Fernando Apesteguía 823d5a544c science/afni: update to 20.1.18 ... While here: * Reorder some variables * Remove duplicate USE_GL Reported by: portscout		2020-07-02 06:55:49 +00:00
..
2d-rewriter	science/2d-rewriter:	2020-03-29 05:55:51 +00:00
abinit	Mark BROKEN: fails to build	2020-05-29 08:38:54 +00:00
afni	science/afni: update to 20.1.18	2020-07-02 06:55:49 +00:00
agrum	science/agrum: Update 0.17.3 -> 0.18.0	2020-06-15 08:26:22 +00:00
aircraft-datcom	audio/festvox-cmu_us_slt_arctic, games/flightgear-terragear, graphics/zathura-cb, graphics/zathura-pdf-poppler, graphics/zathura-ps, math/nfft, net/py-mpi4py, science/aircraft-datcom, x11-themes/gnome-icons-luv: reset MAINTAINER	2020-03-02 17:35:42 +00:00
ALPSCore	- Swap back from net/openmpi3 to net/openmpi	2020-04-21 21:26:56 +00:00
antioch
apbs
atompaw	atompaw is actually fetchable	2020-01-05 11:52:46 +00:00
avogadro2	science/avogadro2: Update 1.91.0 -> 1.93.0	2020-02-06 07:09:42 +00:00
avogadrolibs	science/avogadrolibs: Remove a broken option VTK set to default by mistake	2020-04-27 16:09:56 +00:00
bagel	Chase ScaLAPACK´s upgrade and resolve conflict between cblas and openblas.	2020-06-14 09:14:03 +00:00
bddsolve
berkeleygw	science/berkeleygw: Unbreak build with GCC 10	2020-06-25 06:50:17 +00:00
bodr
brian	Deprecate some ports using deprecated version of python	2020-03-08 17:01:46 +00:00
buddy
cdcl
cdf
cdk	New port: science/cdk: Chemistry Development Kit	2020-01-09 16:48:21 +00:00
cdo	Remove ACCEPT_USE_OF_DEPRECATED_PROJ_API_H	2020-05-16 10:51:44 +00:00
cgnslib	Mark MAKE_JOBS_UNSAFE	2020-06-10 05:22:13 +00:00
cgribex	Update to 1.9.4	2020-05-16 10:51:49 +00:00
checkmol	- Remove compat < 11 dependencies from bootstrap and compiler. It could fix problems	2020-03-06 06:26:05 +00:00
chemical-mime-data
chemps2	Bump 37 ports depending on math/openblas through USES=blaslapack:openblas because after the recent math/openblas update the library name changed in openblas	2020-05-06 16:39:12 +00:00
chemtool
chemtool-devel
chrono	- Update net/openmpi to 4.0.3 (openmpi 1 is deprecated)	2020-04-19 09:49:02 +00:00
clhep
clipper
code_saturne	Upgrade to v6.1.1 and add Scotch´s support.	2020-06-15 16:02:40 +00:00
colt
coordgenlibs	science/coordgenlibs: Update 1.4.0-6 -> 1.4.1	2020-06-29 00:46:52 +00:00
cp2k	Re-add port: science/cp2k: Quantum chemistry and solid state physics software package; Update 6.1.0 -> 7.1.0-20200518	2020-05-20 02:27:15 +00:00
cp2k-data	science/cp2k-data: Update 6.1.0 -> 7.1.0	2020-05-25 04:00:02 +00:00
crf++
dalton	Bump 46 ports depending on math/openblas because the after the recent math/openblas update the library name changed in openblas.	2020-05-06 16:11:14 +00:00
datawarrior	Deprecate java/openjfx8-devel consumers	2020-03-19 09:33:13 +00:00
dcl
devisor
dftbplus	science/dftbplus: Change to python3.	2020-05-20 00:36:40 +00:00
dkh
dlib-cpp	science/dlib-cpp and science/py-dlib: Update to 19.20	2020-06-23 14:41:29 +00:00
