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Alex Kozlov 6f4e46eee7 - Update to 3.2 
- Convert to new options framework
- make py-scipy optional dependency
- Remove py-symeig, symeig routines come with mdp
- Add py-pp and libsvm-python OPTIONS
- Add OPTIONSFILE for sane make config across python versions
- Patch config.py to handle OSError as exception when it cant find libsvm.so
- Update and sort pkg-plist
- Add LICENSE

PR:	ports/169266
Submitted by:	koobs <koobs.freebsd@gmail.com>
Approved by:	Li-Lun "Leland" Wang <llwang@infor.org> (maintainer)
2012-08-08 21:27:15 +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
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
afni
s/X11BASE/LOCALBASE/, or equivalent.
2012-06-24 21:53:38 +00:00
avogadro
- Detect eigen2 by checking for .pc file, not min. port version.
2012-06-27 01:14:01 +00:00
bddsolve
Mark as broken on powerpc.
2011-12-28 06:55:26 +00:00
bft
Upgrade Code_Saturne to 2.0.
2012-07-07 15:15:56 +00:00
bodr
- remove MD5
2011-07-03 13:22:24 +00:00
brian
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
buddy
Remove more tags from pkg-descr files fo the form:
2011-10-24 04:17:37 +00:00
cdcl
- update to 5.4.5.
2012-06-14 05:25:29 +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
- Convert to new options framework
2012-06-18 16:41:51 +00:00
cgnslib
Upgrade to 3.1.3-4.
2012-07-07 15:15:13 +00:00
checkmol
- Bump PORTREVISION (freepascal ports were updated)
2012-04-19 06:51:44 +00:00
chemical-mime-data
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
chemtool
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
chemtool-devel
- update png to 1.5.10
2012-06-01 05:26:28 +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
- Update to 5.4.5
2012-06-14 05:15:47 +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
dlpoly-classic
DL_POLY is a general purpose classical molecular dynamics (MD) simulation
2012-04-17 17:35:33 +00:00
dtiquery
- remove MD5
2011-07-03 13:22:24 +00:00
ecs
add math/metis4 to math/Makefile; update math/metis to 5.0.2; add appropriate
2012-07-09 11:11:44 +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
- Update to 2.0.8
2012-08-06 07:19:41 +00:00
euler
- update png to 1.5.10
2012-06-01 05:26:28 +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
Switch from libglut to freeglut and retire libglut. Libglut hasn't been
2012-08-04 22:52:02 +00:00
fvm
Upgrade Code_Saturne to 2.0.
2012-07-07 15:15:56 +00:00
g3data
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
gamess
adjust linking and comments in dependent ports after the math/atlas update;
2011-11-22 11:14:10 +00:00
gchemutils
OptionsNG my ports.
2012-06-12 18:49:15 +00:00
gdis
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
getdp
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
ghemical
Switch from libglut to freeglut and retire libglut. Libglut hasn't been
2012-08-04 22:52:02 +00:00
ghmm
- remove MD5
2011-07-03 13:22:24 +00:00
gnudatalanguage
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
gramps
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
gromacs
- update fftw3* to 3.3 [1], and adjust dependent ports
2011-10-17 10:08:33 +00:00
gsmc
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
gsystem
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
gtamsanalyzer
- reset MAINTAINER
2012-06-26 05:44:19 +00:00
gwyddion
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
h5utils
- update png to 1.5.10
2012-06-01 05:26:28 +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
Add the three overlooked headers to the pkg-plist.
2012-04-23 21:09:10 +00:00
hdf5
- remove MD5
2011-07-03 13:22:24 +00:00
hdf5-18
- Update to 1.8.9
2012-06-06 16:45:22 +00:00
hdf-java
-Update to 2.8
2012-02-13 05:12:38 +00:00
hs-bio
- Teach the Haskell Cabal ports to use the new options framework
2012-08-03 02:30:07 +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
- Update to 12.2.23
2012-04-26 01:15:18 +00:00
jstrack
- Update to 3.3.3a
2012-03-18 04:47:23 +00:00
kalzium
- Detect eigen2 by checking for .pc file, not min. port version.
