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

*/*: Switch to NumPy 2.x

PR:		294328
Exp-run:	antoine

science/libxc: update 6.2.2 → 7.0.0

science/gromacs: update 2025.4 → 2026.1

science/votca: update 2025.1 → 2026

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

science/votca: add missing #include <cassert>

Reported by:	bulk -t
Approved by:	portmgr blanket

devel/boost: bump consumers after boost upgrade (+)

Get rid of direct dependency ob libbost_system.so, use libboost_thread.so
instead

science/votca: update 2025 → 2025.1

*/*: switch dependency from devel/py-lxml5 to devel/py-lxml

Currently, there are two versions of python XML processing library
which conflict each other in the ports tree, namely:
- devel/py-lxml5 (now at version 5.4.0)
- devel/py-lxml  (now at version 6.0.1)

To avoid the situation that some ports depend on py-lxml5 and some
others do on py-lxml (by switching dependencies individually), this
commit switches the dependencies from py-lxml5 to py-lxml at once.

Additional note: There are still two ports (textproc/py-rdflib and
www/py-draftjs-exporter) depending on py-lxml5 since they limit upper
version to less than 6.

PR:		289491
Approved by:	Michiel van Baak Jansen <michiel@vanbaak.eu>, arrowd,
		crees, madpilot, delphij, marcus, nivit, kai,
		skreuzer, fluffy, bofh, thierry, stephen, sunpoet,
		0mp, Eric Camachat <eric@camachat.org>

all: bump PORTREVISION after updating graphics/libyuv

Using the Tools/scripts/bump_revision.pl script

science/votca: Not broken on 13

science/votca: Broken on 13

Reported by:	fallout

science/votca: Update WWW

*/*: update dependency on devel/py-lxml to devel/py-lxml5 (2nd attempt)

This is a follow up to the commit 230fb2661c78, which updated some
ports' dependencies on devel/py-lxml to devel/py-lxml5. It was an
attempt to follow the dependency change of
www/py-beautifulsoup. However, the switch was incomplete and broke
some other ports.

It has turned out that the ports depending on devel/py-lxml (at
version 4.9.3) does not limit their dependencies' upper bound to 4.x
except for one (devel/py-pymaven-patch). So updating them to
devel/py-lxml5 (at version 5.4.0) should cause no harm.

This commit switch dependencies of all the ports (except
devel/py-pymaven-patch) to devel/py-lxml5 avoid potential conflicts.

Co-authored-by: Daniel Engberg <diizzy@FreeBSD.org>

PR:		287144, 288047
Reported by:	makc (via ports-committers),
		vvd (PR 288047),
		diizzy (PR 287144)
Approved by:	portmgr (chase dependency change, unbreak build)
Fixes:		230fb2661c78 (*/*: update dependency on devel/py-lxml to devel/py-lxml5)

devel/boost: bump consumers after Boost update

science/votca: update 2024.2 → 2025

Reported by:	portscout

devel/boost: bump consumers after Boost-1.87 update

Sponsored by:	Future Crew, LLC

devel/boost: bump consu,ers after update Boost to 1.86 release

Sponsored by:	Future Crew, LLC

*/*: bump consumers after devel/boost* update

With hat:	office
Sponsored by:	Future Crew, LLC

science/votca: update 2024.1 → 2024.2

Reported by:	portscout

science/votca: update 2024 → 2024.1

Reported by:	portscout

science/votca: update 2023 → 2024

devel/boost: bump consumers after library update

science/votca: Fix build by fixing plist

Reported by:	fallout

science/votca: update 2022.1 → 2023

Reported by:	portscout

science/votca: Partially fix build

Define BOOST_TIMER_ENABLE_DEPRECATED in CXXFLAGS to avoid build failure
with newer versions of Boost library

Poudriere reports filesystem violations in usr/local/share/libint

PR:		274437
Reviewed by:	yuri (maintainer)

devel/boost*: bump all consumers after 1.83.0

science/votca: Update 2022 → 2022.1

Reported by:	portscout

*/*: bump all direct Boost cunsumers

*: Bump PORTREVISIONs for math/mpc update to 1.3.1

*/*:	bump libboost*.so libraries consumert after Boost upgrade

science/*: bump PORTREVISION in consumers of libXC

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.

*/*: bump all consumers after recent boost upgrade

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>

science/votca: Fix build with HDF5 1.12.0+

*/*: 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

devel/boost-all: bump all library consumers after boost upgrade

PR:	246106

devel/cmake: Update to 3.23.0

Update to 3.23.0.
Fix pkg-plist: using the default share/man location

Release Notes:
  https://cmake.org/cmake/help/v3.23/release/3.23.html

PR:		262886
Exp-run by:	antoine

science/votca: Fix tests

science/votca: Update 2021.2-18560 -> 2022

Reported by:	portscout

science/votca: Update 2021.2 -> 2021.2-18560

This fixed 6 failing testcases. The patch fixing these testcases
doesn't apply to 2021.2, so the port is updated to the latest
commit.

science/votca: Update 2021.1 -> 2021.2

Reported by:	portscout

science/votca: Update 2021 -> 2021.1

Reported by:	portscout

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

Remove # $FreeBSD$ from Makefiles.

science/votca: Update 1.6.3 -> 2021

Reported by:	portscout

science/votca: Update 1.6.2 -> 1.6.3

- Upgrade math/eigen3 to 3.3.8;

- Add some dependencies which might be detected by Find_Package but not
registered;

- Bump PORTREVISION of consumers.

PR:		250833
Submitted by:	/me
Approved by:	tcberner@ (KDE / maintainer) + exp-run

science/votca: Update 1.6.1 -> 1.6.2

Reported by:	portscout

science/votca: Update 1.6 -> 1.6.1

Reported by:	portscout

science/votca: Revert unintended changes

science/votca: Broken on i386

Reported by:	fallout

Add compiler:c++14-lang to USES to fix build on GCC-based systems:

  Target "cmTC_057ba" requires the language dialect "CXX14" , but CMake does
  not know the compile flags to use to enable it.

Approved by:	portmgr (tier-2 blanket)

science/votca: Enable the XTP library

New port: science/votca: CSG and XTP: libraries for atomistic simulations