dlpoly-classic	science/dlpoly-classic: Change dependency to openmpi3	2020-04-12 14:31:17 +00:00
drawxtl
dvc	Deprecate a few ports	2020-02-23 15:25:53 +00:00
eccodes	Mark as BROKEN on powerpc64:	2020-05-18 03:05:44 +00:00
elk	science/elk: Update 5.2.14 -> 6.8.4	2020-06-30 15:12:48 +00:00
elmerfem	science/elmerfem: Prepare for Qt5.15	2020-06-23 15:49:30 +00:00
epte
erd
ergo	Some days it does not pay to get out of bed.	2020-05-15 04:25:56 +00:00
erkale	- Update math/armadillo to 9.870.2	2020-05-06 21:19:22 +00:00
erkale-pseudopotentials	science/erkale-pseudopotentials: Update g20190114 -> g20200426	2020-05-07 00:32:03 +00:00
fastcap
fasthenry
fastjet	science/fastjet: Enable plugins; Fix the config program	2020-05-26 17:10:15 +00:00
fisicalab	Return theraven's ports to the pool after safekeeping his commit bit.	2020-03-05 20:49:05 +00:00
fleur	Bump 46 ports depending on math/openblas because the after the recent math/openblas update the library name changed in openblas.	2020-05-06 16:11:14 +00:00
fsom
fvcom
fvcom-mpi	- Update net/openmpi to 4.0.3 (openmpi 1 is deprecated)	2020-04-19 09:49:02 +00:00
gabedit	Drop dependency on devel/openmp	2020-03-08 21:56:36 +00:00
gamess-us	Bump 46 ports depending on math/openblas because the after the recent math/openblas update the library name changed in openblas.	2020-05-06 16:11:14 +00:00
gchemutils	Remove textproc/gnome-doc-utils.	2020-01-27 19:40:17 +00:00
gdma
getdp	- Update to 3.3.0.	2019-12-22 02:28:57 +00:00
ghemical	science/ghemical: Not compatible with the upcoming OpenBabel-3 => disable this internal option	2020-05-10 21:40:08 +00:00
ghmm
gnudatalanguage	x11-toolkits/wxgtk30: Update to 3.0.5.1	2020-05-17 05:55:12 +00:00
gpaw-setups
gramps	Convert the tree to use PY_PILLOW	2020-03-24 19:54:57 +00:00
grib_api
gromacs	science/gromacs: Fix plist when MPI=on	2020-05-05 01:20:18 +00:00
gsmc
gtamsanalyzer
h5utils
h5z-zfp
harminv	Fix math/openblas and bump dependent ports	2020-01-30 14:17:44 +00:00
hdf
hdf5	Revert r529778, ports depending on it were not tested	2020-03-29 20:41:45 +00:00
hdf5-18
healpix
hepmc3	science/hepmc3: Update science/hepmc3: Update 3.2.1 -> 3.2.2	2020-06-15 04:02:53 +00:00
highfive	science/highfiv: Update 2.2 -> 2.2.1	2020-04-29 07:05:09 +00:00
hypre	science/hypre: Update 2.18.2 -> 2.19.0	2020-05-27 08:08:16 +00:00
iboview	Bump 37 ports depending on math/openblas through USES=blaslapack:openblas because after the recent math/openblas update the library name changed in openblas	2020-05-06 16:39:12 +00:00
InsightToolkit	- Update devel/gdcm to 3.0.6.	2020-06-10 19:20:31 +00:00
isaac-cfd
jdftx	science/jdftx: Update 1.5.0 -> 1.6.0	2020-06-15 20:29:51 +00:00
jmol	science/jmol: Update 14.30.2 -> 14.31.0	2020-05-28 17:29:56 +00:00
jstrack
kalzium	Update KDE's Application (release-service) to 20.04.2	2020-06-13 08:14:07 +00:00
kim-api
kst2	science/kst2: prepare for Qt5-5.15	2020-05-18 16:42:25 +00:00
