commit: 26603b1f757f06f0c7e234390eecd3f5ea6ddfbd Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Thu Apr 30 20:14:31 2015 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Thu Apr 30 20:14:31 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=26603b1f
sci-biology/pysam: version bump; noted samtools dependencies as mentioned in download page accessible from https://code.google.com/p/pysam/downloads/list ; also added PYTHON_COMPAT for python3 Package-Manager: portage-2.2.18 sci-biology/pysam/ChangeLog | 12 ++++++++++++ sci-biology/pysam/metadata.xml | 8 ++++++++ sci-biology/pysam/pysam-0.6-r2.ebuild | 26 ++++++++++++++++++++++++++ sci-biology/pysam/pysam-0.7.5.ebuild | 26 ++++++++++++++++++++++++++ 4 files changed, 72 insertions(+) diff --git a/sci-biology/pysam/ChangeLog b/sci-biology/pysam/ChangeLog new file mode 100644 index 0000000..4b24154 --- /dev/null +++ b/sci-biology/pysam/ChangeLog @@ -0,0 +1,12 @@ +# ChangeLog for sci-biology/pysam +# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 +# $Header: $ + +*pysam-0.6-r2 (30 Apr 2015) +*pysam-0.7.5 (30 Apr 2015) + + 30 Apr 2015; Martin Mokrejs <[email protected]> +metadata.xml, + +pysam-0.6-r2.ebuild, +pysam-0.7.5.ebuild: + sci-biology/pysam: version bump; noted samtools dependencies as mentioned in + download page accessible from https://code.google.com/p/pysam/downloads/list ; + also added PYTHON_COMPAT for python3 diff --git a/sci-biology/pysam/metadata.xml b/sci-biology/pysam/metadata.xml new file mode 100644 index 0000000..49afc3c --- /dev/null +++ b/sci-biology/pysam/metadata.xml @@ -0,0 +1,8 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";> +<pkgmetadata> + <herd>sci-biology</herd> + <upstream> + <remote-id type="google-code">pysam</remote-id> + </upstream> +</pkgmetadata> diff --git a/sci-biology/pysam/pysam-0.6-r2.ebuild b/sci-biology/pysam/pysam-0.6-r2.ebuild new file mode 100644 index 0000000..d972ba1 --- /dev/null +++ b/sci-biology/pysam/pysam-0.6-r2.ebuild @@ -0,0 +1,26 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/pysam/pysam-0.6-r1.ebuild,v 1.2 2015/04/13 06:22:56 jlec Exp $ + +EAPI="5" + +PYTHON_COMPAT=( python2_7 ) + +inherit distutils-r1 + +DESCRIPTION="Python interface for the SAM/BAM sequence alignment and mapping format" +HOMEPAGE="http://code.google.com/p/pysam http://pypi.python.org/pypi/pysam"; +SRC_URI="http://${PN}.googlecode.com/files/${P}.tar.gz"; + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="dev-python/setuptools[${PYTHON_USEDEP}] + <=sci-biology/samtools-0.1.18" + +python_compile() { + python_is_python3 || local -x CFLAGS="${CFLAGS} -fno-strict-aliasing" + distutils-r1_python_compile +} diff --git a/sci-biology/pysam/pysam-0.7.5.ebuild b/sci-biology/pysam/pysam-0.7.5.ebuild new file mode 100644 index 0000000..888734b --- /dev/null +++ b/sci-biology/pysam/pysam-0.7.5.ebuild @@ -0,0 +1,26 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/pysam/pysam-0.6-r1.ebuild,v 1.2 2015/04/13 06:22:56 jlec Exp $ + +EAPI="5" + +PYTHON_COMPAT=( python{2_7,3_3,3_4}) + +inherit distutils-r1 + +DESCRIPTION="Python interface for the SAM/BAM sequence alignment and mapping format" +HOMEPAGE="http://code.google.com/p/pysam http://pypi.python.org/pypi/pysam"; +SRC_URI="http://${PN}.googlecode.com/files/${P}.tar.gz"; + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="dev-python/setuptools[${PYTHON_USEDEP}] + <=sci-biology/samtools-0.1.19" + +python_compile() { + python_is_python3 || local -x CFLAGS="${CFLAGS} -fno-strict-aliasing" + distutils-r1_python_compile +}
