biology/ncbi-cxx-toolkit: update 28.0.10 → 28.0.11

Reported by:	portscout

biology/ncbi-cxx-toolkit: update 28.0.9 → 28.0.10

Reported by:	portscout

biology/ncbi-cxx-toolkit: Broken on 15 with clang-19; Update WWW

Reported by:	fallout

biology/ncbi-cxx-toolkit: update 28.0.8 → 28.0.9

Reported by:	portscout

biology/ncbi-cxx-toolkit: update 28.0.7 → 28.0.8

Reported by:	portscout

graphics/proj: Update to 9.4.1

biology/ncbi-cxx-toolkit: update 28.0.6 → 28.0.7

Reported by:	portscout

biology/ncbi-cxx-toolkit: update 28.0.5 → 28.0.6

Reported by:	portscout

biology/ncbi-cxx-toolkit: update 28.0.4 → 28.0.5

Reported by:	portscout

biology/ncbi-cxx-toolkit: update 28.0.3 → 28.0.4

Reported by:	portscout

graphics/proj: Update to 9.4.0

biology/ncbi-cxx-toolkit: update 28.0.2 → 28.0.3

Reported by:	portscout

biology/ncbi-cxx-toolkit: update 28.0.0 → 28.0.2

Reported by:	portscout

biology/ncbi-cxx-toolkit: Broken on armv7

Reported by:	fallout

biology/ncbi-cxx-toolkit: update 27.0.0 → 28.0.0

graphics/proj: Update to 9.2.1

biology/ncbi-cxx-toolkit: Update 26.0.1 → 27.0.0

Reported by:	portscout

graphics/proj: Update to 9.2.0

graphics/proj: Update to 9.1.1

graphics/proj: Update to 9.1.0

Release notes:
https://proj.org/news.html#id37

Also remove proj-data dependency.

You can use proj to retrieve data or install graphics/proj-data
manually.

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.

biology/ncbi-cxx-toolkit: Broken on armv6

Reported by:	fallout

Update CONFLICTS definitions in categories a* to c*

Update the CONFLICTS definitions of ports in the following categories:

- accessibility
- archivers
- audio
- benchmarks
- biology
- cad
- chinese
- comms
- converters

An attempt has been made to use generic conflicts patterns that do not
have to be updated whenever a new version of a conflicting port is
added to the ports system.

There is a misunderstanding that the port being built/installed has to
be omitted from the conflicts pattern. This is not true - the port
being built is implicitly non-conflicting due to logic in bsd.port.mk.

Approved by:	portmgr (implicit)

biology/ncbi-cxx-toolkit: Update 25.2.0 -> 26.0.1

Fix CONFLICTS entries of multiple ports

There have been lots of missing CONFLICTS_INSTALL entries, either
because conflicting ports were added without updating existing ports,
due to name changes of generated packages, due to mis-understanding
the format and semantics of the conflicts entries, or just due to
typoes in package names.

This patch is the result of a comparison of all files contained in
the official packages with each other. This comparison was based on
packages built with default options and may therefore have missed
further conflicts with optionally installed files.

Where possible, version numbers in conflicts entries have been
generalized, some times taking advantage of the fact that a port

biology/ncbi-cxx-toolkit: Update 25.0.0 -> 25.2.0

Reported by:	upstream ML notification

cleanup: drop support for EOL FreeBSD 11.X

Search criteria used:
- 11.4
- OSREL*
- OSVER*
- *_FreeBSD_11

Input from:
- adridg: devel/qca-legacy
- jbeich: _WITH_DPRINTF, _WITH_GETLINE, GNU bfd workarounds
- sunpoet: security/p5-*OpenSSL*

Reviewed by:	doceng, kde, multimedia, perl, python, ruby, rust
Differential Revision: https://reviews.freebsd.org/D32008
Test Plan: make index

biology/ncbi-cxx-toolkit: Broken on 11

Reported by:	fallout

biology/ncbi-cxx-toolkit: Update 22.0.0 -> 25.0.0

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

Remove # $FreeBSD$ from Makefiles.

biology/ncbi-cxx-toolkit: Fix build on 13

Reported by:	fallout

biology/ncbi-cxx-toolkit: Update 21.0.0 -> 22.0.0

Add USES=xorg USES=gl, ports categories b

Add USES=xorg, USES=gl and in a few cases USES=gnome to ports in categories
starting with 'b'.

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

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

New port: biology/ncbi-cxx-toolkit: NCBI C++ Toolkit