science/pnetcdf 1.15.1

science/pnetcdf: Update to 1.15.1

Changes:	https://github.com/Parallel-NetCDF/PnetCDF/blob/master/RELEASE_NOTES
		https://github.com/Parallel-NetCDF/Parallel-NetCDF.github.io/tree/master/Release_notes

science/pnetcdf: Update to 1.15.0

- Remove my LOCAL from MASTER_SITES
- Bump PORTREVISION of dependent ports for shlib change

Changes:	https://github.com/Parallel-NetCDF/PnetCDF/blob/master/RELEASE_NOTES
		https://github.com/Parallel-NetCDF/Parallel-NetCDF.github.io/tree/master/Release_notes

*/*: bump PORTREVISION after the upgrade of MPICH

science/pnetcdf: Remove USES=pathfix

science/pnetcdf: Update to 1.14.1

- Bump PORTREVISION of dependent ports for shlib change

Changes:	https://github.com/Parallel-NetCDF/PnetCDF/blob/master/RELEASE_NOTES
		https://github.com/Parallel-NetCDF/Parallel-NetCDF.github.io/tree/master/Release_notes

science/pnetcdf: Add LICENSE

science/pnetcdf: Update to 1.14.0

- Add mpich and openmpi flavors

Changes:	https://github.com/Parallel-NetCDF/PnetCDF/blob/master/RELEASE_NOTES
		https://github.com/Parallel-NetCDF/PnetCDF/commits/master

*/*: Remove GNU_CONFIGURE_MANPREFIX=${PREFIX}/share after 9fd7ee1cdf6cbd5528159b58a966e1a40e2909a9

science/pnetcdf: Clean up Makefile

science/pnetcdf: Update WWW and clean up pkg-descr

science/pnetcdf: Update manpage location (003a571d1d6585196545295efc181514f171c4c4, r523104)

*/*: bump PORTREVISION after OpenMPI upgrade

*: 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.

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/pnetcdf: Remove outdated post-patch:

science/pnetcdf: fix build on non amd64 / i386 architectures

1. Set the default to OPENMPI on everywhere to fix:
====> You must select one and only one option from the MPI single
=====> No option was selected (and one must be)
2. Then exclude it on other 32-bit architectures, not just i386.

science/pnetcdf: Fix build on i386

Use MPICH option for i386. PnetCDF requires MPI_Offset >= 8 but Open MPI sets
MPI_Offset to 4 on 32-bit architecture regardless of LFS. See
https://github.com/open-mpi/ompi/issues/3195 for details

science/pnetcdf: Clean up (should be part of 3100961a1a18df741ae58dd1394bb38e13fead88)

science: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Andreas Fehlner <fehlner@gmx.de>
  *  Brad Huntting <huntting@glarp.com>
  *  Chao Shin <quakelee@cn.FreeBSD.org>
  *  Cheng-Lung Sung <clsung@FreeBSD.org>
  *  Chia-Hsing Yu <me@davidyu.org>
  *  Chris Rees <utisoft@gmail.com>
  *  David Naylor <dbn@FreeBSD.org>
  *  Dmitry Sivachenko <demon@FreeBSD.org>
  *  Ed Schouten <ed@FreeBSD.org>
  *  Eric Freeman <freebsdports@chillibear.com>
  *  Erik B Knudsen
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Frederic Culot <frederic@culot.org>
  *  Gea-Suan Lin <gslin@gslin.org>
  *  Glenn Johnson
  *  Greg Lewis <glewis@FreeBSD.org>
  *  Igor Serikov <iserikov@acm.org>
  *  Johannes Dieterich <dieterich@ogolem.org>
  *  Johannes Dieterich <jmd@FreeBSD.org>
  *  Johannes M Dieterich <jmd@FreeBSD.org>
  *  Johannes Meixner <johannes@perceivon.net>
  *  Ju Pengfei <jupengfei@gmail.com>
  *  Kay Lehmann <kay_lehmann@web.de>
  *  Klaus Aehlig <aehlig@linta.de>
  *  Kurt Kanzenbach <kurt@kmk-computers.de>
  *  Leland Wang <llwang@infor.org>
  *  Li-Lun Wang <llwang@infor.org>
  *  Markus Brueffer <markus@FreeBSD.org>
  *  NAKATA Maho <maho@FreeBSD.org>
  *  NAKATA, Maho <maho@FreeBSD.org>
  *  Nakata Maho <chat95@mbox.kyoto-inet.or.jp>
  *  Nakata Maho <maho@FreeBSD.org>
  *  Pav Lucistnik <pav@FreeBSD.org>
  *  Pav Lucistnik <pav@oook.cz>
  *  Pedro F. Giffuni
  *  Pedro F. Giffuni <giffunip@tutopia.com>
  *  Pedro Giffuni
  *  Pedro Giffuni <giffunip@asme.org>
  *  Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Rong-En Fan <rafan@FreeBSD.org>
  *  Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
  *  Seamus Venasse <svenasse@polaris.ca>
  *  Shin'ya Murakami <murakami@ahs.scitec.kobe-u.ac.jp>
  *  Shin-ya MURAKAMI <murashin@gfd-dennou.org>
  *  Shin-ya Murakami <murashin@gfd-dennou.org>
  *  Stas Timokhin <devel@stasyan.com>
  *  Stephen Montgomery-Smith <stephen@math.missouri.edu>
  *  Steve Wills <steve@mouf.net
  *  Steve Wills <steve@mouf.net>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@sunpoet.net>
  *  TAKATSU Tomonari <tota@FreeBSD.org>
  *  TAOKA Fumiyoshi
  *  Thierry Thomas <thierry@pompo.net>
  *  Tim Cas <ports@stdrand.com>
  *  Uffe Jakobsen <uffe@uffe.org>
  *  Veniamin Gvozdikov <vg@FreeBSD.org>
  *  Vsevolod Stakhov <vsevolod@highsecure.ru>
  *  Wen Heping <wen@FreeBSD.org>
  *  Wen Heping <wenheping@gmail.com>
  *  Wen heping <wenheping@gmail.com>
  *  Ying-Chieh Liao <ijliao@FreeBSD.org>
  *  Yuri Victorovich <yuri@rawbw.com>
  *  anholt@FreeBSD.org
  *  bacon@smithers.neuro.mcw.edu
  *  batman <batman@udel.edu>
  *  db
  *  gurkan@phys.ethz.ch
  *  ijliao
  *  jbacon
  *  maintainer.freebsd@xpoundit.com
  *  mi
  *  rafan@infor.org
  *  shurd@FreeBSD.org
  *  thierry@pompo.net
  *  will

