Gaius-Augustus/Augustus/archive/refs/tags/v${PV}.tar.gz -> ${P}.tar.gz"
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S="${WORKDIR}/${P^}"
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LICENSE="Artistic" |
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SLOT="0" |
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KEYWORDS="amd64 ~x86" |
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IUSE="examples" |
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KEYWORDS="~amd64 ~x86" |
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S="${WORKDIR}/${PN}.${PV}"
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PATCHES=( "${FILESDIR}"/${P}-sane-build.patch )
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RDEPEND=" |
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dev-db/sqlite:3 |
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dev-db/mysql++:= |
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dev-db/mysql-connector-c:= |
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dev-libs/boost:=[zlib] |
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sci-biology/bamtools:= |
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sci-biology/samtools:0 |
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sci-libs/gsl:= |
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sci-libs/htslib:= |
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sci-libs/suitesparse |
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sci-mathematics/lpsolve:= |
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sys-libs/zlib |
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" |
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DEPEND="${RDEPEND}"
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src_configure() {
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src_compile() {
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tc-export CC CXX |
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} |
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src_compile() {
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emake clean |
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default |
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emake LINK.cc="$(tc-getCXX)" |
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docs_compile |
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} |
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src_install() {
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dobin bin/* |
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exeinto /usr/libexec/${PN}
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doexe scripts/*.p* |
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insinto /usr/libexec/${PN}
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doins scripts/*.conf |
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insinto /usr/share/${PN}
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doins -r config |
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echo "AUGUSTUS_CONFIG_PATH=\"/usr/share/${PN}/config\"" > 99${PN} || die
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doenvd 99${PN}
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dodoc -r README.TXT HISTORY.TXT docs/*.{pdf,txt}
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if use examples; then |
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insinto /usr/share/${PN}/
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doins -r docs/tutorial examples |
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fi |
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einstalldocs |
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# from upstream Makefile install: |
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dodir "opt/${P}"
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cp -a config bin scripts "${ED}/opt/${P}" || die
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local file |
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for file in bin/*; do |
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dosym "../${P}/${file}" "/opt/${file}"
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done |
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} |