math/mathgl2.5_9

*/*: CMake 4.5 compatibility

PR:	295319

*/*: bump PORTREVISION after switching to NumPy 2.x

*/*: Switch to NumPy 2.x

PR:		294328
Exp-run:	antoine

python.mk: retire ${PYNUMPY}

With both math/py-numpy (2) and math/py-numpy1, the variable stopped
making sense. Also remove the upper version bound.

math/py-numpy: switch all consumers to math/py-numpy1

...and bump PORTREVISIONs of consumers with hard RUN_DEPENDS

PR: 281470

*/*: chase math/gsl update to 2.8

PR:		292499

*/*: Update WWW to use HTTPS for sourceforge.net projects

Homepage link is permanent redirected to its HTTPS counterpart
Issue reported by repology : https://repology.org/repository/freebsd/problems

Approved by:	portmgr (blanket)
PR:		274888

*/*: Bump jpeg-turbo users treewide

New major version 3.0.0

math/mathgl: Fix build with llvm16

- Pet portclippy

Approved by:	portmgr (blanket)
Sponsored by:	The FreeBSD Foundation

*: Bump PORTREVISIONs for math/mpc update to 1.3.1

math/mathgl: Broken on armv7

Reported by:	fallout

math/mathgl: unbreak build after print/libharu update to 2.4.3 (+)

Backport patch from upstream
While here, apply dos2unix conversion
Bump PORTREVISION

Mk/Uses: always use colon for build/run suffix

Most USES use a colon for build/run(/test) suffixes. Change kde.mk,
qt.mk and pyqt.mk to do the same, and update all ports using that.

Document in CHANGES.

PR:			266034
Exp-run by:		antoine
Approved by:		tcberner (mentor)
Differential Revision:	https://reviews.freebsd.org/D36349

Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)

Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (tcberner)

science/hdf5: bump PORTREVISION of consumers

The SO-version increased in the update to 1.12.2 in
a43418b81530f7e897abfbe18dd59f44265a1a0f .

Reported by:	VVD <vvd@unislabs.com>

*/*: Replace science/szip with science/libaec

- Bump PORTREVISION of dependent ports for dependency change

szip does not allow redistribution in binary form without proper commercial
license. Its LICENSE_PERMS should be set to no-auto-accept which blocks building
this port, therefore building dependent ports are also blocked. Switch all
dependent ports to science/libaec to avoid conflicts and license issue.

PR:		228743, 246097, 250165

math/gsl: bump portrevision of consumers after update to 2.7.1

PR:		260201

math/mathgl: Update 2.4.4 -> 2.5

Reported by:	portscout

graphics/mesa-libs: Bump reverse deps for libglvnd

Per discussion with bapt on helping pkg handle the changing of these
deps and avoiding impossible upgrade senarios.

PR:		246767
Reviewed by:	manu, bapt
Approved by:	x11
Differential Revision:	https://reviews.freebsd.org/D30824

math/gsl: update to 2.7

From [1]

* What is new in gsl-2.7:
	* fixed doc bug for gsl_histogram_min_bin (lhcsky at 163.com)
	* fixed bug #60335 (spmatrix test failure, J. Lamb)
	* fixed bug #36577
	* clarified documentation on interpolation accelerators (V. Krishnan)
	* fixed bug #45521 (erroneous GSL_ERROR_NULL in ode-initval2, thanks to M. Sitte)
	* fixed doc bug #59758
	* fixed bug #58202 (rstat median for n=5)
	* added support for native C complex number types in gsl_complex
	   when using a C11 compiler
	* upgraded to autoconf 2.71, automake 1.16.3, libtool 2.4.6
	* updated exponential fitting example for nonlinear least squares
	* added banded LU decomposition and solver (gsl_linalg_LU_band)
	* New functions added to the library:
	      - gsl_matrix_norm1
	      - gsl_spmatrix_norm1
	      - gsl_matrix_complex_conjtrans_memcpy
	      - gsl_linalg_QL: decomp, unpack
	      - gsl_linalg_complex_QR_* (thanks to Christian Krueger)
	      - gsl_vector_sum
	      - gsl_matrix_scale_rows
	      - gsl_matrix_scale_columns
	      - gsl_multilarge_linear_matrix_ptr
	      - gsl_multilarge_linear_rhs_ptr
	      - gsl_spmatrix_dense_add (renamed from gsl_spmatrix_add_to_dense)
	      - gsl_spmatrix_dense_sub
	      - gsl_linalg_cholesky_band: solvem, svxm, scale, scale_apply
	      - gsl_linalg_QR_UD: decomp, lssolve
	      - gsl_linalg_QR_UU: decomp, lssolve, QTvec
	      - gsl_linalg_QR_UZ: decomp
	      - gsl_multifit_linear_lcurvature
	      - gsl_spline2d_eval_extrap
	* bug fix in checking vector lengths in gsl_vector_memcpy (dieggsy@pm.me)
	* made gsl_sf_legendre_array_index() inline and documented
	      - gsl_sf_legendre_nlm()

