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Benjamin Takacs f8c049d638 science/gramps: Optional dependency on py-bsddb3 
databases/py-bsddb3 is deprecated. Make science/gramps use py-bsddb3 as an
option to facilitate the migration and remove the DEPRECATE note since it does
not apply anymore.

Add UPDATING note with instructions for the migration.

While here pet linters.

PR:	264529
Reported by:	nimaje+fbz@bureaucracy.de
2022-06-23 17:39:59 +02:00
..
2d-rewriter Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
abinit */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
afni science/afni: update to 22.1.13 2022-06-09 22:50:29 +02:00
agrum science/agrum: Update 1.1.0 -> 1.1.1 2022-06-11 13:29:59 -07:00
aircraft-datcom One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
ALPSCore */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
antioch math/gsl: bump portrevision of consumers after update to 2.7.1 2022-01-12 20:41:22 +01:00
apbs One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
ascent */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
atompaw science/atompaw: Update 4.2.0.0 -> 4.2.0.1 2022-06-13 20:26:14 -07:00
avogadro2 science/avogadro2: Update 1.94.0 -> 1.95.1 2022-02-05 01:44:22 -08:00
avogadrolibs */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
axom */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
bagel science/bagel: Update 1.2.2 -> 1.2.2-132 2022-06-23 00:39:22 -07:00
bddsolve devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
berkeleygw science/berkeleygw: Update 2.0.0 -> 3.0.1 2022-05-20 22:25:01 -07:00
bodr Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
buddy Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
cantera science/cantera: Unbreak OCTAVE option 2022-05-02 19:34:42 -07:00
cdcl Deorbit RESTRICTED && NO_CDROM, part two. 2021-05-06 13:47:48 +02:00
cdf *: Clean up some things 2022-01-17 14:20:25 +01:00
cdk science/cdk: Update 2.3 -> 2.7.1 2022-06-03 09:49:16 -07:00
cdo */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
cgnslib */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
cgribex */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
checkmol lang/fpc: Fix build issues building some fpc based apps 2022-06-20 20:17:20 -05:00
chemical-mime-data textproc/libxml2: bump all LIB_DEPENDS consumers 2022-04-10 15:11:41 -04:00
chemicalfun science/chemicalfun: New port: C++ library for working with chemical reactions and formulas 2022-01-18 10:42:45 -08:00
chemps2 */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
chemtool Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
chemtool-devel Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
chimes-calculator science/chimes-calculator: New port: Chebyshev Interaction Model for Efficient Simulation 2022-01-18 23:05:13 -08:00
chrono */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
clhep Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
clipper One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
code_saturne science/code_saturne: upgrade to 7.1.1 2022-04-26 22:46:44 +02:00
colt Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
conduit */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
coordgenlibs science/coordgenlibs: Update 2.0.3 -> 3.0.0 2021-09-09 13:00:09 -07:00
cp2k science/cp2k: Update 7.1.0-20200518 -> 9.1.0 2022-05-23 18:34:18 -07:00
cp2k-data science/cp2k-data: Update 7.1.0 -> 9.1.0 2022-05-23 18:34:17 -07:00
crf++ Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
csvtk */*: Bump port revisons after lang/go{117,118} update 2022-06-07 16:56:10 -05:00
dakota science/dakota: Fix LIB_DEPENDS after science/szip removal 2022-06-17 03:57:52 +08:00
dalton Regenerate all distfiles using gitlab as source. 2021-04-09 20:44:23 +02:00
dcl Deorbit RESTRICTED && NO_CDROM, part two. 2021-05-06 13:47:48 +02:00
devisor all: Remove all other $FreeBSD keywords. 2021-04-06 16:31:13 +02:00
dftbplus science/dftbplus: Update 21.2 -> 22.1 2022-05-25 23:52:58 -07:00
