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6a176d152d
freebsd-ports/science
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Greg Lewis 6a176d152d . Update to 2.3_4. 
. Fix Java version detection for OpenJDK.
. Remove RESTRICTED and manual download as the source is now freely available.

PR:		164814
Approved by:	Yuri Khotyaintsev <yuri@irfu.se> (MAINTAINER)
2012-02-07 04:00:04 +00:00
..
2d-rewriter - remove MD5 2011-07-03 13:22:24 +00:00
2dhf adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
abinit adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
afni The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
avogadro - Fix paths in installed CMake modules. 2011-09-06 23:30:43 +00:00
bddsolve Mark as broken on powerpc. 2011-12-28 06:55:26 +00:00
bft - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
bodr - remove MD5 2011-07-03 13:22:24 +00:00
brian - Update to 1.3.1 2011-12-31 08:04:46 +00:00
buddy Remove more tags from pkg-descr files fo the form: 2011-10-24 04:17:37 +00:00
cdcl - remove MD5 2011-07-03 13:22:24 +00:00
cdf Mark broken on powerpc as well as sparc64. (In fact, on all the tier-2s.) 2011-11-10 05:38:32 +00:00
cdo - Update to 1.5.3 2011-11-01 15:08:47 +00:00
cgnslib - Bump PORTREVISION for science/hdf5-18 shlib change 2011-07-15 07:00:46 +00:00
checkmol - remove MD5 2011-07-03 13:22:24 +00:00
chemical-mime-data - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
chemtool - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
chemtool-devel - remove MD5 2011-07-03 13:22:24 +00:00
clhep Remove USE_GNOME=gnometarget from ports. It has been a empty keyword since 2011-08-11 19:20:17 +00:00
colt Now that the Java 1.3 and Java 1.4 ports are deprecated and will expire soon, 2011-07-21 05:03:02 +00:00
crf++ - remove MD5 2011-07-03 13:22:24 +00:00
dcl - remove MD5 2011-07-03 13:22:24 +00:00
devisor Now that the Java 1.3 and Java 1.4 ports are deprecated and will expire soon, 2011-07-21 05:03:02 +00:00
dtiquery - remove MD5 2011-07-03 13:22:24 +00:00
ecs - Bump PORTREVISION for science/hdf5-18 shlib change 2011-07-15 07:00:46 +00:00
elmer-eio - remove MD5 2011-07-03 13:22:24 +00:00
elmer-hutiter adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
elmer-matc - remove MD5 2011-07-03 13:22:24 +00:00
elmer-meshgen2d - remove MD5 2011-07-03 13:22:24 +00:00
elmergrid - remove MD5 2011-07-03 13:22:24 +00:00
elmerpost Mark as broken on recent i386-9: does not compile. 2011-08-29 04:10:04 +00:00
epte - remove MD5 2011-07-03 13:22:24 +00:00
euler Remove USE_GNOME=gnometarget from ports. It has been a empty keyword since 2011-08-11 19:20:17 +00:00
fastcap fix the clang build 2011-08-20 11:28:54 +00:00
fasthenry The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
felt - remove MD5 2011-07-03 13:22:24 +00:00
flounder - Unbreak - fix build with latest x11-toolkits/fltk 2011-11-17 10:41:36 +00:00
fvm - Bump PORTREVISION for science/hdf5-18 shlib change 2011-07-15 07:00:46 +00:00
g3data adopt 2011-08-12 09:07:47 +00:00
gamess adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
gchemutils Update to 0.12.10. 2011-11-22 14:49:25 +00:00
gdis - remove MD5 2011-07-03 13:22:24 +00:00
getdp - remove MD5 2011-07-03 13:22:24 +00:00
ghemical - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
ghmm - remove MD5 2011-07-03 13:22:24 +00:00
gnudatalanguage - Chase plplot shlib bump 2011-11-22 16:09:16 +00:00
gramps - update to 3.3.0 2011-08-11 02:25:21 +00:00
gromacs - update fftw3* to 3.3 [1], and adjust dependent ports 2011-10-17 10:08:33 +00:00
gsmc Remove more tags from pkg-descr files fo the form: 2011-10-24 04:17:37 +00:00
gsystem Remove more tags from pkg-descr files fo the form: 2011-10-24 04:17:37 +00:00
gtamsanalyzer - drop MD5 2011-04-07 18:26:01 +00:00
gwyddion - update fftw3* to 3.3 [1], and adjust dependent ports 2011-10-17 10:08:33 +00:00
h5utils h5utils is a set of utilities for visualization and conversion of 2011-03-18 19:42:35 +00:00
harminv - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
hdf - remove MD5 2011-07-03 13:22:24 +00:00
hdf5 - remove MD5 2011-07-03 13:22:24 +00:00
hdf5-18 - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
hdf-java - Bump PORTREVISION for science/hdf5-18 shlib change 2011-07-15 07:00:46 +00:00
