commit: a739074affb67ea39f3d93d1230ce85ac55e619b
Author: Anthony G. Basile <blueness <AT> gentoo <DOT> org>
AuthorDate: Wed Feb 3 05:23:41 2016 +0000
Commit: Anthony G. Basile <blueness <AT> gentoo <DOT> org>
CommitDate: Wed Feb 3 05:23:41 2016 +0000
URL: https://gitweb.gentoo.org/proj/musl.git/commit/?id=a739074a
dev-python/numpy: bump to 1.10.4
Package-Manager: portage-2.2.26
RepoMan-Options: --force
dev-python/numpy/Manifest | 14 +--
.../numpy/files/numpy-1.10.1-backport-1.patch | 127 ---------------------
.../numpy/files/numpy-1.10.1-backport-2.patch | 73 ------------
.../files/numpy-1.10.2-no-hardcode-blas.patch | 64 +++++++++++
.../numpy/files/numpy-1.9.2-no-hardcode-blas.patch | 35 ------
...py-1.10.1-r1.ebuild => numpy-1.10.4-r99.ebuild} | 41 +++----
6 files changed, 89 insertions(+), 265 deletions(-)
diff --git a/dev-python/numpy/Manifest b/dev-python/numpy/Manifest
index 68da0e0..80311de 100644
--- a/dev-python/numpy/Manifest
+++ b/dev-python/numpy/Manifest
@@ -1,9 +1,7 @@
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diff --git a/dev-python/numpy/files/numpy-1.10.1-backport-1.patch
b/dev-python/numpy/files/numpy-1.10.1-backport-1.patch
deleted file mode 100644
index 77a3c01..0000000
--- a/dev-python/numpy/files/numpy-1.10.1-backport-1.patch
+++ /dev/null
@@ -1,127 +0,0 @@
-From 3a816a4db9b498eb64eb837fdcca0fa8ddbe063e Mon Sep 17 00:00:00 2001
-From: Allan Haldane <allan.hald...@gmail.com>
-Date: Sat, 17 Oct 2015 14:00:36 -0400
-Subject: [PATCH] BUG: recarrays viewed as subarrays don't convert to np.record
- type
-
-Record array views were updated in #5943 to return np.record dtype
-where possible, but forgot about the case of sub-arrays.
-
-That's fixed here, so accessing subarray fields by attribute or index
-works sensibly, as well as viewing a record array as a subarray dtype,
-and printing subarrays.
-
-This also happens to fix #6459, since it affects the same lines.
-
-Fixes #6497 #6459
----
- numpy/core/records.py | 30 +++++++++++++++++++-----------
- numpy/core/tests/test_records.py | 23 +++++++++++++++++++++++
- 2 files changed, 42 insertions(+), 11 deletions(-)
-
-diff --git a/numpy/core/records.py b/numpy/core/records.py
-index 4a99553..4ce3fe9 100644
---- a/numpy/core/records.py
-+++ b/numpy/core/records.py
-@@ -448,12 +448,14 @@ def __getattribute__(self, attr):
-
- # At this point obj will always be a recarray, since (see
- # PyArray_GetField) the type of obj is inherited. Next, if obj.dtype
is
-- # non-structured, convert it to an ndarray. If obj is structured leave
-- # it as a recarray, but make sure to convert to the same dtype.type
(eg
-- # to preserve numpy.record type if present), since nested structured
-- # fields do not inherit type.
-+ # non-structured, convert it to an ndarray. Then if obj is structured
-+ # with void type convert it to the same dtype.type (eg to preserve
-+ # numpy.record type if present), since nested structured fields do not
-+ # inherit type. Don't do this for non-void structures though.
- if obj.dtype.fields:
-- return obj.view(dtype=(self.dtype.type, obj.dtype.fields))
-+ if issubclass(obj.dtype.type, nt.void):
-+ return obj.view(dtype=(self.dtype.type, obj.dtype))
-+ return obj
- else:
- return obj.view(ndarray)
-
-@@ -463,8 +465,9 @@ def __getattribute__(self, attr):
- # Thus, you can't create attributes on-the-fly that are field names.