dftd4 science/dftd4: Update 3.3.0 -> 3.4.0 2022-04-30 12:48:30 -07:00
dkh One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
dlib-cpp science/dlib-cpp: remove the patch that is now committed upstream and breaks the build on powerpc64le 2021-04-11 22:45:40 +00:00
drawxtl graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
dvc Unbreak ports after devel/py-gitpython's PORTNAME change 2021-04-29 13:53:44 -04:00
dynare */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
eccodes science/eccodes: Update to 2.26.0 2022-06-03 17:00:25 +08:00
elk science/elk: Update 8.4.6 -> 8.4.21 2022-06-05 13:21:25 -07:00
elmerfem science/elmerfem: Fix build with GCC 11 2022-05-06 15:01:10 +02:00
epte *: Return culot@'s ports to the pool (and perl@) after safekeeping his bit. 2021-09-06 23:13:27 +02:00
erd One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
ergo Fix CONFLICTS entries of multiple ports 2022-01-10 16:15:39 +01:00
erkale */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
erkale-pseudopotentials science/erkale{,-pseudopotentials}: Update g20200426 -> g20220405 2022-05-24 12:51:17 -07:00
fastcap Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
fasthenry Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
fastjet One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
fisicalab math/gsl: bump portrevision of consumers after update to 2.7.1 2022-01-12 20:41:22 +01:00
fleur textproc/libxml2: bump all LIB_DEPENDS consumers 2022-04-10 15:11:41 -04:00
frontistr science/frontistr adding FrontISTR 2021-04-26 12:17:38 +02:00
fsom One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
fvcom science/netcdf-fortran: Update to 4.5.4 2022-03-08 02:10:59 +08:00
fvcom-mpi *: Clean up some things 2021-10-12 17:01:38 +02:00
gabedit INSTALLS_ICONS: retire the macro and rework the related dependencies 2021-10-10 21:44:42 +02:00
gamess-us One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
gbtolib science/gbtolib: New port: High-performance library for evaluation of molecular integrals 2022-05-24 17:02:33 -07:00
gchemutils textproc/libxml2: bump all LIB_DEPENDS consumers 2022-04-10 15:11:41 -04:00
gdma One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
getdp devel/cmake: Update to 3.23.0 2022-05-16 08:49:43 +02:00
ghemical science/ghemical: Fix path to mopac port 2022-06-19 09:02:23 -07:00
ghmm textproc/libxml2: bump all LIB_DEPENDS consumers 2022-04-10 15:11:41 -04:00
gnudatalanguage */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
gpaw-setups One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
gramps science/gramps: Optional dependency on py-bsddb3 2022-06-23 17:39:59 +02:00
grib_api graphics/jasper: Bump PORTREVISION of dependent ports for shlib change after cdcedd316d 2022-04-17 04:55:37 +08:00
gromacs science/gromacs: Update 2022.1 -> 2022.2 2022-06-17 10:05:29 -07:00
gsmc Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
gtamsanalyzer Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
h5utils Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
h5z-zfp One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
harminv Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
hdf */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
hdf5 science/hdf5: Sort PLIST 2022-06-16 23:27:43 +08:00
hdf5-18 */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
healpix astro/cfitsio: Update to 4.0.0 2022-02-28 23:06:56 +08:00
helfem */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
hepmc3 science/hepmc3: Update 3.2.4 -> 3.2.5 2022-05-12 11:57:53 -07:00
highfive science/highfive: Update 2.4.0 -> 2.4.1 2022-05-12 11:57:51 -07:00
hypre science/hypre: Update 2.24.0 -> 2.25.0 2022-06-16 21:03:50 -07:00
iboview graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
InsightToolkit */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
isaac-cfd Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
jdftx science/jdftx: Update 1.6.0 -> 1.7.0 2022-01-29 09:24:02 -08:00
jmol science/jmol: Update 14.32.57 -> 14.32.59 2022-06-05 23:31:08 -07:00
