math/py-numpy: revert obsolete commit 507c189b28

The sched_getaffinity() function in the C library returned a different
error code than expected (i.e. other than returned by GLIBC) if the
requested CPU set size did not match the one expected by the system.

The error code has been changed from ERANGE to EINVAL as expected by
the wrapper for os.sched_getaffinity() in Python, obsoleting the patch
that commented out the failing function call in setup.py.

math/py-numpy: work around build issue on -CURRENT

A sched_getaffinity function has been added to -CURRENT and the
Python build detects it presence and provides a Python function
os.sched_getaffinity().

Apparently the C library function is not correctly wrapped and
returns an out of buounds result.

Comment out the call of os.sched_getaffinity() call until this
function works correctly in the Python interpreter.

No port revision bump, since this is just a temporary fix for the
broken build on -CURRENT.

Reported by:	antoine

math/py-numpy: Update to 1.20.3

PR:		259063
Reported by:	wen@
Exp-run by:	antoine@

math/py-numpy: Add CPE information

Approved by:    portmgr (blanket)

math/py-numpy: mark as not compatible with python 3.10

Approved by:	portmgr blanket

math/py-numpy: Fix typo

- Bump PORTREVISION for package change

PR:		257396

math/suitesparse: adapt dependency lines after modularization

Do not bump PORTREVISION, because this should not change the resulting
packages.

Note for maintainers: try to not depend on the whole suitesparse package,
especially if your port do not require GraphBLAS (the biggest one).

*: Bump a few ports after the Python 3.7 to 3.8 switchover

Bump the PORTREVISION of the following ports as the concurrent symlinks
change with a new default version of Python:

* devel/py-setuptools
* lang/cython
* math/py-numpy

This is a follow-up to 6cd3db2d03cc544c5893e41dbbacd2000fcbd35a .

PR:		253815
Approved by:	kai (python, maintainer)

Remove # $FreeBSD$ from Makefiles.

Remove python 2.7 support from a few ports

math/py-numpy@py39: fix build on GCC architectures

cc1: error: unrecognized command line option "-Wno-unused-result"

Update to 1.16.6

Changes:	https://github.com/numpy/numpy/releases
PR:		246395
Exp-run by:	antoine

Bump 37 ports depending on math/openblas through USES=blaslapack:openblas
because after the recent math/openblas update the library name changed in
openblas

math/py-numpy: improve patch to fix build with OpenBlas

This patch adds openblas to the list of cblas compatible libs instead

PR:		243497
Submitted by:	John Hein <jcfyecrayz@liamekaens.com>

Fix math/openblas and bump dependent ports

* Fix build on i386 [1]
* Fix science/code_saturne build with new openblas [2]
* Avoid installing private headers [3]
* Prevent build from optimizing for host by correcting build confg [4]
* Bump portrevision of dependent ports [5]

This is correcting issues from r523749 [1][2][4] and r515970 [3]

PR:		231371
Reported by:	build cluster [1]
Reported by:	Dima Pasechnik <dimpase+freebsd@gmail.com> [2]
Reported by:	many [5]
Reviewed by:	mat, bapt
Approved by:	implicit, since this is a build fix

math/py-numpy: fix build when math/blas is installed

PR:		243497
Submitted by:	rsmith@xs4all.nl

math/openblas: Update to 0.3.7

While here, improve formatting and fix build of dependant ports.

PR:		231371
Submitted by:	yuri (initial version), pkubaj (ppc fixes)
Approved by:	Eijiro Shibusawa <phd_kimberlite@yahoo.co.jp> (maintainer)

Bump PORTREVISION after r520219

math/py-numpy: switch to OpenBLAS by default

Besides being faster consistently using the same BLAS implementation
should improve stability in case of accidental ABI mismatch.

PR:		240937
Approved by:	maintainer timeout (2 weeks)
MFH:		2019Q4

Update to 1.16.5

Changes:	https://github.com/numpy/numpy/releases
PR:		240424
Exp-run by:	antoine

Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330

Update to 1.16.4

Changes:	https://github.com/numpy/numpy/releases
PR:		238964
Exp-run by:	antoine

Related to revision 499061 bump ports with USES=fortran to have them
benefit from the improved situation where libgcc_s is only used when
absolutely necessary.

Suggested by:	tijl

Bump a few PORTREVISIONs after r498529

With hat:	portmgr

Remove no-op TESTS_DESC

- Update pkg-descr

Update to 1.16.1

- Move TEST_DEPENDS upward
- Simplify Makefile

Changes:	https://github.com/numpy/numpy/releases
PR:		235721
Exp-run by:	antoine

Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 under most circumstances.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, as a double check, everything INDEX-11 showed depending on lang/gcc7.