- def __setattr__(self, attr, val):
-
-- # Automatically convert (void) dtypes to records.
-- if attr == 'dtype' and issubclass(val.type, nt.void):
-+ # Automatically convert (void) structured types to records
-+ # (but not non-void structures, subarrays, or non-structured voids)
-+ if attr == 'dtype' and issubclass(val.type, nt.void) and val.fields:
- val = sb.dtype((record, val))
-
- newattr = attr not in self.__dict__
-@@ -499,7 +502,9 @@ def __getitem__(self, indx):
- # we might also be returning a single element
- if isinstance(obj, ndarray):
- if obj.dtype.fields:
-- return obj.view(dtype=(self.dtype.type, obj.dtype.fields))
-+ if issubclass(obj.dtype.type, nt.void):
-+ return obj.view(dtype=(self.dtype.type, obj.dtype))
-+ return obj
- else:
- return obj.view(type=ndarray)
- else:
-@@ -519,11 +524,14 @@ def __repr__(self):
- # If this is a full record array (has numpy.record dtype),
- # or if it has a scalar (non-void) dtype with no records,
- # represent it using the rec.array function. Since rec.array
-- # converts dtype to a numpy.record for us, use only dtype.descr,
-- # not repr(dtype).
-+ # converts dtype to a numpy.record for us, convert back
-+ # to non-record before printing
-+ plain_dtype = self.dtype
-+ if plain_dtype.type is record:
-+ plain_dtype = sb.dtype((nt.void, plain_dtype))
- lf = '\n'+' '*len("rec.array(")
- return ('rec.array(%s, %sdtype=%s)' %
-- (lst, lf, repr(self.dtype.descr)))
-+ (lst, lf, plain_dtype))
- else:
- # otherwise represent it using np.array plus a view
- # This should only happen if the user is playing
-diff --git a/numpy/core/tests/test_records.py
b/numpy/core/tests/test_records.py
-index 7a18f29..290bc4f 100644
---- a/numpy/core/tests/test_records.py
-+++ b/numpy/core/tests/test_records.py
-@@ -121,6 +121,23 @@ def test_recarray_views(self):
- assert_equal(type(rv), np.recarray)
- assert_equal(rv.dtype.type, np.record)
-
-+ # check that accessing nested structures keep record type, but
-+ # not for subarrays, non-void structures, non-structured voids
-+ test_dtype = [('a', 'f4,f4'), ('b', 'V8'), ('c', ('f4',2)),
-+ ('d', ('i8', 'i4,i4'))]
-+ r = np.rec.array([((1,1), b'11111111', [1,1], 1),
-+ ((1,1), b'11111111', [1,1], 1)], dtype=test_dtype)
-+ assert_equal(r.a.dtype.type, np.record)
-+ assert_equal(r.b.dtype.type, np.void)
-+ assert_equal(r.c.dtype.type, np.float32)
-+ assert_equal(r.d.dtype.type, np.int64)
-+ # check the same, but for views
-+ r = np.rec.array(np.ones(4, dtype='i4,i4'))
-+ assert_equal(r.view('f4,f4').dtype.type, np.record)
-+ assert_equal(r.view(('i4',2)).dtype.type, np.int32)
-+ assert_equal(r.view('V8').dtype.type, np.void)
-+ assert_equal(r.view(('i8', 'i4,i4')).dtype.type, np.int64)
-+
- #check that we can undo the view
- arrs = [np.ones(4, dtype='f4,i4'), np.ones(4, dtype='f8')]
- for arr in arrs:
-@@ -135,6 +152,12 @@ def test_recarray_repr(self):
- a = np.array(np.ones(4, dtype='f8'))
- assert_(repr(np.rec.array(a)).startswith('rec.array'))
-
-+ # check that the 'np.record' part of the dtype isn't shown
-+ a = np.rec.array(np.ones(3, dtype='i4,i4'))
