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authorDavid Seifert <soap@gentoo.org>2017-02-19 19:41:33 +0100
committerDavid Seifert <soap@gentoo.org>2017-02-19 19:42:19 +0100
commit80392a26afc1e58165ac311b55d54d64ef2fa553 (patch)
treecf6bc318b8659dd0698b1221f7d2161df5aca85d /sci-biology
parentemboss-r2.eclass: Make EAPI=6 only, simplify (diff)
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sci-biology/emboss: Port to emboss-r2.eclass
Package-Manager: portage-2.3.1 Closes: https://github.com/gentoo/gentoo/pull/3937
Diffstat (limited to 'sci-biology')
-rw-r--r--sci-biology/emboss/emboss-6.6.0-r1.ebuild65
1 files changed, 65 insertions, 0 deletions
diff --git a/sci-biology/emboss/emboss-6.6.0-r1.ebuild b/sci-biology/emboss/emboss-6.6.0-r1.ebuild
new file mode 100644
index 00000000000..6dc9b8566c7
--- /dev/null
+++ b/sci-biology/emboss/emboss-6.6.0-r1.ebuild
@@ -0,0 +1,65 @@
+# Copyright 1999-2017 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+EBO_EAUTORECONF=1
+
+inherit emboss-r2 readme.gentoo-r1
+
+DESCRIPTION="The European Molecular Biology Open Software Suite - A sequence analysis package"
+SRC_URI="ftp://emboss.open-bio.org/pub/${PN^^}/${P^^}.tar.gz"
+
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="minimal"
+LICENSE+=" Apache-2.0 GPL-3+ CC-BY-3.0"
+
+RDEPEND="
+ !games-action/xbomber
+ !sys-devel/cons"
+PDEPEND="
+ !minimal? (
+ sci-biology/aaindex
+ sci-biology/cutg
+ sci-biology/primer3
+ sci-biology/prints
+ sci-biology/prosite
+ sci-biology/rebase
+ )"
+
+S="${WORKDIR}/${P^^}"
+
+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() {
+ emboss-r2_src_install
+
+ readme.gentoo_create_doc
+
+ # Install env file for setting libplplot and acd files path.
+ cat > 22emboss <<- EOF || die
+ # 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"
+}
+
+pkg_postinst() {
+ readme.gentoo_print_elog
+}