jstrack Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
kalzium KDE: Update KDE Gear to 22.04.2 (June bugfix release) 2022-06-10 22:06:27 +02:00
kim-api science/kim-api: Update 2.2.1 -> 2.3.0 2022-03-19 18:18:45 -07:00
kst2 science/kst2: Update to 2022.02.16 snapshot 2022-03-11 19:48:57 +03:00
lammps science/lammps: patch_2Jun2022 -> stable_23Jun2022 2022-06-22 18:04:17 -07:00
lamprop One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
latte One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
libaec science/libaec: Update to 1.0.6 2021-09-28 03:48:08 +08:00
libccp4 One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
libcint science/libcint: Update 5.1.2 -> 5.1.3 2022-06-16 11:24:43 -07:00
libctl Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
libecpint science/libecpint: Update 1.0.6 -> 1.0.7 2021-12-14 14:41:53 -08:00
libefp One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
libgeodecomp science/libgeodecomp: mark as BROKEN after recent boost upgrade 2022-05-22 23:17:12 +03:00
libghemical science/libghemical: Remove LD_PRELOAD vecause it configured now without it 2021-09-26 10:43:55 -07:00
libgridxc science/libgridxc: Update 0.8.5 -> 0.9.6 2021-04-23 18:36:22 -07:00
libint Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
libint2 devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
libkml devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
liblinear science/liblinear: Update to 2.44 2022-03-31 06:03:39 +08:00
libmbd science/libmbd: New port: Many-body dispersion library 2022-01-16 21:15:11 -08:00
libmsym One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
libnegf science/libnegf: Update 1.0.3 -> 1.1.2 2022-05-18 13:51:37 -07:00
liboglappth *: fix tab vs. space issues, and comments according to the guide. 2021-10-16 11:51:39 +02:00
libquantum Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
libssm One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
libsvm *: Clean up some things 2021-10-12 17:01:38 +02:00
libsvm-python Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
libtensorflow1 science/libtensorflow1: disallow newer Bazel 2022-06-12 21:01:13 +01:00
libvdwxc Regenerate all distfiles using gitlab as source. 2021-04-09 20:44:23 +02:00
libxc science/libxc: Update 5.1.7 -> 5.2.3 2022-05-24 10:30:13 -07:00
liggghts One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
linux-zotero science/linux-zotero: Clean up 2021-11-08 00:33:54 +01:00
luscus graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
madness One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
maeparser devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
massxpert science/massxpert: Improve port 2022-05-19 21:38:15 +02:00
mbdyn science/mbdyn: fix build on powerpc64* 2021-11-08 15:52:33 +00:00
mcstas One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
mcstas-comps Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
mctc-lib science/mctc-lib: Update 0.2.5 -> 0.3.0 2022-04-19 20:40:01 -07:00
mcxtrace */*: fix trailing whitespace in pkg-descr's 2022-04-01 18:09:49 +03:00
mcxtrace-comps One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
mdynamix */*: fix trailing whitespace in pkg-descr's 2022-04-01 18:09:49 +03:00
medit graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
metaphysicl science/metaphysicl: Update 1.3.2 -> 1.3.3 2021-12-13 09:19:09 -08:00
minc2 science/netcdf: Update to 4.8.1 2022-03-08 02:10:58 +08:00
mmdb2 science/mmdb2: Update 2.0.20 -> 2.0.22 2022-04-30 09:03:26 -07:00
mmtf-cpp One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
mol2ps lang/fpc: Fix build issues building some fpc based apps 2022-06-20 20:17:20 -05:00
molgif */*: Bump port revisons after lang/go{117,118} update 2022-06-07 16:56:10 -05:00
molscript graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
molsketch science/molsketch: Update 0.7.1 -> 0.7.2 2021-04-07 11:47:02 -07:00
mopac biology/mopac: Move to science/mopac; Add TIMESTAMP to distinfo; Take maintainership 2022-06-19 00:52:28 -07:00
