[gentoo-commits] repo/gentoo:master commit in: dev-python/astropy/, dev-python/astropy/files/

[Sebastien Fabbro]

commit:     3403656699bb4587f0dd0399078ab36c30535975
Author:     Sébastien Fabbro <bicatali <AT> gentoo <DOT> org>
AuthorDate: Wed Aug 31 21:50:28 2016 +0000
Commit:     Sebastien Fabbro <bicatali <AT> gentoo <DOT> org>
CommitDate: Wed Aug 31 23:07:25 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=34036566

dev-python/astropy: version bump. fix also xdg sandboxing issue
Gentoo-Bug: 587700

Package-Manager: portage-2.3.0

 dev-python/astropy/Manifest                        |  1 +
 dev-python/astropy/astropy-1.2.1.ebuild            | 98 ++++++++++++++++++++++
 .../astropy/files/astropy-1.2.1-cfitsio-338.patch  | 16 ++++
 3 files changed, 115 insertions(+)

diff --git a/dev-python/astropy/Manifest b/dev-python/astropy/Manifest
index 2f4f81f..6cf0a59 100644
--- a/dev-python/astropy/Manifest
+++ b/dev-python/astropy/Manifest
@@ -1 +1,2 @@
 DIST astropy-1.1.2.tar.gz 8059713 SHA256 6f0d84cd7dfb304bb437dda666406a1d42208c16204043bc920308ff8ffdfad1 SHA512 b83c4a1415a3eb8c016507705d0d2f22971e4da937bb97953eec08f8f856933d8fa76ce8c536122235b19e7879b16add2e20fd2fee3e488f9b2b4bf1b9f4dbdb WHIRLPOOL 01cdfd33c29f7128e88be3f53b7ecdec37d95ba06acae6ceeba83746e0454aa220396fb00519b30639ac01b5b297fad004488d34856295735e04924d154c4eb9
+DIST astropy-1.2.1.tar.gz 8179665 SHA256 0d7ef702166f26fed239b59fc12edcd5243ca5bf562a36202fd8c6b0270d6e48 SHA512 2ef37537a4c6b2ec50a1d898f600978475c9c5d2cb66ba19d06782656e9ddcb4aa6a8e53217e318448cedac45dac0dce0d8cc2fe94cddc15ebb306b3b0794595 WHIRLPOOL d37374f23a0121fdc92fa572facc248f0a571dacb8edcf1a9d0987d6a40287de199262ec01f654bd6ea5aece826e5588d2869558152adffe9ab490fa46f2e36d

