jlec 14/09/25 15:20:53 Modified: ChangeLog Added: samtools-1.0-r1.ebuild Log: sci-biology/samtools: Install bam headers and create libbam.so, #523644 (Portage version: 2.2.13/cvs/Linux x86_64, signed Manifest commit with key B9D4F231BD1558AB!)
Revision Changes Path 1.20 sci-biology/samtools/ChangeLog file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?rev=1.20&view=markup plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?rev=1.20&content-type=text/plain diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?r1=1.19&r2=1.20 Index: ChangeLog =================================================================== RCS file: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v retrieving revision 1.19 retrieving revision 1.20 diff -u -r1.19 -r1.20 --- ChangeLog 24 Sep 2014 08:12:27 -0000 1.19 +++ ChangeLog 25 Sep 2014 15:20:53 -0000 1.20 @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/samtools # Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v 1.19 2014/09/24 08:12:27 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v 1.20 2014/09/25 15:20:53 jlec Exp $ + +*samtools-1.0-r1 (25 Sep 2014) + + 25 Sep 2014; Justin Lecher <[email protected]> +samtools-1.0-r1.ebuild, + +files/samtools-1.0-buildsystem.patch: + Install bam headers and create libbam.so, #523644 24 Sep 2014; Justin Lecher <[email protected]> samtools-1.0.ebuild: Add missing build dep, #523586 1.1 sci-biology/samtools/samtools-1.0-r1.ebuild file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-1.0-r1.ebuild?rev=1.1&view=markup plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-1.0-r1.ebuild?rev=1.1&content-type=text/plain Index: samtools-1.0-r1.ebuild =================================================================== # Copyright 1999-2014 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-1.0-r1.ebuild,v 1.1 2014/09/25 15:20:53 jlec Exp $ EAPI=5 PYTHON_COMPAT=( python2_7 ) inherit eutils multilib python-r1 toolchain-funcs DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments" HOMEPAGE="http://www.htslib.org/"; SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2" LICENSE="MIT" SLOT="0" KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos" IUSE="examples" REQUIRED_USE="${PYTHON_REQUIRED_USE}" CDEPEND=" sys-libs/ncurses sci-libs/htslib" RDEPEND="${CDEPEND} dev-lang/lua dev-lang/perl" DEPEND="${CDEPEND} virtual/pkgconfig" src_prepare() { find htslib-1.0 -delete || die sed -i 's~/software/bin/python~/usr/bin/env python~' "${S}"/misc/varfilter.py || die epatch "${FILESDIR}"/${P}-buildsystem.patch tc-export CC AR sed \ -e '/htslib.mk/d' \ -i Makefile || die } src_compile() { local mymakeargs=( LIBCURSES="$($(tc-getPKG_CONFIG) --libs ncurses)" HTSDIR="${EPREFIX}/usr/include" HTSLIB=$($(tc-getPKG_CONFIG) --libs htslib) BAMLIB="libbam.so" ) emake "${mymakeargs[@]}" } src_install() { dobin samtools $(find misc -type f -executable) python_replicate_script "${ED}"/usr/bin/varfilter.py dolib.so libbam.so* insinto /usr/include/bam doins *.h doman ${PN}.1 dodoc AUTHORS NEWS README if use examples; then insinto /usr/share/${PN} doins -r examples fi }