mpb Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
mpqc science/mpqc: regen plist after doxygen update (+) 2021-12-16 11:49:52 +03:00
msms Style: improve ONLY_FOR_ARCHS_REASON (grammar, markup, etc.) 2021-10-25 12:58:29 +00:00
mstore */*: In 7 ports remove GNU-10.3.0 from install paths 2022-01-18 12:12:05 -08:00
multicharge science/multicharge: Update 0.1.2 -> 0.2.0 2022-05-05 23:21:10 -07:00
multiwfn One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
namd Style: improve ONLY_FOR_ARCHS_REASON (grammar, markup, etc.) 2021-10-25 12:58:29 +00:00
nest science/nest: remove redundant USES=compiler 2022-05-31 03:06:02 +00:00
netcdf science/netcdf: Update to 4.9.0 2022-06-22 04:57:22 +08:00
netcdf-cxx science/netcdf-cxx: Update MASTER_SITES 2022-03-08 02:10:59 +08:00
netcdf-fortran science/netcdf-fortran: Update to 4.5.4 2022-03-08 02:10:59 +08:00
nifticlib */*: Remove redundant '-[0-9]*' from CONFLICTS 2021-10-29 11:50:18 +02:00
nwchem science/nwchem: Update 7.0.2.20211110 -> 7.0.2.20220224 2022-02-25 10:19:33 -08:00
nwchem-data One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
octopus science/octopus: Cosmetic changes 2022-05-31 02:12:09 -07:00
openbabel devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
openems */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
openkim One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
openkim-models science/openkim-models: Update 2021-01-28 -> 2021-08-11 2022-05-08 11:02:07 -07:00
openmc */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
openmolcas */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
openmx science/openmx: Cleanup - remove unnecessary lines 2021-09-05 10:00:44 -07:00
opensim-core graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
opensph misc/openvdb: Update 9.0.0 -> 9.1.0 2022-06-11 13:29:59 -07:00
opsin One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
orthanc science/orthanc: Update to 1.11.0 2022-05-30 16:53:38 +02:00
orthanc-dicomweb devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
orthanc-mysql devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
orthanc-postgresql devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
orthanc-webviewer devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
p5-Algorithm-SVMLight Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-3DBuilder Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Bond-Find Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Canonicalize Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Elements science/p5-Chemistry-Elements: Update to 1.075 2021-11-06 03:15:55 +08:00
p5-Chemistry-File-MDLMol Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-Mopac Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-PDB Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-SLN Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-SMARTS Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-SMILES Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-VRML Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-File-XYZ Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-FormulaPattern Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-InternalCoords Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Isotope Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-MacroMol Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-MidasPattern Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Mok Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Mol science/p5-Chemistry-Mol: Sort PLIST 2021-07-15 00:10:34 +08:00
p5-Chemistry-Pattern Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Reaction Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Chemistry-Ring Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Geo-BUFR Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Geo-Coordinates-Converter Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Geo-Coordinates-Converter-iArea Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Geo-WebService-Elevation-USGS science/p5-Geo-WebService-Elevation-USGS: Update to 0.120 2021-11-06 03:15:56 +08:00
