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authorDavid Seifert <soap@gentoo.org>2017-09-17 12:55:14 +0200
committerDavid Seifert <soap@gentoo.org>2017-09-17 12:55:14 +0200
commitd18c0d93f7ff2d46209b941999530a0eda735cd9 (patch)
tree5a4fc765fae094e1e2532367304bb06b6f65af24 /sci-biology
parentsci-biology/pysam: Version bump to 0.12.0.1 (diff)
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sci-biology/pysam: Remove old
Package-Manager: Portage-2.3.8, Repoman-2.3.3
Diffstat (limited to 'sci-biology')
-rw-r--r--sci-biology/pysam/Manifest1
-rw-r--r--sci-biology/pysam/pysam-0.12.ebuild47
2 files changed, 0 insertions, 48 deletions
diff --git a/sci-biology/pysam/Manifest b/sci-biology/pysam/Manifest
index b01df416d50..700b3a8a08e 100644
--- a/sci-biology/pysam/Manifest
+++ b/sci-biology/pysam/Manifest
@@ -1,2 +1 @@
DIST pysam-0.12.0.1.tar.gz 2672020 SHA256 04837bf0b1313e57d50076f228463262b9982c410b973eb184c033528f83d523 SHA512 31460ca98ad2ac5489905ffce76bfbb5bf4a295159f3cc8e088c78dcfbfc34b30d6f7871fd1454de01da98f82b7438ac2aca678a771d7b97ae0029a418f29f1d WHIRLPOOL 5bd9f29e7458cac3839aaa9703d4c5740b1268644947f31ce7d3ddd12e0ec1948611ca5228323ce9b3b8fa5a5e0623c6fa0a0e2ce7f197fdb81aa5465915af36
-DIST pysam-0.12.tar.gz 2537142 SHA256 33922cb3277ed9a63457c1b6a9dcad2774a217ababcc97a854435be87ba80488 SHA512 095a47cd7258ef093a172445c425f382996da886e44e1beb81ecdec2325024e099d14bee6fcd928c4449099f51ad92b6d7ceb464815c463ab4478f162a40f21e WHIRLPOOL 2331e24d817cd3e7372df8e115498456e685ac426796b29c6d5a28edbaab2321f7efc9db0f14a000750fcd9e30391c02b81e439a07596813bdf7fc6c6e1a3ae3
diff --git a/sci-biology/pysam/pysam-0.12.ebuild b/sci-biology/pysam/pysam-0.12.ebuild
deleted file mode 100644
index 1f4f58fdfe2..00000000000
--- a/sci-biology/pysam/pysam-0.12.ebuild
+++ /dev/null
@@ -1,47 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-PYTHON_COMPAT=( python2_7 python3_{4,5,6} )
-
-inherit distutils-r1
-
-DESCRIPTION="Python interface for the SAM/BAM sequence alignment and mapping format"
-HOMEPAGE="
- https://github.com/pysam-developers/pysam
- https://pypi.python.org/pypi/pysam"
-SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
-
-LICENSE="MIT"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-
-RDEPEND="=sci-libs/htslib-1.5*:="
-DEPEND="${RDEPEND}
- dev-python/cython[${PYTHON_USEDEP}]
- dev-python/setuptools[${PYTHON_USEDEP}]"
-
-PATCHES=( "${FILESDIR}"/${PN}-0.12-fix-buildsystem.patch )
-
-python_prepare_all() {
- # unbundle htslib
- export HTSLIB_MODE="external"
- export HTSLIB_INCLUDE_DIR="${EPREFIX}"/usr/include
- export HTSLIB_LIBRARY_DIR="${EPREFIX}"/usr/$(get_libdir)
- rm -r htslib || die
-
- # prevent setup.py from adding RPATHs
- sed -e "/ext\.extra_link_args += \['-Wl,-rpath,\$ORIGIN'\]/d" \
- -i cy_build.py || die
- sed -e '/runtime_library_dirs=htslib_library_dirs/d' \
- -i setup.py || die
-
- distutils-r1_python_prepare_all
-}
-
-src_compile() {
- # TODO
- # empty compile, as the build system runs the whole build again in install
- :
-}