[gentoo-commits] proj/sci:master commit in: sci-biology/pysam/

[Martin Mokrejs]

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 <mmokrejs@×××××××××××××××.cz> +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
+}