PR:		231590

Update to 1.15.4

Changes:	https://github.com/numpy/numpy/releases
PR:		233643
Exp-run by:	antoine

Update MASTER_SITES and WWW

Update to 1.15.1

- Change MASTER_SITES to CHEESESHOP
- Use bsd.port.mk instead of bsd.port.pre.mk + bsd.port.post.mk

Changes:	https://github.com/numpy/numpy/releases
PR:		231664
Exp-run by:	antoine

math/py-numpy: update to 1.15.0

- update to 1.15
- convert to autoplist
- follow upstream change from nose test framework to pytest

Release notes:
https://github.com/numpy/numpy/releases/tag/v1.15.0

PR:		230094
Submitted by:	wen
Exp-run by:     antoine

Bump PORTREVISION for ports depending on the canonical version of GCC
in the ports tree (via Mk/bsd.default-versions.mk and lang/gcc) which
has now moved from GCC 6 to GCC 7 by default.

This includes ports
 - featuring USE_GCC=yes or USE_GCC=any,
 - featuring USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and those
 - with USES=compiler specifying one of openmp, nestedfct, c11, c++0x,
   c++11-lib, c++11-lang, c++14-lang, c++17-lang, or gcc-c++11-lib.

PR:		222542

Use PY_FLAVOR for dependencies.

FLAVOR is the current port's flavor, it should not be used outside of
this scope.

Sponsored by:	Absolight

- Update to 1.14.3

PR:		228230
Submitted by:	wen@(myself)
Exp-run by:	antoine@

math/suitesparse: Update 4.0.2 -> 5.2.0

Port changes:
* Change to DISTVERSION
* Update MASTER_SITES
* Change to LICENSE_COMB=dual
* Add LIB_DEPENDS
* Unbundle metis, made it a dependency
* Update do-build and do-install
* Update WWW

Bump 11 ports.
games/naev is marked broken because it depends on the no longer installed
library.

PR:		210579
Submitted by:	yuri
Submitted by:	pfg
Approved by:	maintainer timeout (maho@FreeBSD.org, 21 months)
Approved by:	maintainer timeout (fortran@FreeBSD.org, 45 days)

Bump PORTREVISIONs of all users of math/mpc that we just updated to
version 1.1.0 (via revision 464079).

Cosmetic change

exec_command.py states in comments it uses /bin/sh on POSIX for subprocess but
incorrectly uses shell from environment. This makes compiles fail when
compilation is done using the account 'nobody' which is default on pkg-fallout
runs.

PR:		ports/225156
Submitted by:	self
Reported by:	self
Reviewed by:	antoine
Approved by: 	antoine

Enhance USES=uniquefiles to be more generic.

This allows to have more complex renaming schemes.  Until now, it could
only add a prefix or a suffix, but this was not working at all for man
pages, because it would give man/man1/pyfoo.1.gz-2.7 or
man/man1/pyfoo-1-2.7.gz.  With this change, a man page will be correctly
renamed to man/man1/pyfoo-2.7.1.gz.

Unfix ports that were already handling man pages.

PR:		220214
Submitted by:	Fukang Chen (previous patch)
Exp-run by:	antoine
Sponsored by:	Absolight
Differential Revision:	https://reviews.freebsd.org/D13444

Convert Python ports to FLAVORS.

  Ports using USE_PYTHON=distutils are now flavored.  They will
  automatically get flavors (py27, py34, py35, py36) depending on what
  versions they support.

  There is also a USE_PYTHON=flavors for ports that do not use distutils
  but need FLAVORS to be set.  A USE_PYTHON=noflavors can be set if
  using distutils but flavors are not wanted.

  A new USE_PYTHON=optsuffix that will add PYTHON_PKGNAMESUFFIX has been
  added to cope with Python ports that did not have the Python
  PKGNAMEPREFIX but are flavored.

  USES=python now also exports a PY_FLAVOR variable that contains the

Update to 1.13.3

- Simplify MASTER_SITES
- Silence patch messages
- Fix symbolic link to avoid absolute path

Changes:	https://github.com/numpy/numpy/releases
PR:		222856
Exp-run by:	antoine

Bump PORTREVISION for ports depending on the canonical version of GCC
(via Mk/bsd.default-versions.mk and lang/gcc) which has moved from
GCC 5.4 to GCC 6.4 under most circumstances.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c++11-lib, c++11-lang,
   c++14-lang, c++0x, c11, or gcc-c++11-lib.

