science/openmx: update 3.8.5 → 3.9.9

*/*: chase the upgrade of BLAS / LAPACK to 3.12.0

PR:		275860

*/*: bump PORTREVISION after the upgrade of MPICH to 4.1.2

*: Bump PORTREVISIONs for math/mpc update to 1.3.1

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.

science/openmx: Cleanup - remove unnecessary lines

Reported by:	gerald

science/openmx: Remove $FreeBSD$

When this port was resurrected the $FreeBSD$ marker was resurrected,
too, while we globally had abandoned it in the meantime.

science/openmx: Re-add port: Nanoscale material simulations using density
functional theories (DFT)

It isn't unfetchable.

Remove expired ports:

Adjusted for ports rescued since r534032

2020-05-05 audio/festvox-czech: Broken for more than 6 months
2020-05-05 audio/gkrellmvolume2: Broken for more than 6 months
2020-05-05 audio/mixmos: Broken for more than 6 months
2020-05-05 audio/mma: Broken for more than 6 months
2020-05-05 audio/pd-cyclone: Broken for more than 6 months
2020-05-05 audio/shorten: Broken for more than 6 months
2020-05-05 audio/taglib-sharp: Broken for more than 6 months
2020-05-05 audio/xhippo: Broken for more than 6 months
2020-05-05 biology/consed: Broken for more than 6 months
2020-05-05 biology/plinkseq: Broken for more than 6 months
2020-05-05 biology/seqtools: Broken for more than 6 months

Deprecate ports broken for more than 6 months

Drop dependency on devel/openmp

- Drop if devel/llvm* was used as a substitute

Approved by:	yuri, rene (earlier version)
Differential Revision:	https://reviews.freebsd.org/D23020

Resurrect ports depending on devel/openmp.

These ports will transition transparantly to openmp from base once
FreeBSD 12.0 reaches end-of-life.

Reported by:	jbeich [1] [2]

[1] https://lists.freebsd.org/pipermail/svn-ports-head/2019-May/210482.html
[2] https://lists.freebsd.org/pipermail/svn-ports-head/2019-December/229648.html

Remove expired ports:

2019-12-31 accessibility/linux-c6-atk: Superseded by CentOS 7
2019-12-31 audio/exaile-devel: this port is older than audio/exaile
2019-12-31 audio/linux-c6-alsa-lib: Superseded by CentOS 7
2019-12-31 audio/linux-c6-alsa-plugins-oss: Superseded by CentOS 7
2019-12-31 audio/linux-c6-alsa-plugins-pulseaudio: Superseded by CentOS 7
2019-12-31 audio/linux-c6-alsa-utils: Superseded by CentOS 7
2019-12-31 audio/linux-c6-flac: Superseded by CentOS 7
2019-12-31 audio/linux-c6-libaudiofile: Superseded by CentOS 7
2019-12-31 audio/linux-c6-libogg: Superseded by CentOS 7
2019-12-31 audio/linux-c6-libsndfile: Superseded by CentOS 7
2019-12-31 audio/linux-c6-libvorbis: Superseded by CentOS 7
2019-12-31 audio/linux-c6-mikmod: Superseded by CentOS 7
2019-12-31 audio/linux-c6-nas-libs: Superseded by CentOS 7

Mark a few ports BROKEN (unfetchable)

devel/openmp: update to 9.0.0

- Connect tests to the framework to help QA remaining patches
- Force rebuild all consumers after https://reviews.llvm.org/D59783

Changes:	http://llvm.org/viewvc/llvm-project/openmp/tags/RELEASE_900/final/?view=log
ABI:		https://abi-laboratory.pro/tracker/timeline/llvm_openmp/

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

Chase devel/openmp expiration

science/openmx: Unbreak on 13: /usr/lib/libomp.so conflicting with the 'openmp'
package has been added to 13-CURRENT

LIB_DEPENDS=libomp.so:devel/openmp now causes this problem in multiple ports.

Reported by:	fallout

devel/openmp: phase out

- Expire after the last version without /usr/lib/libomp.so
- Drop SOVERSION for seamless transition (i.e., avoid conditionals)

PR:		236907
Approved by:	bapt (maintainer)
Differential Revision:	https://reviews.freebsd.org/D19767

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 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

Change 20 ports from net/mpich2 to net/mpich

mpich2 is the obsolete version 2.x, mpich is at the current version 3.x

Ports:
math/scalapack science/nwchem science/quantum-espresso science/qmcpack
science/madness
science/qbox science/openmx science/jdftx science/fleur science/libgridxc
science/mdynamix science/lm science/dftbplus science/py-gpaw devel/ga
math/elpa net/charm science/gromacs math/pari math/arpack-ng-mpich

science/openmx: BROKEN on i386 pending the llvm bug resolution

Reported by:	fallout

New port: science/openmx: Nanoscale material simulations using density
functional theories (DFT)