p5-Mcstas-Tools One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
p5-PerlMol Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
p5-Physics-Unit *: Return culot@'s ports to the pool (and perl@) after safekeeping his bit. 2021-09-06 23:13:27 +02:00
packmol One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
pagmo2 devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
paje Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
paraview science/paraview: mark BROKEN on arm64 2022-06-08 19:16:23 +02:00
pastix science/pastix: adding PaStiX, a sparse direct solver 2022-04-23 18:41:10 +02:00
pcmsolver science/pcmsolver: Small fixes 2022-05-20 21:35:33 -07:00
PETSc science/PETSc: Update 3.14.1 -> 3.16.3 2022-01-07 00:34:46 -08:00
phonopy science/phonopy: Update 2.15.0 -> 2.15.1 2022-05-28 21:52:24 -07:00
plumed science/plumed: Use upsteam release archive 2022-05-23 13:39:54 +02:00
pnetcdf Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
precice science/precice: Add options; Backport patch provided by upstream 2022-06-21 14:02:33 -07:00
pulseview all: return bsam's ports to the pool after his commit bit got safekept 2022-06-06 13:19:04 +02:00
py-abipy One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-access science/py-access: Update to 1.1.8 2022-06-09 18:59:16 +08:00
py-asap3 science/py-asap3: New port: Classical potentials for MD with ASE 2022-06-19 03:01:28 -07:00
py-asdf science/py-asdf: Update to 2.12.0 2022-06-09 18:59:17 +08:00
py-asdf-standard science/py-asdf-standard: Update to 1.0.2 2022-04-18 07:58:22 +08:00
py-asdf-transform-schemas science/py-asdf-standard: Update to 1.0.2 2022-04-18 07:58:22 +08:00
py-ase science/py-ase: Add test target 2022-06-19 03:01:29 -07:00
py-avogadrolibs science/py-avogadrolibs: Update 1.94.0 -> 1.95.1 2022-02-05 01:44:22 -08:00
py-cdo science/py-cdo: Update to 1.5.6 2022-01-24 02:50:47 +08:00
py-chainer devel/protobuf: Update to 3.20.0 2022-04-16 12:19:07 +08:00
py-chainer-chemistry One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-chempy science/py-chempy: switch to USES=pytest, fix tests and document failing ones 2022-04-26 20:26:11 +03:00
py-cirq-aqt science/py-cirq-aqt: Update 0.12.0 -> 0.14.1 2022-04-21 13:40:10 -07:00
py-cirq-core science/py-cirq-core: Update 0.13.1 -> 0.14.1 2022-04-21 13:40:10 -07:00
py-cirq-google science/py-cirq-google: Update 0.14.0 -> 0.14.1 2022-05-07 10:11:29 -07:00
py-cirq-ionq science/py-cirq-ionq: Update 0.13.1 -> 0.14.1 2022-04-21 13:40:10 -07:00
py-cirq-pasqal science/py-cirq-pasqal: Update 0.13.1 -> 0.14.1 2022-04-21 13:40:10 -07:00
py-coards science/py-coards: Cosmetic change 2021-05-12 05:47:18 +08:00
py-DendroPy science/py-DendroPy: Update to 4.5.2 2022-06-05 15:43:08 +08:00
py-dipy science/py-dipy: Update 1.4.1 -> 1.5.0 2022-04-24 12:42:21 -07:00
py-dlib science/py-dlib: fix build on powerpc64le 2021-04-11 17:08:35 +00:00
py-eccodes science/py-eccodes: Update to 1.4.2 2022-05-22 12:37:30 +08:00
py-esda science/py-esda: Add SHAPE option 2021-09-21 11:44:54 +08:00
py-fresnel math/qhull: Renaming ports 2022-02-18 15:15:30 -06:00
py-geolinks Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-geomet Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-geometer science/py-geometer: Update to 0.3.4 2022-04-26 23:01:29 +08:00
py-geometric One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-gpaw science/py-gpaw: Update 21.6.0 -> 22.1.0 2022-01-13 02:25:40 -08:00
py-GPy science/py-GPy: Update 1.9.9 -> 1.10.0 2021-05-22 01:33:34 -07:00
py-GPyOpt One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-gsd science/py-gsd: Update 2.5.1 -> 2.5.2 2022-04-19 18:08:13 -07:00
py-h5json science/py-h5py: Update to 3.2.1 2021-04-18 13:44:04 +08:00
py-h5py science/py-h5py: Convert to USE_PYTHON=pytest 2022-06-04 00:57:26 +08:00
py-hiphive science/py-hiphive: Update 1.0 -> 1.1 2022-05-07 10:11:29 -07:00
py-hoomd-blue science/py-hoomd-blue: Update 3.1.0 -> 3.2.0 2022-05-19 19:10:19 -07:00
