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commit: a58f8020918ebfc342dd2c596e4c25441bd665db |
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Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Fri Aug 26 08:40:58 2016 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Fri Aug 26 08:40:58 2016 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=a58f8020 |
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|
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sci-biology/vcflib: new package, works though is not ideal |
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|
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Package-Manager: portage-2.3.0 |
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|
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sci-biology/vcflib/metadata.xml | 12 ++++++++++ |
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sci-biology/vcflib/vcflib-9999.ebuild | 43 +++++++++++++++++++++++++++++++++++ |
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2 files changed, 55 insertions(+) |
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|
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diff --git a/sci-biology/vcflib/metadata.xml b/sci-biology/vcflib/metadata.xml |
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new file mode 100644 |
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index 0000000..f68a1b6 |
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--- /dev/null |
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+++ b/sci-biology/vcflib/metadata.xml |
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@@ -0,0 +1,12 @@ |
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+<?xml version="1.0" encoding="UTF-8"?> |
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+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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+<pkgmetadata> |
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+ <maintainer type="person"> |
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+ <email>mmokrejs@×××××××××××××××.cz</email> |
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+ <name>Martin Mokrejs</name> |
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+ </maintainer> |
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+ <maintainer type="project"> |
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+ <email>sci-biology@g.o</email> |
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+ <name>Gentoo Biology Project</name> |
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+ </maintainer> |
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+</pkgmetadata> |
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|
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diff --git a/sci-biology/vcflib/vcflib-9999.ebuild b/sci-biology/vcflib/vcflib-9999.ebuild |
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new file mode 100644 |
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index 0000000..5a03fe4 |
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--- /dev/null |
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+++ b/sci-biology/vcflib/vcflib-9999.ebuild |
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@@ -0,0 +1,43 @@ |
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+# Copyright 1999-2016 Gentoo Foundation |
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+# Distributed under the terms of the GNU General Public License v2 |
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+# $Id$ |
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+ |
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+EAPI=6 |
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+ |
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+inherit git-r3 toolchain-funcs |
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+ |
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+DESCRIPTION="VCF/BED utils, Genotype Phenotype Association Toolkit (GPAT++)" |
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+HOMEPAGE="https://github.com/vcflib/vcflib" |
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+EGIT_REPO_URI="https://github.com/vcflib/vcflib.git" |
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+ |
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+# vcflib is incorporated into several projects, such as freebayes |
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+ |
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+LICENSE="MIT-with-advertising" |
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+SLOT="0" |
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+KEYWORDS="" |
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+IUSE="mpi" |
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+ |
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+DEPEND="mpi? ( sys-cluster/openmpi )" |
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+RDEPEND="${DEPEND}" |
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+# contains bundled sci-biology/htslib ? |
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+# see also ./include for possible traces of other bundled sw |
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+ |
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+src_prepare(){ |
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+ default |
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+ sed -e "s/^CXX = g++/CXX = $(tc-getCXX)/" -i Makefile || die |
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+ sed -e "s/^CXXFLAGS = -O3/CXXFLAGS = ${CXXFLAGS}/" -i Makefile || die |
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+} |
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+ |
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+src_compile(){ |
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+ if use mpi ; then |
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+ emake openmp |
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+ else |
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+ emake |
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+ fi |
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+} |
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+ |
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+src_install(){ |
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+ dobin bin/* |
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+ dolib lib/* # install libvcflib.a |
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+ dodoc README.md |
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+} |