hs-bio - Update to 0.5.0.1 2011-07-10 01:03:33 +00:00
ics - remove MD5 2011-07-03 13:22:24 +00:00
InsightToolkit - remove MD5 2011-07-03 13:22:24 +00:00
isaac-cfd - remove MD5 2011-07-03 13:22:24 +00:00
jmol - remove MD5 2011-07-03 13:22:24 +00:00
jstrack - Drop maintainership for this port -- I don't use it any more 2011-08-24 17:01:07 +00:00
kalzium The KDE/FreeBSD team is pleased to announce KDE SC 4.7.4, which 2012-01-25 10:21:01 +00:00
kmovisto Fix master_site 2011-08-02 16:22:15 +00:00
kst Drop maintainership (I don't use Qt3 ports anymore) 2011-07-07 17:34:13 +00:00
kst2 Add patch from upstream to fix build on i386 2011-10-31 14:06:05 +00:00
lamprop - Update to 1.3.3 2011-06-23 10:17:37 +00:00
libctl Remove a special configuration for versions of FreeBSD before 7.0 2011-09-18 20:01:12 +00:00
libghemical Use libdata/pkgconfig instead of lib/pkgconfig, 2011-08-25 02:01:42 +00:00
libint - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
libkml - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
liblinear - Update to 1.8 2011-05-02 12:19:32 +00:00
liboglappth - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
libquantum - remove MD5 2011-07-03 13:22:24 +00:00
libsvm The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
libsvm-python The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
linsmith - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
massxpert Remove CMAKE_USE_PTHREAD from the ports using it. 2011-11-14 03:26:46 +00:00
mayavi - Fix Coredump 2011-03-18 09:59:55 +00:00
mbdyn adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
mcstas Change maintainer address to my FreeBSD address 2011-09-15 12:33:27 +00:00
medit Upgrade to 2011.03.06. 2011-03-07 20:59:00 +00:00
meep - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
minc - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
minc2 - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
mol2ps - remove MD5 2011-07-03 13:22:24 +00:00
mpb adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
mpqc adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
mpqc-mpich
ncs adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
netcdf - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
netcdf3-ftn
netcdf4 - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
netcdf-ftn
nifticlib - remove MD5 2011-07-03 13:22:24 +00:00
omnetpp Remove optional dependency on graphics/giftrans, which is about to be removed 2011-10-09 01:39:20 +00:00
openbabel - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
ovt . Update to 2.3_4. 2012-02-07 04:00:04 +00:00
p5-Algorithm-SVMLight - remove MD5 2011-07-03 13:22:24 +00:00
p5-Chemistry-3DBuilder - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Bond-Find - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Canonicalize - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Elements - Cleaning MD5 in perl@'s ports 2011-05-17 11:14:02 +00:00
p5-Chemistry-File-MDLMol - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-File-Mopac - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-File-PDB - remove MD5 2011-07-03 13:22:24 +00:00
p5-Chemistry-File-SLN - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-File-SMARTS - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-File-SMILES - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-File-VRML - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-File-XYZ - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-FormulaPattern - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-InternalCoords - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Isotope - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-MacroMol At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
p5-Chemistry-MidasPattern - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Mok - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Mol - remove MD5 2011-07-03 13:22:24 +00:00
p5-Chemistry-Pattern - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Reaction - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Chemistry-Ring - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Geo-BUFR BUFR = Binary Universal Form for the Representation of meteorological data. 2011-03-10 06:15:55 +00:00
p5-Geo-Coordinates-Converter At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
