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freebsd-ports/science
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Bryan Drewery 5b5a90256d Update USE_GITHUB so it does not require GH_COMMIT. 
Using this new scheme allows only setting the _tag_ or _commit hash_ in
GH_TAGNAME and not having to know the hash for a tag.  This scheme will
download a tarball that has a different checksum than before due to a changed
directory name for extraction.

The following MASTER_SITES are provided to retain the old checksum and
directory structure (that require GH_COMMIT):
  GH -> GHL
  GITHUB -> GITHUB_LEGACY

Differential Revision:	https://reviews.freebsd.org/D748
Submitted by:	amdmi3
Reviewed by:	mat, swills, antoine, bdrewery
With hat:	portmgr
2015-03-19 16:44:57 +00:00
..
2d-rewriter Cleanup plist 2014-11-12 18:48:53 +00:00
afni Fix some _DEPENDS 2015-01-24 19:27:27 +00:00
avogadro - Switch to linguisttools_build 2015-02-27 16:47:04 +00:00
bddsolve science/bddsolve: Set environment, use CXXFLAGS, cleanup 2015-02-25 12:01:52 +00:00
bft
bodr Cleanup plist 2014-11-12 18:48:53 +00:00
brian - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
buddy Remove Author from pkg-descr and white space fixes 2015-03-02 23:41:59 +00:00
cdcl Cleanup plist 2014-11-12 18:48:53 +00:00
cdf Cleanup plist 2014-11-12 18:48:53 +00:00
cdo - Update to 1.8.14 2015-01-18 10:39:51 +00:00
cgnslib - Update to 1.8.14 2015-01-18 10:39:51 +00:00
cgribex - Use INSTALL_TARGET=install-strip instead of STRIP_CMD 2015-01-19 19:51:01 +00:00
checkmol
chemical-mime-data Split devel/gettext in devel/gettext-runtime and devel/gettext-tools. The 2014-11-29 18:22:32 +00:00
chemtool Cleanup plist 2014-11-12 18:48:53 +00:00
chemtool-devel Cleanup plist 2014-11-12 18:48:53 +00:00
clhep science/clhep: update 2.2.0.3 -> 2.2.0.4 2015-03-07 20:56:36 +00:00
colt
crf++ Reset maintainership: 2014-12-02 22:40:56 +00:00
dcl Cleanup plist 2014-11-12 18:48:53 +00:00
devisor Cleanup plist 2014-11-12 18:48:53 +00:00
dlpoly-classic - Update net/openmpi to 1.8.4 2014-12-26 14:24:12 +00:00
ecs - Update to 1.8.14 2015-01-18 10:39:51 +00:00
epte
fastcap Cleanup plist 2014-11-12 18:48:53 +00:00
fasthenry Cleanup plist 2014-11-12 18:48:53 +00:00
fisicalab Cleanup plist 2014-11-12 18:48:53 +00:00
fvcom Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
fvcom-mpi - Update net/openmpi to 1.8.4 2014-12-26 14:24:12 +00:00
fvm - Update to 1.8.14 2015-01-18 10:39:51 +00:00
gchemutils Cleanup plist 2014-11-12 18:48:53 +00:00
getdp Cleanup plist 2014-11-12 18:48:53 +00:00
ghemical - Upadate biology/mopac to version 1.15 2014-12-16 22:10:23 +00:00
ghmm Reset maintainership: 2014-12-02 22:40:56 +00:00
gnudatalanguage - Update to 1.8.14 2015-01-18 10:39:51 +00:00
gramps - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
grib_api Bump portrevision after png update 2014-12-25 20:54:41 +00:00
gromacs Upgrade to 5.0.4. 2015-02-17 01:46:24 +00:00
gsmc
gtamsanalyzer Cleanup plist 2014-11-12 18:48:53 +00:00
gwyddion Upgrade to 2.40. 2015-02-17 01:33:03 +00:00
h5utils - Update to 1.8.14 2015-01-18 10:39:51 +00:00
harminv - Switch to guile2 2015-03-10 20:45:19 +00:00
hdf - Use CONFLICTS_INSTALL instead of CONFLICTS 2015-03-18 15:33:52 +00:00
hdf5 - Fix SZIP option 2015-02-18 16:19:57 +00:00
hdf-java - Update to 1.8.14 2015-01-18 10:39:51 +00:00
hs-bio Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
InsightToolkit Cleanup plist 2014-11-12 18:48:53 +00:00
isaac-cfd Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
jmol Cleanup plist 2014-11-12 18:48:53 +00:00
jstrack Change my non-FreeBSD MAINTAINER mail to bofh@ 2014-12-24 00:14:11 +00:00
kalzium Update KDE SC to 4.14.3 2015-03-11 23:11:47 +00:00
