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

5 files changed, 74 insertions, 0 deletions

diff --git a/sci-biology/pysam/ChangeLog b/sci-biology/pysam/ChangeLog
new file mode 100644
index 000000000..4b2415420
--- /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@fold.natur.cuni.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/Manifest b/sci-biology/pysam/Manifest
new file mode 100644
index 000000000..48d0aab5f
--- /dev/null
+++ b/sci-biology/pysam/Manifest
@@ -0,0 +1,2 @@
+DIST pysam-0.6.tar.gz 841790 SHA256 081c980481f31a81acb06f6fa5638b899321eddfd9eeb5075393e4dad84a1fc8 SHA512 b60df4551600f04e8ae67aec0f2745846d2411e2a1cc4c874ef296ee80ab075256190ebb0ec64eb78231d4d7b59670c5259818cd315f52c923774cc4c0b8b391 WHIRLPOOL eddeb19f3ebf0c6326f7c1b6b7224b2b8cb708e0bf7ceb66b1cac18909abafd1704b264452b70ee6721af4b3b360b51285dcffd7f137c6128920f91dc0dec7b2
+DIST pysam-0.7.5.tar.gz 1466667 SHA256 fa85900ead3d1c2c9ce24f28d2b1843c0a8ffb761cd21d440049e29eca2e2453 SHA512 ce609c65eef1188186c28cb8ea1bad73608d738c47089a5ef3a22a14e7bba5acd8f8b6a3fd67935cf1dc9fb57927205ad0f009dc0122b12c1866955ada01198c WHIRLPOOL c9a4488fb8f6fbd2aa74081f5b286befbab980e8544036956e83d82b3f4f9238c6f0138f094b090b30e18b3eb25c36ce4f6cadf65d6e80195091de6d7995f19d
diff --git a/sci-biology/pysam/metadata.xml b/sci-biology/pysam/metadata.xml
new file mode 100644
index 000000000..49afc3c3d
--- /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 000000000..d972ba178
--- /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 000000000..888734b57
--- /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
+}