With hat:	portmgr

science/pnetcdf: Update to 1.12.3

- Update MASTER_SITES
- Update WWW

Changes:	https://github.com/Parallel-NetCDF/Parallel-NetCDF.github.io/tree/master/Release_notes

Remove # $FreeBSD$ from Makefiles.

Simplify Makefile

- Use shared OPENMPI_DESC
- Remove OPENMPI3 option

Cosmetic change

Fix Makefile.

Update GCC_DEFAULT from 9 to 10.

A few (mostly Fortran-based) ports need to be patched because GCC 10
is stricter.  A handful of ports need to be restricted to GCC 9 because
they fail with 10.

5 ports still fail with GCC 10.  However, seeing as this work has been
ongoing since 2020-05-24, it is simply time to make the commit and
notify the affected maintainers.

While here, pet portlint (Makevar order).

PR:		246700
Submitted by:	gerald
Approved by:	antoine (after many, many, -exp runs)

- 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

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

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 from MPICH2 to MPICH option

- Bump PORTREVISION for dependency and package change

PR:		231634
Submitted by:	yuri

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

Add OPENMPI3 option

- Change default from OPENMPI to OPENMPI3
- Bump PORTREVISION for dependency change

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

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

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

Add OPENMPI2 option

Update to 1.8.1

Changes:	http://trac.mcs.anl.gov/projects/parallel-netcdf/wiki/ReleaseNotes-1.8.1

- Update DESTDIR support: use usptream patch with modified MANDIR (prefix/share/man -> prefix/man) - Update WWW: use https://

Obtained from:	http://trac.mcs.anl.gov/projects/parallel-netcdf/changeset/2745

- Update to 1.8.0

Changes:	http://trac.mcs.anl.gov/projects/parallel-netcdf/wiki/ReleaseNotes-1.8.0

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 1.7.0 - Use CONFLICTS_INSTALL instead of CONFLICTS - Convert to options target helper - Pet portlint: fix diff header of patch files - Sort PLIST

Changes:	http://trac.mcs.anl.gov/projects/parallel-netcdf/wiki/ReleaseNotes-1.7.0

Remove ${PORTSDIR}/ from dependencies, categories r, s, t, and u.

With hat:	portmgr
Sponsored by:	Absolight

- Update to 1.10.2

- Update to 1.10.0 - Add SLURM to OPTIONS_DEFAULT (it's enabled by default in the configure script)

- Update to 1.6.1

Changes:	http://trac.mcs.anl.gov/projects/parallel-netcdf/wiki/ReleaseNotes-1.6.1

- Update to 1.6.0

Changes:	http://trac.mcs.anl.gov/projects/parallel-netcdf/wiki/ReleaseNotes-1.6.0

- Update net/openmpi to 1.8.4

- Update net/openmpi from 1.8.2 to 1.8.3

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)