-+ assert_equal(repr(a).find('numpy.record'), -1)
-+ a = np.rec.array(np.ones(3, dtype='i4'))
-+ assert_(repr(a).find('dtype=int32') != -1)
-+
- def test_recarray_from_names(self):
- ra = np.rec.array([
- (1, 'abc', 3.7000002861022949, 0),
diff --git a/dev-python/numpy/files/numpy-1.10.1-backport-2.patch
b/dev-python/numpy/files/numpy-1.10.1-backport-2.patch
deleted file mode 100644
index 9c33704..0000000
--- a/dev-python/numpy/files/numpy-1.10.1-backport-2.patch
+++ /dev/null
@@ -1,73 +0,0 @@
-From 0d25dc4175e00cdaf9545e8b1b1a5b879cf67248 Mon Sep 17 00:00:00 2001
-From: Ethan Kruse <eakr...@uw.edu>
-Date: Mon, 19 Oct 2015 13:29:01 -0700
-Subject: [PATCH 1/2] Potential fix for #6462
-
----
- numpy/lib/function_base.py | 2 +-
- 1 file changed, 1 insertion(+), 1 deletion(-)
-
-diff --git a/numpy/lib/function_base.py b/numpy/lib/function_base.py
-index 555d083..fef69df 100644
---- a/numpy/lib/function_base.py
-+++ b/numpy/lib/function_base.py
-@@ -3339,7 +3339,7 @@ def _median(a, axis=None, out=None,
overwrite_input=False):
- indexer[axis] = slice(index-1, index+1)
-
- # Check if the array contains any nan's
-- if np.issubdtype(a.dtype, np.inexact):
-+ if np.issubdtype(a.dtype, np.inexact) and sz > 0:
- # warn and return nans like mean would
- rout = mean(part[indexer], axis=axis, out=out)
- part = np.rollaxis(part, axis, part.ndim)
-
-From 59d859fb2160950ac93267d7461ad952145c8724 Mon Sep 17 00:00:00 2001
-From: Ethan Kruse <eakr...@uw.edu>
-Date: Tue, 20 Oct 2015 11:40:49 -0700
-Subject: [PATCH 2/2] Added tests for median of empty arrays
-
----
- numpy/lib/tests/test_function_base.py | 30 ++++++++++++++++++++++++++++++
- 1 file changed, 30 insertions(+)
-
-diff --git a/numpy/lib/tests/test_function_base.py
b/numpy/lib/tests/test_function_base.py
-index 4516c92..aa41c1f 100644
---- a/numpy/lib/tests/test_function_base.py
-+++ b/numpy/lib/tests/test_function_base.py
-@@ -2597,6 +2597,36 @@ def test_nan_behavior(self):
- assert_equal(np.median(a, (0, 2)), b)
- assert_equal(len(w), 1)
-
-+ def test_empty(self):
-+ # empty arrays
-+ a = np.array([], dtype=float)
-+ with warnings.catch_warnings(record=True) as w:
-+ warnings.filterwarnings('always', '', RuntimeWarning)
-+ assert_equal(np.median(a), np.nan)
-+ assert_(w[0].category is RuntimeWarning)
-+
-+ # multiple dimensions
-+ a = np.array([], dtype=float, ndmin=3)
-+ # no axis
-+ with warnings.catch_warnings(record=True) as w:
-+ warnings.filterwarnings('always', '', RuntimeWarning)
-+ assert_equal(np.median(a), np.nan)
-+ assert_(w[0].category is RuntimeWarning)
-+
-+ # axis 0 and 1
-+ b = np.array([], dtype=float, ndmin=2)
-+ with warnings.catch_warnings(record=True) as w:
-+ warnings.filterwarnings('always', '', RuntimeWarning)
-+ assert_equal(np.median(a, axis=0), b)
-+ assert_equal(np.median(a, axis=1), b)
-+
-+ # axis 2
-+ b = np.array(np.nan, dtype=float, ndmin=2)
-+ with warnings.catch_warnings(record=True) as w:
-+ warnings.filterwarnings('always', '', RuntimeWarning)
-+ assert_equal(np.median(a, axis=2), b)
-+ assert_(w[0].category is RuntimeWarning)
-+
- def test_object(self):
- o = np.arange(7.)