PR:		219275

Fix packaging with python3*, PYTHON_PYOEXTENSION and py3kplist should not
be used together

PR:		220986
With hat:	portmgr

Don't add the distfile twice.

This fixes a fetch error:

  => numpy-numpy-v1.13.1_GH0.tar.gz doesn't seem to exist in
  /portdistfiles/.
  => Attempting to fetch
 
https://codeload.github.com/numpy/numpy/tar.gz/v1.13.1?dummy=/numpy-numpy-v1.13.1_GH0.tar.gz
  fetch: 4336552: No such file or directory
  numpy-numpy-v1.13.1_GH0.tar.gz                           0  B    0  Bps
  => Attempting to fetch
  http://distcache.FreeBSD.org/ports-distfiles/numpy-numpy-v1.13.1_GH0.tar.gz
  fetch: 4336552: No such file or directory
  => Couldn't fetch it - please try to retrieve this
  => port manually into /portdistfiles/ and try again.

Sponsored by:	Absolight

- Update MASTER_SITES, now get source from github and doc from docs.scipy.org
  (Based on PR/181285)

- Update to 1.13.1

PR:		220986
Submitted by:	wen@(myself)
Exp-run by:	antoine@

Bump PORTREVISIONs for ports depending on the canonical version of GCC and
lang/gcc which have moved from GCC 4.9.4 to GCC 5.4 (at least under some
circumstances such as versions of FreeBSD or platforms).

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using using Mk/bsd.octave.mk which in turn has USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c++11-lib, c++14-lang,
   c++11-lang, c++0x, c11, or gcc-c++11-lib.

PR:		216707

- Remove dependency on math/openblas if other blas lib is selected

PR:		215764
Submitted by:	riggs@

Bump PORTREVISIONS for ports depending on the canonical version of GCC and
lang/gcc which have moved from GCC 4.8.5 to GCC 4.9.4 (at least under some
circumstances such as versions of FreeBSD or platforms), part II.

The first part covered  ports with USE_GCC=yes, USE_GCC=any, or one of
gcc-c++11-lib, openmp, nestedfct, c++11-lib as well as c++14-lang,
c++11-lang, c++0x, c11 requested via USES=compiler.

This adds ports with USES=fortran and ports using Mk/bsd.octave.mk
which in turn has USES=fortran.

PR:		214965
Reported by:	thierry

Update to 1.11.2

Changes:
https://github.com/numpy/numpy/blob/v1.11.2/doc/release/1.11.2-notes.rst

- Update to 1.11.1
- Adjust dependencies, 'numpy/core/multiarray.so' is also linked to
math/openblas (reported by QA script)
- Add patches in order to detect 'sys/endian.h' header

Remove ${PORTSDIR}/ from dependencies, categories m, n, o, and p.

With hat:	portmgr
Sponsored by:	Absolight

Update to 1.11.0

Changes: https://github.com/numpy/numpy/blob/master/doc/release/1.11.0-notes.rst

- Update to 1.10.4
- Remove DOCVERSION (use SF host to fetch PDF documentation, more up-to-date
than SciPy.org)

Changes: https://github.com/numpy/numpy/blob/master/doc/release/1.10.4-notes.rst

- Update to 1.10.2
- Reintroduce DOCVERSION variable, PDF documentation is not synchronized with
release
- Add missing dependency [1] for NETLIB option

PR:		203638 [1]
Submitted by:	John Hein [1]

- Update to 1.10.1
- Add SF to MASTER_SITES
- Add LICENSE_FILE
- Remove DOCVERSION

Changes:	https://github.com/numpy/numpy/blob/master/doc/release/1.10.1-notes.rst

- Update MASTER_SITES
- Update documentation to 1.10.0
- Bump PORTREVISION for package change

Unbreak build on FreeBSD 9

Reported by:	pkg-fallout, <soralx@cydem.org> (private email)

Update to 1.10.0

- Convert to new options target helper
- Cosmetic change

Depend on a particual file, not an executable so it picks up a correct
python version.

PR:		198989
Submitted by:	John W. O'Brien <john@saltant.com>

Allow to use OpenBLAS implementation of BLAS.
Based on the work done by Eijiro Shibusawa <phd_kimberlite@yahoo.co.jp>,
OpenBLAS port maintainer.

Hide py-nose dependency under new TESTS option.
Convert to USES=blaslapack.