kst2 - Switch my ports to USE_QT4=linguisttools_build and adjust Qt components 2015-02-24 21:46:28 +00:00
lamprop Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
libctl science/libctl: update to 3.2.2 2015-01-04 12:56:56 +00:00
libghemical - Upadate biology/mopac to version 1.15 2014-12-16 22:10:23 +00:00
libint science: Fix mpqc, libint and unbreak ghemical, and libghemical atomically 2014-09-25 11:04:02 +00:00
libkml - Use INSTALL_TARGET=install-strip instead of STRIP_CMD 2015-01-20 11:46:08 +00:00
liblinear Drop maintainership as I no longer use these software nor have time and 2015-01-16 17:28:13 +00:00
liboglappth Cleanup plist 2014-11-12 18:48:53 +00:00
libquantum
libsvm Remove Author from pkg-descr and white space fixes 2015-03-02 23:41:59 +00:00
libsvm-python Remove Author from pkg-descr and white space fixes 2015-03-02 23:41:59 +00:00
linsmith Cleanup plist 2014-11-12 18:48:53 +00:00
massxpert Bump portrevision after png update 2014-12-25 20:54:41 +00:00
mbdyn - Use blaslapack 2015-02-05 22:51:22 +00:00
mcstas science/mcstas: USE_BISON is not used 2015-01-05 18:23:27 +00:00
mcstas-comps New port: science/mcstas-comps 2015-01-05 09:38:16 +00:00
medit cleanup plist 2014-12-20 19:35:10 +00:00
meep - Switch to guile2 2015-03-10 20:45:19 +00:00
mei Cleanup plist 2014-11-12 18:48:53 +00:00
metaf2xml Remove no longer needed patch, this completes r378490. 2015-02-10 20:17:17 +00:00
minc2 Update USE_GITHUB so it does not require GH_COMMIT. 2015-03-19 16:44:57 +00:00
mol2ps cleanup plist 2014-12-20 19:35:10 +00:00
mpb - Update to 1.8.14 2015-01-18 10:39:51 +00:00
mpqc Cleanup plist 2014-11-12 18:48:53 +00:00
mpqc-mpich
ncs Uses blaslapack.mk. 2015-01-10 15:33:26 +00:00
netcdf - Update to 4.3.3.1 2015-03-01 14:33:17 +00:00
netcdf-cxx
netcdf-fortran - Update to 4.4.1 2014-09-13 15:19:28 +00:00
nifticlib
openbabel Cleanup plist 2014-11-12 18:48:53 +00:00
openkim Cleanup plist 2014-11-12 18:48:53 +00:00
p5-Algorithm-SVMLight Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-3DBuilder Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Bond-Find Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Canonicalize Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Elements Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-MDLMol Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-Mopac Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-PDB Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-SLN Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-SMARTS Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-SMILES Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-VRML Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-File-XYZ Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-FormulaPattern Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-InternalCoords Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Isotope Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-MacroMol Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-MidasPattern Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Mok Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Mol Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Pattern Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Reaction Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Chemistry-Ring Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Geo-BUFR - Update to 1.31 2015-03-12 15:23:36 +00:00
p5-Geo-Coordinates-Converter Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Geo-Coordinates-Converter-iArea Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Geo-ReadGRIB Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Geo-WebService-Elevation-USGS - Update to 0.101 2015-01-04 17:12:32 +00:00
p5-PerlMol Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