- assert_(type(np.median(o.astype(object))), float)
diff --git a/dev-python/numpy/files/numpy-1.10.2-no-hardcode-blas.patch
b/dev-python/numpy/files/numpy-1.10.2-no-hardcode-blas.patch
new file mode 100644
index 0000000..db4a47d
--- /dev/null
+++ b/dev-python/numpy/files/numpy-1.10.2-no-hardcode-blas.patch
@@ -0,0 +1,64 @@
+ numpy/distutils/system_info.py | 29 +++++------------------------
+ 1 file changed, 5 insertions(+), 24 deletions(-)
+
+diff --git a/numpy/distutils/system_info.py b/numpy/distutils/system_info.py
+index d7eb49e..aa62b09 100644
+--- a/numpy/distutils/system_info.py
++++ b/numpy/distutils/system_info.py
+@@ -306,26 +306,7 @@ def get_info(name, notfound_action=0):
+ 1 - display warning message
+ 2 - raise error
+ """
+- cl = {'atlas': atlas_info, # use lapack_opt or blas_opt instead
+- 'atlas_threads': atlas_threads_info, # ditto
+- 'atlas_blas': atlas_blas_info,
+- 'atlas_blas_threads': atlas_blas_threads_info,
+- 'lapack_atlas': lapack_atlas_info, # use lapack_opt instead
+- 'lapack_atlas_threads': lapack_atlas_threads_info, # ditto
+- 'atlas_3_10': atlas_3_10_info, # use lapack_opt or blas_opt instead
+- 'atlas_3_10_threads': atlas_3_10_threads_info, #
ditto
+- 'atlas_3_10_blas': atlas_3_10_blas_info,
+- 'atlas_3_10_blas_threads': atlas_3_10_blas_threads_info,
+- 'lapack_atlas_3_10': lapack_atlas_3_10_info, # use lapack_opt
instead
+- 'lapack_atlas_3_10_threads': lapack_atlas_3_10_threads_info, #
ditto
+- 'mkl': mkl_info,
+- # openblas which may or may not have embedded lapack
+- 'openblas': openblas_info, # use blas_opt instead
+- # openblas with embedded lapack
+- 'openblas_lapack': openblas_lapack_info, # use blas_opt instead
+- 'lapack_mkl': lapack_mkl_info, # use lapack_opt instead
+- 'blas_mkl': blas_mkl_info, # use blas_opt instead
+- 'x11': x11_info,
++ cl = {'x11': x11_info,
+ 'fft_opt': fft_opt_info,
+ 'fftw': fftw_info,
+ 'fftw2': fftw2_info,
+@@ -1690,7 +1671,7 @@ class blas_info(system_info):
+ lib = self.has_cblas(info)
+ if lib is not None:
+ info['language'] = 'c'
+- info['libraries'] = [lib]
++ info['libraries'] = lib
+ info['define_macros'] = [('HAVE_CBLAS', None)]
+ self.set_info(**info)
+
+@@ -1722,16 +1703,16 @@ class blas_info(system_info):
+ # check for cblas lib, and if not present check for blas lib.
