blob: ba886f80899f531130ee24173c78cd2a5212f0af (
plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
|
# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=6
PYTHON_COMPAT=( python2_7 python3_{4,5} )
inherit distutils-r1 python-r1
DESCRIPTION="Python interface for the SAM/BAM sequence alignment and mapping format"
HOMEPAGE="https://github.com/pysam-developers/pysam http://pypi.python.org/pypi/pysam"
SRC_URI="https://github.com/pysam-developers/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="MIT"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE=""
RDEPEND="=sci-libs/htslib-1.3*"
DEPEND="${RDEPEND}
dev-python/cython[${PYTHON_USEDEP}]
dev-python/setuptools[${PYTHON_USEDEP}]"
PATCHES=(
"${FILESDIR}/${P}-missing-config.h.patch"
)
src_prepare() {
default
export HTSLIB_INCLUDE_DIR=${EPREFIX}/usr/include
export HTSLIB_LIBRARY_DIR=${EPREFIX}/usr/$(get_libdir)
export HTSLIB_CONFIGURE_OPTIONS="--disable-libcurl"
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
}
src_compile() {
# TODO
# empty compile, as the build system runs the whole build again in install
:
}
|
GitWeb