lammps	science/lammps: Update 15Jun2020 -> 30Jun2020	2020-06-29 19:55:53 +00:00
lamprop
latte	science/latte: Update 1.2.1 -> 1.2.2	2020-05-07 01:02:37 +00:00
libaec
libccp4
libcint	science/libcint: Update 3.0.19 -> 3.0.20	2020-05-15 15:44:22 +00:00
libctl
libefp
libgeodecomp
libghemical
libgridxc	Mark BROKEN	2020-05-16 10:02:19 +00:00
libint
libint2	science/libint2: Update 2.5.0-beta.2-20 -> 2.6.0	2020-01-13 02:54:47 +00:00
libkml	Convert REINPLACE_CMD to patch files	2020-05-08 20:50:41 +00:00
liblinear	Update to 2.30	2020-06-14 14:22:35 +00:00
libmsym
liboglappth
libquantum
libssm
libsvm
libsvm-python
libvdwxc
libxc	science/libxc: remove patch	2020-05-02 20:20:28 +00:00
liggghts	science/liggghts: Remove the unnecessary VTK_DIR	2020-04-27 16:26:42 +00:00
lm	Move devel/swig30 to devel/swig and update to 4.0.1	2020-06-17 18:17:45 +00:00
luscus
madness	Update devel/tbb to 2020.2 and bump dependent port's revisions	2020-04-01 14:14:51 +00:00
maeparser	science/maeparser: Update 1.2.2 -> 1.2.3	2020-03-17 07:19:57 +00:00
massxpert	Sanitize COMMENT per Section 5.6 of the FreeBSD Porter's Handbook (part 6).	2020-05-28 08:43:29 +00:00
mbdyn	Mark as BROKEN on powerpc64:	2020-05-18 01:38:12 +00:00
mcstas
mcstas-comps
mcxtrace
mcxtrace-comps
mdynamix
medit
metaphysicl
minc2
mmdb2	science/mmdb2: Update 2.0.19 -> 2.0.20	2020-01-13 03:30:45 +00:00
mmtf-cpp
mol2ps	- Remove compat < 11 dependencies from bootstrap and compiler. It could fix problems	2020-03-06 06:26:05 +00:00
molgif
molscript
molsketch
mpb
mpqc	Fix math/openblas and bump dependent ports	2020-01-30 14:17:44 +00:00
msms
multiwfn	Bump 46 ports depending on math/openblas because the after the recent math/openblas update the library name changed in openblas.	2020-05-06 16:11:14 +00:00
namd
nest	Drop dependency on devel/openmp	2020-03-08 21:56:36 +00:00
netcdf
netcdf-cxx
netcdf-fortran
nifticlib
nwchem	science/nwchem: Update to 7.0.0-release	2020-05-07 07:58:36 +00:00
nwchem-data	science/nwchem-data: Update 6.8.1.20190125 -> 7.0.0	2020-05-07 02:54:17 +00:00
octopus	Mark BROKEN	2020-05-16 10:03:40 +00:00
openbabel
openkim
openkim-models
opensim-core	Move devel/swig30 to devel/swig and update to 4.0.1	2020-06-17 18:17:45 +00:00
opensph
opsin
p5-Algorithm-SVMLight
p5-Chemistry-3DBuilder
p5-Chemistry-Bond-Find
p5-Chemistry-Canonicalize
p5-Chemistry-Elements
p5-Chemistry-File-MDLMol
p5-Chemistry-File-Mopac
p5-Chemistry-File-PDB
p5-Chemistry-File-SLN
p5-Chemistry-File-SMARTS
p5-Chemistry-File-SMILES
p5-Chemistry-File-VRML
p5-Chemistry-File-XYZ
p5-Chemistry-FormulaPattern
p5-Chemistry-InternalCoords
p5-Chemistry-Isotope
p5-Chemistry-MacroMol
p5-Chemistry-MidasPattern
p5-Chemistry-Mok
p5-Chemistry-Mol
p5-Chemistry-Pattern
p5-Chemistry-Reaction
p5-Chemistry-Ring
p5-Geo-BUFR
p5-Geo-Coordinates-Converter	Add NO_ARCH	2020-04-21 19:47:40 +00:00
p5-Geo-Coordinates-Converter-iArea	Cosmetic change	2020-04-21 19:37:40 +00:00
