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# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-biology/emboss/emboss-6.6.0.ebuild,v 1.3 2015/07/23 20:18:07 pacho Exp $
EAPI=5
AUTOTOOLS_AUTORECONF=1
inherit autotools-utils emboss-r1 eutils readme.gentoo
DESCRIPTION="The European Molecular Biology Open Software Suite - A sequence analysis package"
SRC_URI="ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-${PV}.tar.gz"
KEYWORDS="~amd64 ppc ~x86 ~amd64-linux ~x86-linux ~ppc-macos"
IUSE+=" minimal"
LICENSE+=" Apache-2.0 GPL-3+ CC-BY-3.0"
RDEPEND+=" !sys-devel/cons"
PDEPEND+="
!minimal? (
sci-biology/aaindex
sci-biology/cutg
sci-biology/primer3
sci-biology/prints
sci-biology/prosite
sci-biology/rebase
)"
S="${WORKDIR}"/EMBOSS-${PV}
DOCS=( ChangeLog AUTHORS NEWS THANKS FAQ )
PATCHES=(
"${FILESDIR}"/${P}_fix-build-system.patch
"${FILESDIR}"/${P}_FORTIFY_SOURCE-fix.patch
"${FILESDIR}"/${P}_plplot-declarations.patch
"${FILESDIR}"/${P}_qa-implicit-declarations.patch
)
src_install() {
# Use autotools-utils_* to remove useless *.la files
autotools-utils_src_install
readme.gentoo_create_doc
# Install env file for setting libplplot and acd files path.
cat > 22emboss <<- EOF
# ACD files location
EMBOSS_ACDROOT="${EPREFIX}/usr/share/EMBOSS/acd"
EMBOSS_DATA="${EPREFIX}/usr/share/EMBOSS/data"
EOF
doenvd 22emboss
# Remove useless dummy files
find "${ED}"/usr/share/EMBOSS -name dummyfile -delete || die "Failed to remove dummy files."
# Move the provided codon files to a different directory. This will avoid
# user confusion and file collisions on case-insensitive file systems (see
# bug #115446). This change is documented in "README.gentoo".
mv "${ED}"/usr/share/EMBOSS/data/CODONS{,.orig} || \
die "Failed to move CODON directory."
}
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