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jlec 14/03/23 15:29:13 |
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|
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Modified: ChangeLog |
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Added: samtools-0.1.19-r2.ebuild |
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Removed: samtools-0.1.19-r1.ebuild |
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Log: |
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sci-biology/samtools: Fix symlink creation, thanks Martin Mokrejs telling me that |
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(Portage version: 2.2.8-r1/cvs/Linux x86_64, signed Manifest commit with key B9D4F231BD1558AB!) |
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Revision Changes Path |
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1.17 sci-biology/samtools/ChangeLog |
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|
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file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?rev=1.17&view=markup |
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plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?rev=1.17&content-type=text/plain |
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diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/ChangeLog?r1=1.16&r2=1.17 |
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Index: ChangeLog |
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=================================================================== |
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RCS file: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v |
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retrieving revision 1.16 |
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retrieving revision 1.17 |
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diff -u -r1.16 -r1.17 |
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--- ChangeLog 11 Feb 2014 20:17:25 -0000 1.16 |
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+++ ChangeLog 23 Mar 2014 15:29:13 -0000 1.17 |
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@@ -1,6 +1,12 @@ |
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# ChangeLog for sci-biology/samtools |
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# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 |
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-# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v 1.16 2014/02/11 20:17:25 grobian Exp $ |
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+# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/ChangeLog,v 1.17 2014/03/23 15:29:13 jlec Exp $ |
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+ |
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+*samtools-0.1.19-r2 (23 Mar 2014) |
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+ |
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+ 23 Mar 2014; Justin Lecher <jlec@g.o> -samtools-0.1.19-r1.ebuild, |
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+ +samtools-0.1.19-r2.ebuild: |
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+ Fix symlink creation, thanks Martin Mokrejs telling me that |
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|
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11 Feb 2014; Fabian Groffen <grobian@g.o> samtools-0.1.19-r1.ebuild: |
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Reference correct library name on Darwin, thanks Linlin Yan in bug #491812 |
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1.1 sci-biology/samtools/samtools-0.1.19-r2.ebuild |
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file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.19-r2.ebuild?rev=1.1&view=markup |
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plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-biology/samtools/samtools-0.1.19-r2.ebuild?rev=1.1&content-type=text/plain |
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|
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Index: samtools-0.1.19-r2.ebuild |
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=================================================================== |
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# Copyright 1999-2014 Gentoo Foundation |
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# Distributed under the terms of the GNU General Public License v2 |
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# $Header: /var/cvsroot/gentoo-x86/sci-biology/samtools/samtools-0.1.19-r2.ebuild,v 1.1 2014/03/23 15:29:13 jlec Exp $ |
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EAPI=5 |
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PYTHON_COMPAT=( python{2_6,2_7} ) |
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inherit eutils multilib python-r1 toolchain-funcs |
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DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments" |
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HOMEPAGE="http://samtools.sourceforge.net/" |
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SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2" |
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LICENSE="MIT" |
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SLOT="0" |
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KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos" |
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IUSE="examples" |
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REQUIRED_USE="${PYTHON_REQUIRED_USE}" |
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CDEPEND="sys-libs/ncurses" |
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RDEPEND="${CDEPEND} |
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dev-lang/lua |
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dev-lang/perl" |
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DEPEND="${CDEPEND} |
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virtual/pkgconfig" |
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src_prepare() { |
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epatch "${FILESDIR}"/${P}-buildsystem.patch |
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sed -i 's~/software/bin/python~/usr/bin/env python~' "${S}"/misc/varfilter.py || die |
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tc-export CC AR |
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} |
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src_compile() { |
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local _ncurses="$(pkg-config --libs ncurses)" |
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emake dylib LIBCURSES="${_ncurses}" |
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emake LIBCURSES="${_ncurses}" |
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} |
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src_install() { |
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dobin samtools $(find bcftools misc -type f -executable) |
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python_replicate_script "${ED}"/usr/bin/varfilter.py |
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dolib.so libbam$(get_libname 1) |
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dosym libbam$(get_libname 1) /usr/$(get_libdir)/libbam$(get_libname) |
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|
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insinto /usr/include/bam |
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doins *.h |
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doman ${PN}.1 |
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dodoc AUTHORS NEWS |
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|
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if use examples; then |
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insinto /usr/share/${PN} |
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doins -r examples |
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fi |
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} |
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