Differential Revision:	D2060
Reviewed by:	koobs, thierry

Update to version 1.9.2.
This is minor bugfix release, see notes at
http://sourceforge.net/projects/numpy/files/NumPy/1.9.2/

- Tiny fix to f2py2e.py to allow it to deal with -fstack-protector flag
  as without this fix, f2py will attempt to compile -fstack-protector

Submitted by:	db
Reviewed by:	wg
Approved by:	wg

Update to version 1.9.1

Phabric:	D998

Fix
ImportError: /lib/libgcc_s.so.1: version GCC_4.6.0 required by
/usr/local/lib/gcc48/libgfortran.so.3 not found
error when importing numpy module.

PR:		188114
Patch by Thierry Thomas <thierry@FreeBSD.org>

Update the default version of GCC in the Ports Collection from GCC 4.7.4
to GCC 4.8.3.

Part II, Bump PORTREVISIONs.

PR:		192025
Tested by:	antoine (-exp runs)
Approved by:	portmgr (implicit)

- Add DOCS to OPTIONS_DEFINE
- Convert to new options helper

- Convert USE_PYTHON to USES=python
- Enable math/py-numpy to be installed for different Python versions
  concurrently

Phabric:	D599
Reviewed by:	db
With hat:	python@

math/py-numpy: Use INSTALLS_EGGINFO, fixes pkg_resources detection

Python packages installs .egg-info metadata directories when
--single-version-externally managed is specified, as the Python ports
framework does currently for all ports when USE_PYDISTUTILS is defined.

In this case the py-numpy port does *not* currently define
PYDISTUTILS_AUTOPLIST nor INSTALLS_EGGINFO, which precludes the contents of
the add-plist-egginfo: target from being executed.

This results in an .egg-info metadata directory being built, and staged, but
not installed.

Correctly specify INSTALLS_EGGINFO to compensate.

Additionally add an "Open" Goal Wiki entry [1] to look at automatically
detecting the
presence of .egg-info metadata directories, since all ports leveraging
USE_PYDISTUTILS also use the --record mechanism for generating installed
file lists, and potentially deprecating INSTALLS_EGGINFO and related variables.

[1] https://wiki.freebsd.org/Python#Goals

PR:		191865
Submitted by:	 John W. O'Brien <john at saltant dot com>

Update to version 1.8.1.

- Fix compiler now that -Wl,B has been added to fortran link args

Submitted by:	me

Replace TABs with spaces, otherwise it breaks with python-3.

Update the default version of GCC used in the Ports Collection from
GCC 4.6.4 to GCC 4.7.3.  This entails updating the lang/gcc port as
well as changing the default in Mk/bsd.default-versions.mk.

Part II, Bump PORTREVISIONs.

PR:		182136
Supported by:	Christoph Moench-Tegeder <cmt@burggraben.net> (fixing many ports)
Tested by:	bdrewery (two -exp runs)

Fix path.

Respect FFLAGS.

Submitted by:	wg
Tested by:	gerald

- this change sneaked in by accident. Reverting that.

- clean-up WITH_FIXED_FENV conditional, because it is only used for
  versions of FreeBSD, we not support anymore.
- remove LATEST_LINK. There is PYTHON_PKGNAMEPREFIX set and in future
  we may have this package built against different python versions.

Convert all USE_FORTRAN=yes to "USES=fortran, USE_GCC=yes".  In most cases
USE_GCC=yes has been omitted though.

Remove USE_FORTRAN handling from bsd.port.mk and bsd.gcc.mk.

Minor cleanups in some ports like USE_GMAKE, NOPORTDOCS,...

Exp-run:	bdrewery
Approved by:	portmgr (bdrewery)

- update to 1.8.0
- clarify LICENSE (BSD3C)
- suppor staging

while here:
- utilize PYTHON_PY3K_PLIST_HACK
- install docs uncoditionally into stage area
- convert LIB_DEPENDS to the new notation
- sort packing list

PR:		186677
Submitted by:	Johannes Jost Meixner <xmj@chaot.net>

Reset maintainer for llwang@infor.org

Reset maintainership for llwang@infor.org due to multiple timeouts and email
address permanent failure. Return all ports to the free pool except
py-numpy, which is taken under the wing of the python@ team.

We thank you for your contribution to the FreeBSD project

Approved by:	portmgr

math/py-numpy: Remove Atlas WITH_STATIC notification using ECHO_MSG

Shell commands can't be used in a Makefile without a target. Remove the atlas
WITH_STATIC messaging until a more suitable mechanism can be found.