p5-Geo-WebService-Elevation-USGS	- Update to 0.117	2020-04-18 08:35:03 +00:00
p5-Mcstas-Tools
p5-PerlMol
p5-Physics-Unit
packmol
pagmo2	science/pagmo2: Update 2.11.4 -> 2.15.0-90	2020-06-10 16:05:16 +00:00
paje
paraview	Bump PORTREVISION for devel/protobuf shlib change	2020-06-03 18:32:05 +00:00
pcmsolver
PETSc	Fix math/openblas and bump dependent ports	2020-01-30 14:17:44 +00:00
plumed	science/plumed: Broken on i386	2020-05-23 21:59:28 +00:00
pnetcdf	- Update net/openmpi to 4.0.3 (openmpi 1 is deprecated)	2020-04-19 09:49:02 +00:00
pulseview	science/pulseview: prepare for Qt5-5.15	2020-05-30 10:09:51 +00:00
py-abipy	math/py-seaborn: Update to 0.10.1	2020-05-31 21:03:37 +00:00
py-asdf	Update to 2.6.0	2020-04-24 18:03:39 +00:00
py-ase	science/py-ase: Update 3.19.0 -> 3.19.1	2020-04-04 07:30:04 +00:00
py-avogadrolibs	science/py-avogadrolib: Update 1.91.0-107 -> 1.93.0	2020-02-06 07:17:20 +00:00
py-cdo
py-chainer	Bump PORTREVISION for devel/protobuf shlib change	2020-06-03 18:32:05 +00:00
py-chainer-chemistry	science/py-chainer-chemistry: Update 0.6.0 -> 0.7.0	2019-12-22 03:10:17 +00:00
py-chempy	science/py-chempy: Update 0.7.10 -> 0.7.11	2020-05-30 07:28:06 +00:00
py-coards
py-DendroPy
py-dlib	science/dlib-cpp and science/py-dlib: Update to 19.20	2020-06-23 14:41:29 +00:00
py-eccodes-python	Update to 0.9.5	2020-01-17 16:40:13 +00:00
py-geolinks	Add py-geolinks 0.2.0	2020-01-18 18:23:32 +00:00
py-geomet	Add py-geomet 0.2.1	2019-12-29 12:46:17 +00:00
py-geometer	Update to 0.2.2	2020-02-17 19:43:41 +00:00
py-gpaw	Mark BROKEN	2020-05-17 18:33:45 +00:00
py-GPy	science/py-GPy: Change to USES=python because it builds fine with python-3.7	2020-04-08 06:35:03 +00:00
py-GPyOpt	science/py-GPyOpt: Update 1.2.5 -> 1.2.6	2020-04-08 06:39:07 +00:00
py-gsd	science/py-gsd: Update 1.9.3 -> 1.10.0	2020-01-03 03:58:46 +00:00
py-h5json	New port: science/py-h5json: Tools and library for representing HDF5 in JSON	2020-01-26 10:07:36 +00:00
py-h5py
py-kim-query	New port: science/py-kim-query: Helper routines for querying the OpenKIM repository	2020-05-03 19:38:33 +00:00
py-kinematics
py-kliff	New port: science/py-kliff: KIM-based Learning-Integrated Fitting Framework	2020-05-03 20:58:00 +00:00
py-liac-arff	Add py-liac-arff 2.4.0	2020-05-16 10:49:37 +00:00
py-lifelines
py-MDAnalysis	Unbreak bulk -a	2020-06-13 15:05:44 +00:00
py-MDAnalysisTests	Unbreak bulk -a	2020-06-13 15:05:44 +00:00
py-mdp
py-mlpy	Deprecate a few ports	2020-02-23 15:25:53 +00:00
py-mmtf-python
py-molmod	science/py-molmod: Update 1.4.7 -> 1.4.8	2020-06-26 01:57:29 +00:00
py-moltemplate	science/py-moltemplate: Update 2.17.7 -> 2.17.8	2020-05-29 05:30:36 +00:00
py-netCDF4
py-obspy	- Update to 1.2.1	2020-03-12 03:58:15 +00:00
py-oddt	science/py-oddt: Update 0.6 -> 0.7	2019-12-27 05:12:21 +00:00
py-OpenFermion	science/py-OpenFermion: Update 0.10.0 -> 0.11.0	2020-04-07 21:49:28 +00:00