py-inequality science/py-inequality: Update USES=python 2021-11-06 03:14:23 +08:00
py-jupyter_jsmol science/py-jupyter_jsmol: switch to USES=pytest, fix testing 2022-04-26 16:45:58 +03:00
py-kim-query science/py-kim-query: Update 1.1.0 -> 3.0.0 2022-05-08 11:02:07 -07:00
py-kinematics science/py-kinematics: Update USES=python 2021-11-06 03:14:24 +08:00
py-kliff science/py-kliff: Update 0.3.3 -> 0.4.0 2022-04-29 12:40:02 -07:00
py-liac-arff Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-libpysal science/py-libpysal: Update to 4.6.2 2022-03-25 21:37:13 +08:00
py-lifelines One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-MDAnalysis science/py-MDAnalysis*: upgrade to 2.2.0 2022-06-21 19:26:21 +02:00
py-MDAnalysisTests science/py-MDAnalysis*: upgrade to 2.2.0 2022-06-21 19:26:21 +02:00
py-mdp science/py-mdp: Fix build with setuptools 58.0.0+ 2022-03-25 21:38:19 +08:00
py-mmtf-python One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-molmod One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-moltemplate science/py-moltemplate: Update 2.20.3 -> 2.20.5 2022-05-09 23:37:51 -07:00
py-netcdf-flattener Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-netCDF4 science/netcdf: Update to 4.8.1 2022-03-08 02:10:58 +08:00
py-nibabel science/py-nibabel: Update 3.2.1 -> 3.2.2 2022-04-24 12:42:19 -07:00
py-nilearn science/py-nilearn: mark BROKEN 2022-03-23 14:44:26 +03:00
py-obspy science/py-obspy: Update to 1.3.0 2022-03-14 12:14:38 +08:00
py-oddt science/py-oddt: Not install tests 2022-03-25 10:28:34 -07:00
py-OpenFermion science/py-OpenFermion: Update 1.2.0 -> 1.3.0 2021-12-23 17:54:58 -08:00
py-OpenMC science/{,py-}openmc: Update 0.12.2 -> 0.13.0 2022-05-08 13:55:59 -07:00
py-openpiv science/py-openpiv: update to 0.23.8 2021-11-06 00:17:44 +03:00
py-paida science/py-paida: Fix build with setuptools 58.0.0+ 2022-03-25 21:38:19 +08:00
py-paramz One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-phono3py science/py-phono3py: Remove unnecessary build dependency on math/lapacke 2021-06-08 20:32:22 -07:00
py-phonopy science/py-phonopy: Update 2.14.0 -> 2.15.1 2022-06-05 23:31:07 -07:00
py-PubChemPy science/py-PubChemPy: New port: Simple Python wrapper around the PubChem PUG REST API 2021-07-27 06:16:51 -07:00
py-pupynere science/py-pupynere: Update USES=python 2021-11-06 03:14:24 +08:00
py-py3Dmol science/py-py3Dmol: New port: IPython interface for embedding 3Dmol.js views 2022-06-15 13:56:03 -07:00
py-pyaixi Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-pyberny science/py-pyberny: New port: Optimizer of molecular geometries with respect to the total energy 2021-10-16 16:56:19 -07:00
py-pycsw science/py-pycsw: Update to 2.6.1 2021-10-25 23:57:35 +08:00
py-pydicom science/py-pydicom: Update to 2.3.0 2022-04-07 11:41:06 +00:00
py-PyFR science/py-PyFR: Update 1.13.0 -> 1.14.0 2022-05-05 23:21:10 -07:00
py-pygeodesy science/py-pygeodesy: Update to 22.1.22 2022-02-28 20:46:23 +08:00
py-pygeometa science/py-pygeometa: Update to 0.11.1 2022-06-22 00:36:23 +08:00
py-pygmo2 devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
py-pyked devel/py-pint: Update to 0.19.1 2022-04-18 07:58:18 +08:00
py-pymatgen science/py-pymatgen: Update 2022.0.17 -> 2022.4.26 2022-05-09 20:50:24 -07:00
py-pymol textproc/libxml2: bump all LIB_DEPENDS consumers 2022-04-10 15:11:41 -04:00
py-PyNE */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
py-pyosf One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-pyprecice science/py-pyprecice: New port: Coupling library for partitioned multi-physics simulations 2022-06-20 09:53:12 -07:00
py-pysal science/py-pysal: Update to 2.6.0 2022-03-08 02:11:26 +08:00
py-pyscf science/py-pyscf: Unbreak fetch 2022-01-12 20:40:22 -08:00
py-pyteomics science/py-pyteomics: Update to 4.5.3 2022-03-25 21:37:13 +08:00
py-qcelemental science/py-qcelemental: Update 0.24.0 -> 0.25.0 2022-06-15 13:56:03 -07:00
py-qcengine devel/py-pint: Update to 0.19.1 2022-04-18 07:58:18 +08:00
py-qspin science/py-qspin: Fix build with setuptools 58.0.0+ 2022-03-25 21:38:19 +08:00