+ try:
+ c.link_executable(obj, os.path.join(tmpdir, "a.out"),
+- libraries=["cblas"],
++ libraries=info["libraries"],
+ library_dirs=info['library_dirs'],
+
extra_postargs=info.get('extra_link_args', []))
+- res = "cblas"
++ res = info["libraries"]
+ except distutils.ccompiler.LinkError:
+ c.link_executable(obj, os.path.join(tmpdir, "a.out"),
+ libraries=["blas"],
+ library_dirs=info['library_dirs'],
+
extra_postargs=info.get('extra_link_args', []))
+- res = "blas"
++ res = ["blas"]
+ except distutils.ccompiler.CompileError:
+ res = None
+ finally:
diff --git a/dev-python/numpy/files/numpy-1.9.2-no-hardcode-blas.patch
b/dev-python/numpy/files/numpy-1.9.2-no-hardcode-blas.patch
deleted file mode 100644
index 674dbfa..0000000
--- a/dev-python/numpy/files/numpy-1.9.2-no-hardcode-blas.patch
+++ /dev/null
@@ -1,35 +0,0 @@
- numpy/distutils/system_info.py | 21 +--------------------
- 1 file changed, 1 insertion(+), 20 deletions(-)
-
-diff --git a/numpy/distutils/system_info.py b/numpy/distutils/system_info.py
-index a050430..d0878a5 100644
---- a/numpy/distutils/system_info.py
-+++ b/numpy/distutils/system_info.py
-@@ -303,26 +303,7 @@ def get_info(name, notfound_action=0):
- 1 - display warning message
- 2 - raise error
- """
-- cl = {'atlas': atlas_info, # use lapack_opt or blas_opt instead
-- 'atlas_threads': atlas_threads_info, # ditto
-- 'atlas_blas': atlas_blas_info,
-- 'atlas_blas_threads': atlas_blas_threads_info,
-- 'lapack_atlas': lapack_atlas_info, # use lapack_opt instead
-- 'lapack_atlas_threads': lapack_atlas_threads_info, # ditto
-- 'atlas_3_10': atlas_3_10_info, # use lapack_opt or blas_opt instead
-- 'atlas_3_10_threads': atlas_3_10_threads_info, #
ditto
-- 'atlas_3_10_blas': atlas_3_10_blas_info,
-- 'atlas_3_10_blas_threads': atlas_3_10_blas_threads_info,
-- 'lapack_atlas_3_10': lapack_atlas_3_10_info, # use lapack_opt
instead
-- 'lapack_atlas_3_10_threads': lapack_atlas_3_10_threads_info, #
ditto
-- 'mkl': mkl_info,
-- # openblas which may or may not have embedded lapack
-- 'openblas': openblas_info, # use blas_opt instead
-- # openblas with embedded lapack
-- 'openblas_lapack': openblas_lapack_info, # use blas_opt instead
-- 'lapack_mkl': lapack_mkl_info, # use lapack_opt instead
-- 'blas_mkl': blas_mkl_info, # use blas_opt instead
-- 'x11': x11_info,
-+ cl = {'x11': x11_info,
- 'fft_opt': fft_opt_info,
- 'fftw': fftw_info,
- 'fftw2': fftw2_info,
diff --git a/dev-python/numpy/numpy-1.10.1-r1.ebuild
b/dev-python/numpy/numpy-1.10.4-r99.ebuild
similarity index 77%
rename from dev-python/numpy/numpy-1.10.1-r1.ebuild
rename to dev-python/numpy/numpy-1.10.4-r99.ebuild
index ab6df8b..d2a05ce 100644
--- a/dev-python/numpy/numpy-1.10.1-r1.ebuild