[1] http://git.savannah.gnu.org/cgit/gsl.git/tree/NEWS

PR:		256423
Exp-run by:	antoine

One more small cleanup, forgotten yesterday. Reported by:	lwhsu

Remove # $FreeBSD$ from Makefiles.

math/mathgl: Doesn't generally need python, so USES=python is removed

Move devel/swig30 to devel/swig and update to 4.0.1

- Do not silence installation message
- Update dependent ports:
  - Fix build with swig 4.0.1
  - Update *_DEPENDS
  - Remove BINARY_ALIAS

Changes:	http://www.swig.org/news.php
PR:		246613
Exp-run by:	antoine

- Update net/openmpi to 4.0.3 (openmpi 1 is deprecated) - Remove option for net/openmpi2 from science/pnetcdf (net/openmpi2 is deprecated and will be removed) - Fix science/gromacs plist when MPI option is enabled - Bump PORTREVISION for all the consumers of net/openmpi

Deprecate a few ports

With hat:	portmgr

Add USES=xorg USES=gl, ports categories m

Add USES=xorg and USES=gl to ports in categories starting with 'm'
While here, try to sprinkle other USES (mostly gnome and sdl) as needed.

math/gsl: update to 2.6

- math/p5-Math-GSL does not seem to have any upstream activity to make it work with this version -> mark it broken
  - this also breaks the two consumers of this port

- biology/gemma: has a conflict with cblas, and is makred broken.

PR:		241363
Exp-run by:	antoine

math/mathgl: Update 2.4.2.1 -> 2.4.4

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

Fix build on gcc-based architectures:

The compiler feature "cxx_decltype" is not known to CXX compiler

Approved by:	portmgr (tier-2 blanket)

Fix Qt5 symbol version scripts to put the catch-all clause first.  When a symbol matches multiple clauses the last one takes precedence.  If the catch-all is last it captures everything.  In the case of Qt5 libraries this caused all symbols to have a Qt_5 label while some should have Qt_5_PRIVATE_API.  This only affects lld because GNU ld always gives the catch-all lowest priority.

Older versions of Qt5Webengine exported some memory allocation symbols from
the bundled Chromium.  Version 5.9 stopped exporting these [1] but the
symbols were kept as weak wrappers for the standard allocation functions to
maintain binary compatibility. [2][3]  The problem is that the call to the
standard function in these weak wrappers is only resolved to the standard
function if there's a call to this standard function in other parts of
Qt5Webengine, because only then is there a non-weak symbol that takes
precedence over the weak one.  If there's no such non-weak symbol the call
in the weak wrapper resolves to the weak wrapper itself creating an infinite
call loop that overflows the stack and causes a crash.  Some of the
allocation functions are variants of C++ new and delete and it probably
depends on the compiler whether these variants are used in other parts of
Qt5Webengine.

Remove the weak wrappers (make them Linux specific).  This isn't binary
compatible but we are already breaking that with the changes to the symbol
versions.

[1] https://github.com/qt/qtwebengine/commit/5c2cbfccf9aafb547b0b30914c4056abd25942a4
[2] https://github.com/qt/qtwebengine/commit/2ed5054e3a800fa97c2c9e920ba1e6ea4b6ef2a5
[3] https://github.com/qt/qtwebengine/commit/009f5ebb4bd6e50188671e0815a5dae6afe39db5

Bump all ports that depend on Qt5.

PR:		234070
Exp-run by:	antoine
Approved by:	kde (adridg)

Update science/hdf5 to 1.10.4

- Bump PORTREVISION of dependent ports for shlib change

Changes:	https://portal.hdfgroup.org/display/support/HDF5%201.10.4#releasenotes
PR:		233070
Submitted by:	wen

Change cmake default behaviour to outsource.

Ports that build out of source now simply can use "USES=cmake"
instead of "USES=cmake:outsource". Ports that fail to build
out of source now need to specify "USES=cmake:insource".

I tried to only set insource where explictely needed.

PR:		232038
Exp-run by:	antoine

Update science/hdf5 to 1.10.2

- Bump PORTREVISION of dependent ports for shlib change

Changes:	https://portal.hdfgroup.org/display/support/HDF5%201.10.2#releasenotes
		https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.2/src/hdf5-1.10.2-RELEASE.txt
PR:		231009
Exp-run by:	antoine

Replace bsd.qt.mk by Uses/qt.mk and Uses/qt-dist.mk

From now on, ports that depend on Qt4 will have to set
	USES=		qt:4
	USE_QT=		foo bar
ports depending on Qt5 will use
	USES=		qt:5
	USE_QT=		foo bar

PR:		229225
Exp-run by:	antoine
Reviewed by:	mat
Approved by:	portmgr (antoine)
Differential Revision:	→https://reviews.freebsd.org/D15540

Update math/gsl to 2.5

PR:		229067

Canonicalize dependency on libpng

math/mathgl: Update 2.4.2 -> 2.4.2.1

Bugfix version.

Reported by:	portscout

math/mathgl: Update to 2.4.2

Reported by:	portscout

New port: math/mathgl: Library for high-quality scientific data visualization

Approved by:	tcberner (mentor, implicit)
Differential Revision:	https://reviews.freebsd.org/D12887