py-quantities science/py-quantities: Update 0.12.5 -> 0.13.0 2022-01-14 08:48:13 -08:00
py-rmf science/{,py-}rmf: Update 1.3.1 -> 1.4 2022-03-11 08:59:47 -08:00
py-rmsd One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-ruffus One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-scikit-fuzzy Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-scikit-learn cience/py-scikit-learn: Update to 1.1.1 2022-06-13 10:44:37 +08:00
py-scikit-optimize science/py-scikit-optimize: Update to 0.9.0 2021-10-25 23:57:36 +08:00
py-scikit-sparse science/py-scikit-sparse: Update 0.4.5 -> 0.4.6 2021-09-13 15:28:57 -07:00
py-scimath Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
py-scipy science/py-scipy: Update to 1.8.1 2022-05-25 15:46:45 +08:00
py-scoria One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-segregation science/py-segregation: Update to 2.2.3 2022-04-18 07:58:23 +08:00
py-segyio science/py-segyio: switch to USES=pytest and fix tests 2022-04-26 16:46:03 +03:00
py-SimpleSpectral One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
py-sklearn-pandas science/py-sklearn-pandas: Add py-sklearn-pandas 2.2.0 2022-01-29 07:26:35 +08:00
py-skrebate science/py-skrebate: Update USES=python 2021-11-06 03:14:24 +08:00
py-spaghetti science/py-spaghetti: Update to 1.6.5 2022-01-24 02:50:48 +08:00
py-spglib science/{,py-}spglib: Update 1.16.3 -> 1.16.5 2022-05-07 22:27:10 -07:00
py-tensorflow devel/icu: update to 71.1 2022-04-07 00:39:10 +00:00
py-thewalrus science/py-thewalrus: New port: Open source library for hafnian calculation 2022-05-31 20:42:38 -07:00
py-tobler science/py-tobler: Update to 0.9.0 2022-03-08 02:11:26 +08:00
py-trainstation science/py-trainstation: New port: Convenient training of linear models 2022-03-07 12:14:14 -08:00
py-veusz devel/py-qt5, devel/py-sip: Update versions 2022-03-07 18:39:13 +01:00
pybrain Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
pynn science/pynn: Update to 0.10.0 2021-12-17 16:18:50 +08:00
q science/q: New port: Molecular Dynamics (MD) tools 2022-05-23 18:54:08 -07:00
qbox science/qbox: Update 1.74.1 -> 1.74.2 2022-03-26 19:40:09 -07:00
qcl Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
qiskit-aer devel/libfmt: Update to 8.0.0 2021-07-22 02:11:51 +08:00
qmcpack */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
quantum-espresso One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
quantum-espresso-pseudopotentials One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
quantum-jet science/quantum-jet: New port: Cross-platform header-only library for simulating quantum circuits 2022-05-31 13:02:18 -07:00
qwalk textproc/libxml2: bump all LIB_DEPENDS consumers 2022-04-10 15:11:41 -04:00
R-cran-AMORE Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
R-cran-bayesm Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
R-cran-cmprsk science/R-cran-cmprsk: Update to 2.2-11 2022-01-09 06:54:19 +00:00
R-cran-DCluster science/R-cran-DCluster: Update to 0.2-8 2022-06-09 12:51:21 +00:00
R-cran-e1071 science/R-cran-e1071: Update to 1.7-11 2022-06-09 23:10:44 +00:00
R-cran-eco Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
R-cran-Epi science/R-cran-Epi: Update to 2.46 2022-04-17 06:22:10 +00:00
R-cran-epicalc Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
R-cran-etm Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
R-cran-FAdist science/R-cran-FAdist: upgrade to 2.4 2022-03-06 21:56:52 +01:00
R-cran-fastICA science/R-cran-fastICA: Update to 1.2-3 2021-09-25 18:13:13 -04:00
R-cran-kernlab science/R-cran-kernlab: Update to 0.9-31 2022-06-10 02:05:52 +00:00
R-cran-ks science/R-cran-ks: adding a R library for Kernel Smoothing 2022-05-06 17:32:19 +02:00
R-cran-snow science/R-cran-snow: Update to 0.4-4 2021-10-28 10:20:03 +00:00
R-cran-som Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
R-cran-udunits2 science/R-cran-udunits2: Update to 0.13.2.1 2022-03-15 23:22:57 +00:00
rdkit science/rdkit: Update 2022.03.2 -> 2022.03.3 2022-06-03 00:17:04 -07:00