p5-Geo-Coordinates-Converter-iArea - Add p5-Geo-Coordinates-Converter-iArea 0.14 2011-06-12 16:18:59 +00:00
p5-Geo-ReadGRIB - remove MD5 2011-07-03 13:22:24 +00:00
p5-Geo-WebService-Elevation-USGS - Update to 0.010 2012-01-07 17:37:32 +00:00
p5-PerlMol - Replace ../../authors in MASTER_SITE_SUBDIR with CPAN:CPANID macro. 2011-06-20 09:03:27 +00:00
p5-Physics-Unit - remove MD5 2011-07-03 13:22:24 +00:00
paje - fix build with gcc46 2012-01-14 09:14:53 +00:00
paraview Update to 3.10.1 2011-08-16 21:55:45 +00:00
peekabot - Mark BROKEN: does not compile 2011-10-31 22:54:04 +00:00
pnetcdf
psi3 adjust linking and comments in dependent ports after the math/atlas update; 2011-11-22 11:14:10 +00:00
psychopy At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
py-biolccc Update to 1.3.0 2011-03-10 17:01:09 +00:00
py-DendroPy Update to 3.10.1 2012-01-31 23:23:38 +00:00
py-h5py - remove MD5 2011-07-03 13:22:24 +00:00
py-hcluster At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
py-mdp
py-mlpy At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
py-netCDF4 - Update to 0.9.8 2011-10-26 02:07:42 +00:00
py-obspy-core - update to 0.6.1 2012-01-11 05:33:54 +00:00
py-obspy.db - update to 0.5.1 2012-01-11 05:41:26 +00:00
py-obspy.gse2 - update to 0.5.1 2012-01-11 05:41:26 +00:00
py-obspy.imaging - update to 0.5.1 2012-01-11 05:41:26 +00:00
py-obspy.iris - update to 0.5.1 2012-01-11 05:52:18 +00:00
py-obspy.mseed - Updat to 0.5.0 2011-12-09 08:16:47 +00:00
py-obspy.signal - Update to 0.5.0 2011-12-13 03:13:41 +00:00
py-obspy.taup The obspy.taup package contains Python wrappers for iaspei-tau - a travel 2012-01-16 06:55:05 +00:00
py-obspy.wav - Update to 0.5.0 2011-12-09 08:26:04 +00:00
py-obspy.xseed - Update to 0.5.0 2011-12-09 08:26:04 +00:00
py-openbabel - remove MD5 2011-07-03 13:22:24 +00:00
py-paida - remove MD5 2011-07-03 13:22:24 +00:00
py-pydicom - remove MD5 2011-07-03 13:22:24 +00:00
py-scimath At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
py-scipy - Update to 0.10.0 2011-12-09 08:05:48 +00:00
py-ws2300 - New port science/py-ws2300 2011-07-01 20:23:41 +00:00
pybrain - remove MD5 2011-07-03 13:22:24 +00:00
pycdf At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
pynn - Update to 0.7.2 2011-11-03 12:59:20 +00:00
qcl Remove more tags from pkg-descr files fo the form: 2011-10-24 04:17:37 +00:00
qtresistors - remove MD5 2011-07-03 13:22:24 +00:00
R-cran-AMORE update math/R to 2.14.1, and adjust dependent ports 2012-01-18 23:04:08 +00:00
R-cran-bayesm update math/R to 2.14.1, and adjust dependent ports 2012-01-18 23:04:08 +00:00
R-cran-DCluster update math/R to 2.14.1, and adjust dependent ports 2012-01-18 23:04:08 +00:00
R-cran-eco update math/R to 2.14.1, and adjust dependent ports 2012-01-18 23:04:08 +00:00
R-cran-Epi - Update to 1.1.33 2012-01-26 11:34:06 +00:00
R-cran-epicalc - Update to 2.14.1.0 2012-02-05 02:21:43 +00:00
R-cran-snow - Add a new port: science/R-cran-snow 2012-01-31 13:14:19 +00:00
ruby-dcl The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
ruby-gphys - remove MD5 2011-07-03 13:22:24 +00:00
ruby-netcdf The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
rubygem-ai4r - Cannoicalize the WWW: [again], 2011-06-23 17:51:43 +00:00
silo - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
simlib - remove MD5 2011-07-03 13:22:24 +00:00
step The KDE/FreeBSD team is pleased to announce KDE SC 4.7.4, which 2012-01-25 10:21:01 +00:00
svmlight Fix fetch. 2011-07-08 04:07:55 +00:00
szip - Update distinfo because distfile was rerolled upstream [1] 2012-02-04 07:44:50 +00:00
udunits - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
v_sim - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
veusz Update to 1.12 2011-07-21 11:11:03 +00:00
vis5d+ - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
vmd re-assignment of echo_msg breaks 'make readme' 2011-12-20 19:33:30 +00:00
x11iraf - remove MD5 2011-07-03 13:22:24 +00:00
xmakemol Remove USE_GNOME=gnometarget from ports. It has been a empty keyword since 2011-08-11 19:20:17 +00:00
xmds The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
Makefile - Remove science/R-cran-survival which has been already included in math/R 2012-02-03 12:04:14 +00:00