p5-Physics-Unit Change the way Perl modules are installed, update the default Perl to 5.18. 2014-11-26 13:08:24 +00:00
paje Cleanup plist 2014-11-12 18:48:53 +00:00
paraview Upgrade Paraview to 4.3.1. 2015-03-10 06:40:55 +00:00
pnetcdf - Update to 1.6.0 2015-02-18 16:20:08 +00:00
psychopy - Update to 1.81.03 2014-12-27 12:38:53 +00:00
pulseview
py-cdo - Add py-cdo 1.2.3 2014-09-13 15:18:32 +00:00
py-coards - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
py-DendroPy Cleanup plist 2014-11-12 18:48:53 +00:00
py-h5py - Update to 1.8.14 2015-01-18 10:39:51 +00:00
py-hcluster Canonicalize some dependencies on numpy 2015-01-23 15:21:52 +00:00
py-mdp Change my non-FreeBSD MAINTAINER mail to bofh@ 2014-12-24 00:14:11 +00:00
py-mlpy Canonicalize some dependencies on numpy 2015-01-23 15:21:52 +00:00
py-netCDF4 - Update to 1.8.14 2015-01-18 10:39:51 +00:00
py-obspy Fix compilation after recent numpy patch. 2014-10-23 15:23:27 +00:00
py-paida - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
py-pupynere - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
py-pyaixi Canonicalize a few licenses 2014-12-07 00:07:47 +00:00
py-pydap - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
py-pydicom - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
py-pysal Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
py-scikit-learn Explicitly link with libblas to avoid errors like 2014-10-30 11:52:48 +00:00
py-scimath - Unbreak 2015-03-14 15:07:54 +00:00
py-scipy - Update to 0.15.1 2015-02-07 20:11:53 +00:00
py-ws2300 - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
pybrain - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
pycdf Canonicalize some dependencies on numpy 2015-01-23 15:21:52 +00:00
pynn Cleanup plist 2014-11-12 18:48:53 +00:00
pyteomics - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
pyteomics.biolccc - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
qcl
qtresistors
R-cran-AMORE Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-bayesm Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-DCluster Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-e1071 Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-eco Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-Epi Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-epicalc Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-snow Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
R-cran-som Update the default version of GCC in the Ports Collection from GCC 4.7.4 2014-09-10 20:50:31 +00:00
rubygem-ai4r
rubygem-cdo - Add rubygem-cdo 1.2.3 2014-09-13 15:18:54 +00:00
rubygem-netcdf
rubygem-ruby-dcl science/rubygem-ruby-dcl: Fix category. 2015-03-09 17:36:19 +00:00
sigrok-cli
sigrok-firmware science/sigrok-firmware: update 20140418 -> 20150123 2015-03-03 12:32:36 +00:00
sigrok-firmware-fx2lafw cleanup plist 2014-12-20 19:35:10 +00:00
sigrok-firmware-utils Switch default python3 version from 3.3 to 3.4. 2015-01-10 23:15:27 +00:00
silo - Switch to linguisttools_build 2015-02-27 16:45:50 +00:00
simlib
simsmith
step Update KDE SC to 4.14.3 2015-03-11 23:11:47 +00:00
svmlight - Add LICENSE 2015-03-07 03:18:42 +00:00
szip - Use LIBS 2015-02-18 16:19:52 +00:00
udunits - Update to 2.2.18 2015-02-18 16:20:13 +00:00
v_sim Upgrade to 3.7.2. 2014-12-22 14:36:52 +00:00
veusz - Convert ports of science/ and security to new USES=python 2014-10-24 16:50:42 +00:00
vmd science/vmd: Improve cc/gcc replacement patterns for Makefiles 2015-03-15 13:11:48 +00:00
voro++ Cleanup plist 2014-11-12 18:48:53 +00:00
xfce4-equake-plugin The FreeBSD Xfce team proudly presents Xfce 4.12. 2015-03-05 22:52:30 +00:00
xmakemol cleanup plist 2014-12-20 19:35:10 +00:00
Makefile science/rubygem-ruby-dcl: Add port 2015-03-09 16:58:12 +00:00