rmf */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
rubygem-ai4r Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
rubygem-cdo Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
rubygem-rgeo science/rubygem-rgeo: Update to 2.4.0 2022-01-26 03:51:05 +08:00
rubygem-rgeo-geojson Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
rubygem-rgeo-proj4 science/rubygem-rgeo-proj4: Update to 3.1.1 2021-11-22 02:24:31 +08:00
rubygem-rgeo-shapefile Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
rubygem-ruby-dcl Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
rubygem-ruby-netcdf science/rubygem-ruby-netcdf: Update to 0.8.0 2022-03-31 06:21:46 +08:00
scidavis science/scidavis: tell portscout to ignore old tag 2022-05-10 21:31:45 +03:00
segyio devel/cmake: Update to 3.23.0 2022-05-16 08:49:43 +02:00
shelxle science/shelxle: Update 1.0.1393 -> 1.0.1395 2022-06-18 23:20:19 -07:00
siconos cleanup: drop support for EOL FreeBSD 11.X 2021-09-30 23:23:30 +02:00
siesta science/siesta: Add comment 2022-06-19 00:44:10 -07:00
sigrok-cli science/sigrok-cli: Update version 0.7.1=>0.7.2 2022-06-06 16:56:48 -05:00
sigrok-firmware all: Take maintainership 2022-06-06 06:48:06 -05:00
sigrok-firmware-fx2lafw all: Take maintainership 2022-06-06 06:48:06 -05:00
sigrok-firmware-utils all: Take maintainership 2022-06-06 06:48:06 -05:00
silo science/silo: Fix build with HDF5 1.10.8+ 2022-06-16 23:13:02 +08:00
simbody graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
simgrid devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
simint One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
simlib Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
simple-dftd3 science/simple-dftd3: Update 0.5.1 -> 0.6.0 2022-04-30 12:48:30 -07:00
simsmith all: Remove all other $FreeBSD keywords. 2021-04-06 16:31:13 +02:00
smoldyn science/smoldyn: Update 2.66 -> 2.67 2021-11-06 16:56:37 -07:00
sparta science/sparta: Update 20Oct2021 -> 7Jan2022 2022-01-08 01:09:25 -08:00
spglib science/spglib: fix build without libomp 2022-05-31 03:05:56 +00:00
step KDE: Update KDE Gear to 22.04.2 (June bugfix release) 2022-06-10 22:06:27 +02:00
svmlight science/svmlight: fix build on 13.0+ 2021-10-29 18:01:10 +00:00
tblite science/tblite: Update 0.2.0 -> 0.2.1 2022-05-21 20:48:48 -07:00
teem One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
tfel devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
tfel-edf devel/boost-all: bump all library consumers after boost upgrade 2022-05-22 23:17:16 +03:00
thermofun science/thermofun: Update 0.3.8 -> 0.3.9 2022-01-18 10:42:45 -08:00
tinker science/tinker: don't set -march=native 2022-05-22 00:10:44 +00:00
udunits Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
ukrmol+ science/ukrmol+: Broken on aarch64 2022-06-03 11:23:35 -07:00
v_sim science/netcdf: Update to 4.8.1 2022-03-08 02:10:58 +08:00
vipster graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
vmd science/netcdf: Update to 4.8.1 2022-03-08 02:10:58 +08:00
voro++ One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
votca */*: Replace science/szip with science/libaec 2022-06-16 23:13:01 +08:00
wannier90 One more small cleanup, forgotten yesterday. 2021-04-07 10:09:01 +02:00
wwplot math/py-matplotlib: chase minimum Python version in dependent ports 2021-05-10 22:13:20 +02:00
wxmacmolplt graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
xcfun science/xcfun: fix build on GCC-based systems 2021-06-07 06:38:43 -05:00
xcrysden framework: Add new USES 'magick' for graphics/ImageMagick* 2021-12-11 14:50:53 +01:00
xdrawchem graphics/mesa-libs: Bump reverse deps for libglvnd 2021-06-22 11:53:08 -07:00
xtb science/xtb: update to 6.4.1 2021-11-27 11:49:53 -06:00
yoda science/yoda: Update 1.9.1 -> 1.9.4 2022-01-25 09:52:27 -08:00
zotero devel/libffi: Bump deps PORTREVISION for shlib change 2022-05-09 12:23:51 -07:00
Makefile science/py-pyprecice: New port: Coupling library for partitioned multi-physics simulations 2022-06-20 09:53:12 -07:00