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Diffstat (limited to 'sci-biology/stacks/stacks-2.55.ebuild')
| -rw-r--r-- | sci-biology/stacks/stacks-2.55.ebuild | 57 |
1 files changed, 0 insertions, 57 deletions
diff --git a/sci-biology/stacks/stacks-2.55.ebuild b/sci-biology/stacks/stacks-2.55.ebuild deleted file mode 100644 index 4d7095d4f..000000000 --- a/sci-biology/stacks/stacks-2.55.ebuild +++ /dev/null @@ -1,57 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -inherit flag-o-matic perl-module webapp autotools - -DESCRIPTION="Analyze restriction enzyme data, draw gen. maps, population genomics" -HOMEPAGE="http://creskolab.uoregon.edu/stacks" -SRC_URI="http://creskolab.uoregon.edu/stacks/source/${P}.tar.gz" - -LICENSE="GPL-3" -# SLOT="0" # webapp ebuilds do not set SLOT -KEYWORDS="" - -# No rule to make target test -RESTRICT="test" - -DEPEND=" - >=sci-libs/htslib-1.3.1:0 - dev-cpp/sparsehash - sci-biology/samtools:* - sci-biology/bamtools - sci-biology/gmap" # Source code for both GMAP and GSNAP -RDEPEND="${DEPEND} - dev-lang/perl - >=dev-lang/php-5 - dev-perl/DBD-mysql" - -PATCHES=( - "${FILESDIR}/${PN}-make-install.patch" -) - -src_prepare(){ - default - #mycppflags=`pkg-config --cflags htslib` # is blocked by bug #601366 - if [ -z "$mycppflags" ]; then mycppflags="."; fi - sed -e "s#-I./htslib/htslib#-I/usr/include/bam -I${mycppflags}#" -i configure.ac || die - eautoreconf -} - -src_configure() { - econf - webapp_src_preinst - sed -e 's#/usr/lib/libbam.a#-lbam#;#./htslib/libhts.a#-lhts#' -i Makefile || die -} - -src_install() { - emake install DESTDIR="${ED}" - mydoc="Changes README TODO INSTALL" - perl-module_src_install DESTDIR="${ED}" - webapp_src_install || die "Failed running webapp_src_install" -} - -pkg_postinst() { - webapp_pkg_postinst || die "webapp_pkg_postinst failed" -} |