+++ b/dev-python/numpy/numpy-1.10.4-r99.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
@@ -11,7 +11,7 @@ FORTRAN_NEEDED=lapack
inherit distutils-r1 eutils flag-o-matic fortran-2 multilib multiprocessing
toolchain-funcs versionator
-DOC_PV="1.9.1"
+DOC_PV="1.10.1"
DOC_P="${PN}-${DOC_PV}"
DESCRIPTION="Fast array and numerical python library"
@@ -25,7 +25,7 @@ SRC_URI="mirror://pypi/${PN:0:1}/${PN}/${P}.tar.gz
# It appears the docs haven't been upgraded, still @ 1.8.1
LICENSE="BSD"
SLOT="0"
-KEYWORDS="~alpha ~amd64 ~arm ~arm64 ~hppa ~ia64 ~mips ~ppc ~ppc64 ~s390 ~sh
~sparc ~x86 ~amd64-fbsd ~x86-fbsd ~x86-freebsd ~x86-interix ~amd64-linux
~arm-linux ~x86-linux ~ppc-macos ~x64-macos ~x86-macos ~sparc-solaris
~x64-solaris ~x86-solaris"
+KEYWORDS="amd64 arm ~mips ppc x86"
IUSE="doc lapack test"
RDEPEND="
@@ -40,10 +40,8 @@ DEPEND="${RDEPEND}
DISTUTILS_IN_SOURCE_BUILD=1
PATCHES=(
- "${FILESDIR}"/${PN}-1.9.2-no-hardcode-blas.patch
+ "${FILESDIR}"/${PN}-1.10.2-no-hardcode-blas.patch
"${FILESDIR}"/${PN}-1.10.1-musl-fix.patch
- "${FILESDIR}"/${P}-backport-1.patch
- "${FILESDIR}"/${P}-backport-2.patch
)
src_unpack() {
@@ -74,8 +72,6 @@ python_prepare_all() {
if use lapack; then
append-ldflags "$($(tc-getPKG_CONFIG) --libs-only-other cblas
lapack)"
local libdir="${EPREFIX}"/usr/$(get_libdir)
- # make sure _dotblas.so gets built
- sed -i -e '/NO_ATLAS_INFO/,+1d' numpy/core/setup.py || die
cat >> site.cfg <<-EOF
[blas]
include_dirs = $(pc_incdir cblas)
@@ -111,18 +107,20 @@ python_prepare_all() {
fi
# don't version f2py, we will handle it.
- sed -i -e '/f2py_exe/s:+os\.path.*$::' numpy/f2py/setup.py || die
+ sed -i -e '/f2py_exe/s: + os\.path.*$::' numpy/f2py/setup.py || die
# we don't have f2py-3.3
- sed \
- -e "/f2py_cmd/s:'f2py'.*:'f2py':g" \
- -i numpy/tests/test_scripts.py || die
+# sed \
+# -e 's:test_f2py:_&:g' \
+# -i numpy/tests/test_scripts.py || die
distutils-r1_python_prepare_all
}
python_compile() {
- distutils-r1_python_compile -j $(makeopts_jobs) ${NUMPY_FCONFIG}
+ distutils-r1_python_compile \
+ $(usex python_targets_python3_5 "" "-j $(makeopts_jobs)") \
+ ${NUMPY_FCONFIG}
}
python_test() {
@@ -140,17 +138,16 @@ python_install() {
}
python_install_all() {
- distutils-r1_python_install_all
-
- dodoc COMPATIBILITY DEV_README.txt THANKS.txt
+ DOCS+=( COMPATIBILITY DEV_README.txt THANKS.txt )
if use doc; then
- dohtml -r "${WORKDIR}"/html/*
- dodoc "${DISTDIR}"/${PN}-{user,ref}-${DOC_PV}.pdf
+ HTML_DOCS=( "${WORKDIR}"/html/. )
+ DOCS+=( "${DISTDIR}"/${PN}-{user,ref}-${DOC_PV}.pdf )
fi
- # absent in 1.9
- #docinto f2py
- #dodoc numpy/f2py/docs/*.txt
- #doman numpy/f2py/f2py.1
+ distutils-r1_python_install_all
+
+ docinto f2py
+ dodoc doc/f2py/*.txt
+ doman doc/f2py/f2py.1
}