py-openpiv	science/py-openpiv: update to 0.22.0	2020-06-28 11:40:46 +00:00
py-paida
py-paramz
py-phono3py	Bump 37 ports depending on math/openblas through USES=blaslapack:openblas because after the recent math/openblas update the library name changed in openblas	2020-05-06 16:39:12 +00:00
py-phonopy	science/py-phonopy: Update 2.4.2 -> 2.5.0	2020-06-16 16:11:36 +00:00
py-pupynere
py-pyaixi
py-pycsw	Add py-pycsw 2.4.2	2020-01-18 18:23:39 +00:00
py-pydicom	- Update to 1.4.2	2020-04-22 08:01:18 +00:00
py-PyFR	science/py-PyFR: Update 1.9.0 -> 1.10.0	2020-05-29 05:48:10 +00:00
py-pygeodesy
py-pygeometa	Add py-pygeometa 0.5.0	2020-01-18 18:23:44 +00:00
py-pygmo2	Add compiler:c++11-lang to USES to fix build on GCC-based systems:	2020-06-11 11:46:10 +00:00
py-pymatgen	- Update WWW	2020-05-26 09:32:48 +00:00
py-pymol	pymol fails to build with python 2.7	2020-05-29 08:42:46 +00:00
py-pyosf
py-PyQuante	Deprecate a few ports	2020-02-23 15:25:53 +00:00
py-pysal
py-pyteomics	Add DF, GRAPHICS, TDA, UNIMOD and XML options	2020-05-21 20:44:52 +00:00
py-qcelemental	science/py-qcelemental: Update 0.11.0 -> 0.12.0	2020-01-12 21:07:37 +00:00
py-qcengine	Move sysutils/py-cpuinfo -> sysutils/py-py-cpuinfo to match the PyPI name	2020-05-18 18:56:59 +00:00
py-qspin
py-quantities	science/py-quantities: Update 0.12.3 -> 0.12.4	2020-01-12 07:24:33 +00:00
py-rmf	Move devel/swig30 to devel/swig and update to 4.0.1	2020-06-17 18:17:45 +00:00
py-rmsd
py-ruffus
py-scikit-fuzzy	science/py-scikit-fuzzy: Change to default python3	2020-05-21 00:20:33 +00:00
py-scikit-learn	- Update WWW	2020-06-17 09:35:01 +00:00
py-scikit-optimize	Add PLOTS option	2020-04-22 21:28:17 +00:00
py-scikit-sparse
py-scimath
py-scipy	Revert r524969 and unbreak bulk -a	2020-02-02 16:40:43 +00:00
py-scoria	science/py-scoria: Update 1.0.4 -> 1.0.5	2020-03-28 04:04:51 +00:00
py-SimpleSpectral
py-spglib	science/py-spglib: Update 1.14.1 -> 1.15.1	2020-05-30 09:17:34 +00:00
py-tensorflow	Bump devel/jsoncpp consumers after r540853.	2020-06-30 17:46:18 +00:00
py-veusz	Update py-sip to 4.19.21 and qscintilla2 to 2.11.4	2020-04-11 05:04:40 +00:00
py-ws2300	Deprecate a few ports	2020-02-23 15:25:53 +00:00
pybrain	Sanitize COMMENT per Section 5.6 of the FreeBSD Porter's Handbook (part 4).	2020-05-27 15:31:55 +00:00
pynn	- Update to 0.9.5	2020-02-22 15:05:40 +00:00
qbox	Update science/qbox: 1.71.2 -> 1.71.3	2020-06-15 02:53:07 +00:00
qcl
qiskit-aer	science/qiskit-aer: Update 0.5.1 -> 0.5.2	2020-06-06 04:41:55 +00:00
qmcpack	Bump 46 ports depending on math/openblas because the after the recent math/openblas update the library name changed in openblas.	2020-05-06 16:11:14 +00:00
quantum-espresso	science/quantum-espresso: Update 6.4.1 -> 6.5	2019-12-31 19:32:59 +00:00
quantum-espresso-pseudopotentials
qwalk
R-cran-AMORE	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-bayesm	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-cmprsk	- Update to 2.2-10	2020-06-14 12:16:54 +00:00