PR:		ports/184775
Reported by:	Roland Smith <rsmith@xs4all.nl>

math/py-numpy: Add missing ending quotation to ECHO_MSG

Add a missing ending quotation from the last ECHO_MSG command added in r336423.

PR:		ports/184775
Reported by:	Roland Smith <rsmith@xs4all.nl>

math/py-numpy: Fix static library check that assumes atlas is installed

- Use BUILD_DEPENDS to check for the atlas static library at pre-build
  time instead of checking if the file exists (False if atlas is not
  installed)

- Replace IGNORE with a message to the user notifying them that
  an atlas install WITH_STATIC is needed, and provide clues as possible
  actions without being too prescriptive.

As discussed with eadler@, a correct resolution to "ports depending on other
ports with specific OPTIONS" is either an atlas slave port
(ie: atlas-static), or to modify atlas to install both shared and static
libraries.

This change is a net gain on the existing broken behaviour, by fixing
the check, while retaining the user notification.

PR:		ports/178094
Reviewed by:	jhibbits, eadler
Approved by:	maintainer timeout (7+ months)

Update to libmpc version 1.0.1 which brings the following fixes:

 - Switched to automake 1.11.6, see CVE-2012-3386.
 - #14669: Fixed extraction of CC from gmp.h.
 - Fixed case of intermediate zero real or imaginary part in mpc_fma,
   found by hydra with GMP_CHECK_RANDOMIZE=1346362345.

This is on top of the following changes from version 1.0

 - Licence change towards LGPLv3+ for the code and GFDLv1.3+ (with no
   invariant sections) for the documentation.
 - 100% of all lines are covered by tests
 - Renamed functions
   . mpc_mul_2exp to mpc_mul_2ui
   . mpc_div_2exp to mpc_div_2ui

Add NO_STAGE all over the place in preparation for the staging support (cat:
math)

Add missing files to plist;
Fix plist (hopefully) so it fits both python33 and python2.

Fix DISTFILES for docs.

Noted by:	Rainer Hurling <rhurlin@gwdg.de>

Update to version 1.7.0 (and unbreak with python-3.3).

PR:		178256
Submitted by:	Roland Smith <rsmith@xs4all.nl>
Approved by:	maintainer

- Fix all cases of 'No newline at end of file' in ports tree

Approved by: portmgr (bapt)

- Remove automatic dependency to SuiteSparse; use OPTIONS instead
- Change to new OPTIONS style

PR:		ports/171349
Submitted by:	Li-Lun Wang <llwang@infor.org> (maintainer)
Reported by:	A.J. Kehoe IV (Nanoman)

- Restore distinfo of fenv.c/fenv.h for older FreeBSD which were removed in the
commit of 1.6.2 update

PR:		ports/170224
Submitted by:	Li-Lun Wang <llwang@infor.org>

- Update to 1.6.2
- Add LICENSE

PR:             169162
Submitted by:   koobs <koobs.freebsd@gmail.com>
Approved by:    maintainer

- Support for -Wl,rpath= in f2py, now passed by bsd.gcc.mk
- Fix build for comms/wsjt

PR:             ports/164479
Submitted by:   maintainer
Approved by:    gabor (mentor)

- Update to 1.6.1

PR:             162894
Submitted by:   Gereon Kaiping <kta1c10!gereon@linta.de>
Approved by:    "Li-Lun Leland Wang" <llwang@infor.org> (maintainer)
Feature safe:   yes

adjust linking and comments in dependent ports after the math/atlas update;
math/atlas-devel will be updated to use the same constructs at a later date

PR:             162706
Approved by:    miwi (portmgr)
Feature safe:   yes

- Update math/py-numpy to reflect changes in math/atlas
- Bump PORTREVISION
- Fix build for science/py-scipy

PR:             ports/161400
Submitted by:   Li-Lun Wang <llwang at infor.org> (maintainer)

- Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS)
- Fix all ports that add {CPP,LD}FLAGS to *_ENV to modify flags instead

PR:             157936
Submitted by:   myself
Exp-runs by:    pav
Approved by:    pav

- Slightly simplify the fenv fix, and note that FreeBSD
7.3 and 7.4 no longer need the fix after the MFC of r203441 on
17 February 2010

- While here, remove MD5 checksums in distinfo

PR:             154742
Approved by:    makc, miwi (mentors, implicit)
                Li-Lun Wang (maintainer)

Update to 1.5.1
Fix doc checksum mismatch

PR:             ports/152715
Submitted by:   Li-Lun Wang (llwang@infor.org) (maintainer)
Approved by:    itetcu (mentor) (implicit)