diff --git a/dev-python/astropy/astropy-1.2.1.ebuild b/dev-python/astropy/astropy-1.2.1.ebuild
new file mode 100644
index 00000000..20994e5
--- /dev/null
+++ b/dev-python/astropy/astropy-1.2.1.ebuild
@@ -0,0 +1,98 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 python3_{4,5} )
+
+inherit distutils-r1 xdg-utils
+
+DESCRIPTION="Core functionality for performing astrophysics with Python"
+HOMEPAGE="http://astropy.org/"
+SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz"
+
+LICENSE="BSD"
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="doc test"
+
+RDEPEND="
+	dev-libs/expat:0=
+	dev-python/configobj[${PYTHON_USEDEP}]
+	>=dev-python/numpy-1.10[${PYTHON_USEDEP}]
+	dev-python/ply[${PYTHON_USEDEP}]
+	dev-python/six[${PYTHON_USEDEP}]
+	>=sci-astronomy/erfa-1.2:0=
+	>=sci-astronomy/wcslib-5:0=
+	sci-libs/cfitsio:0=
+	sys-libs/zlib:0="
+DEPEND="${RDEPEND}
+	>=dev-python/astropy-helpers-1.1[${PYTHON_USEDEP}]
+	dev-python/cython[${PYTHON_USEDEP}]
+	dev-python/setuptools[${PYTHON_USEDEP}]
+	virtual/pkgconfig
+	doc? (
+		media-gfx/graphviz
+		$(python_gen_cond_dep 'dev-libs/libxml2[${PYTHON_USEDEP}]' python2_7)
+		$(python_gen_cond_dep 'dev-python/h5py[${PYTHON_USEDEP}]' python2_7)
+		$(python_gen_cond_dep 'dev-python/matplotlib[${PYTHON_USEDEP}]' python2_7)
+		$(python_gen_cond_dep 'dev-python/pytest[${PYTHON_USEDEP}]' python2_7)
+		$(python_gen_cond_dep 'dev-python/sphinx[${PYTHON_USEDEP}]' python2_7)
+		$(python_gen_cond_dep 'dev-python/wcsaxes[${PYTHON_USEDEP}]' python2_7)
+		$(python_gen_cond_dep 'sci-libs/scipy[${PYTHON_USEDEP}]'python2_7)
+	)
+	test? (
+		dev-libs/libxml2[${PYTHON_USEDEP}]
+		dev-python/pytest[${PYTHON_USEDEP}]
+		dev-python/h5py[${PYTHON_USEDEP}]
+		dev-python/matplotlib[${PYTHON_USEDEP}]
+		sci-libs/scipy[${PYTHON_USEDEP}]
+	)"
+
+REQUIRED_USE="doc? ( || ( $(python_gen_useflags 'python2*') ) )"
+
+PATCHES=(
+	"${FILESDIR}/${PN}-1.0.4-system-six.patch"
+	"${FILESDIR}/${PN}-1.0.4-system-configobj.patch"
+	"${FILESDIR}/${PN}-1.1.1-mark-kown-failures.patch"
+	"${FILESDIR}/${PN}-1.2.1-cfitsio-338.patch"
+)
+
+pkg_setup() {
+	use doc && DISTUTILS_ALL_SUBPHASE_IMPLS=( 'python2*' )
+}
+
+python_prepare_all() {
+	export mydistutilsargs="--offline"
+	export ASTROPY_USE_SYSTEM_PYTEST=True
+	rm -r ${PN}_helpers || die
+	cp "${FILESDIR}"/astropy-ply.py astropy/extern/ply.py || die
+	rm -r cextern/{expat,erfa,cfitsio,wcslib} || die
+	sed -i -e '/auto_use/s/True/False/' setup.cfg || die
+	cat >> setup.cfg <<-EOF
+	[build]
+	use_system_libraries=1
+	EOF
+	xdg_environment_reset
+	distutils-r1_python_prepare_all
+}
+
+python_compile_all() {
+	if use doc; then
+		python_setup "python2*"
+		VARTEXFONTS="${T}"/fonts \
+			MPLCONFIGDIR="${BUILD_DIR}" \
+			PYTHONPATH="${BUILD_DIR}"/lib \
+			esetup.py build_sphinx
+	fi
+}
+
+python_test() {
+	esetup.py test
+}
+
+python_install_all() {
+	use doc && local HTML_DOCS=( docs/_build/html/. )
+	distutils-r1_python_install_all
+}

diff --git a/dev-python/astropy/files/astropy-1.2.1-cfitsio-338.patch b/dev-python/astropy/files/astropy-1.2.1-cfitsio-338.patch
new file mode 100644
index 00000000..9a688d9
--- /dev/null
+++ b/dev-python/astropy/files/astropy-1.2.1-cfitsio-338.patch
@@ -0,0 +1,16 @@
+Author: Ole Streicher <olebole@××××××.org>
+Description: Make TFORMx check more flexible
+ The maximal column length in cfitsio changed between version 3370 and 3380.
+ This patch checks their syntax, without a specific length.
+Bug: https://github.com/astropy/astropy/issues/4646
+--- a/astropy/io/fits/tests/test_image.py
++++ b/astropy/io/fits/tests/test_image.py
+@@ -1070,7 +1070,7 @@
+         hdu.writeto(self.temp('test.fits'))
+ 
+         with fits.open(self.temp('test.fits')) as hdul:
+-            assert (hdul['SCI'].data == cube).all()
++            assert np.abs(hdul['SCI'].data - cube).max() < 1./15.
+ 
+     def test_subtractive_dither_seed(self):
+         """