R-cran-DCluster	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-e1071	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-eco	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-Epi	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-epicalc	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-etm	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-FAdist	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-fastICA	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-kernlab	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-snow	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-som	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
R-cran-udunits2	math/R: Update to version 4.0.0	2020-05-05 16:07:53 +00:00
rdkit	Convert the tree to use PY_PILLOW	2020-03-24 19:54:57 +00:00
rmf	Fix build with hdf5 1.10.6	2020-01-01 16:31:57 +00:00
rubygem-ai4r
rubygem-cdo	Update to 1.5.1	2020-05-16 11:04:45 +00:00
rubygem-rgeo
rubygem-rgeo-geojson
rubygem-rgeo-proj4
rubygem-rgeo-shapefile
rubygem-ruby-dcl
rubygem-ruby-netcdf
scidavis	science/scidavis:	2020-05-27 20:10:56 +00:00
siesta
sigrok-cli
sigrok-firmware
sigrok-firmware-fx2lafw
sigrok-firmware-utils
silo
simbody	Bump 37 ports depending on math/openblas through USES=blaslapack:openblas because after the recent math/openblas update the library name changed in openblas	2020-05-06 16:39:12 +00:00
simgrid	science/simgrid: Update 3.24 -> 3.25	2020-05-30 06:16:04 +00:00
simint
simlib
simsmith	Sanitize COMMENT per Section 5.6 of the FreeBSD Porter's Handbook (part 6).	2020-05-28 08:43:29 +00:00
smoldyn
sparta	- Update net/openmpi to 4.0.3 (openmpi 1 is deprecated)	2020-04-19 09:49:02 +00:00
spglib	science/spglib: Update 1.12.2 -> 1.15.1	2020-05-30 05:58:05 +00:00
step	Update KDE's Application (release-service) to 20.04.2	2020-06-13 08:14:07 +00:00
svmlight
szip
teem
tfel	science/tfel: update to version 3.3	2019-12-21 19:53:14 +00:00
tinker
udunits
v_sim
vipster	science/vipster: Update 1.18b-174 -> 1.18b.20200514 (to the current revision)	2020-05-15 03:46:25 +00:00
vmd	Return dbn's ports to the pool after safekeeping his commit bit.	2020-02-03 20:21:08 +00:00
voro++
votca	science/votca: Update 1.6 -> 1.6.1	2020-06-24 02:07:28 +00:00
wannier90	science/wannier90: Update 3.0.0 -> 3.1.0	2020-03-08 02:34:49 +00:00
wwplot	science/wwplot: Update 0.0.7 -> 0.0.8	2020-01-25 17:53:30 +00:00
wxmacmolplt	x11-toolkits/wxgtk30: Update to 3.0.5.1	2020-05-17 05:55:12 +00:00
xcrysden	science/xcrysden: Update 1.5.60 -> 1.6.2	2020-05-16 20:16:48 +00:00
xdrawchem
xfce4-equake-plugin
xtb	science/xtb: update to release 6.3.1	2020-06-15 23:23:15 +00:00
yoda	science/yoda: Update 1.8.0 -> 1.8.2	2020-05-26 08:52:41 +00:00
Makefile	New port: science/py-pygmo2: Python platform to perform parallel computations of optimisation tasks	2020-06-09 18:53:01 +00:00