2012-06-27 01:14:01 +00:00
kmovisto
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
kst
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
kst2
- Convert my ports to new options framework
2012-07-27 11:03:38 +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
Fix typos and make small modifications in COMMENT (according to Porter's
2012-08-03 15:54:35 +00:00
liblinear
- Update to 1.8
2011-05-02 12:19:32 +00:00
liboglappth
Switch from libglut to freeglut and retire libglut. Libglut hasn't been
2012-08-04 22:52:02 +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
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
massxpert
- Convert USE_QT_VER=4 and QT_COMPONETS to USE_QT4
2012-06-06 06:44:37 +00:00
mayavi
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
mbdyn
add math/metis4 to math/Makefile; update math/metis to 5.0.2; add appropriate
2012-07-09 11:11:44 +00:00
mcstas
- Remove SITE_PERL from *_DEPENDS
2012-06-30 14:53:22 +00:00
medit
Switch from libglut to freeglut and retire libglut. Libglut hasn't been
2012-08-04 22:52:02 +00:00
meep
Replace USE_GCC=4.5+ by USE_GCC=4.6+ which has been transparently
2012-04-07 15:31:51 +00:00
mei
MEI stands for Mathematical Expression Interpreter.
2012-07-07 15:15:08 +00:00
minc
Update to version 1.5.1 [1]
2012-07-20 16:32:07 +00:00
minc2
Update to version 2.0.18 [1]
2012-07-20 16:33:32 +00:00
mol2ps
- Bump PORTREVISION (freepascal ports were updated)
2012-04-19 06:51:44 +00:00
mpb
adjust linking and comments in dependent ports after the math/atlas update;
2011-11-22 11:14:10 +00:00
mpqc
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
mpqc-mpich
Fix the two affected ports
2012-02-10 09:33:05 +00:00
ncs
Upgrade Code_Saturne to 2.0.
2012-07-07 15:15:56 +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
- Fix typos in COMMENT
2012-08-02 09:02:43 +00:00
omnetpp
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
openbabel
- Remove WITH_FBSD10_FIX, is no longer needed
2011-11-09 15:26:04 +00:00
ovt
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
p5-Algorithm-SVMLight
- Assign clsung's p5- ports to perl@
2012-05-01 01:47:10 +00:00
p5-Chemistry-3DBuilder
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Bond-Find
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Canonicalize
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Elements
- Cleaning MD5 in perl@'s ports
2011-05-17 11:14:02 +00:00
p5-Chemistry-File-MDLMol
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-File-Mopac
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-File-PDB
- Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or
2012-06-10 18:42:48 +00:00
p5-Chemistry-File-SLN
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-File-SMARTS
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-File-SMILES
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-File-VRML
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-File-XYZ
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-FormulaPattern
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-InternalCoords
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +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
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Mok
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Mol
- remove MD5
2011-07-03 13:22:24 +00:00
p5-Chemistry-Pattern
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Reaction
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Chemistry-Ring
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Geo-BUFR
- Update to 1.21
2012-02-08 07:25:19 +00:00
p5-Geo-Coordinates-Converter
- Update to 0.11
2012-07-01 07:04:48 +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
- Remove SITE_PERL from *_DEPENDS
2012-06-28 17:51:57 +00:00
p5-Physics-Unit
- Update to 0.53
2012-05-26 07:29:57 +00:00
paje
- reset MAINTAINER
2012-06-26 05:44:19 +00:00
paraview
- Convert USE_QT_VER=4 and QT_COMPONETS to USE_QT4
2012-06-06 06:44:37 +00:00
peekabot
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
pnetcdf
- Update to 1.3.0
2012-06-24 15:40:19 +00:00
psi3
adjust linking and comments in dependent ports after the math/atlas update;
2011-11-22 11:14:10 +00:00
psychopy
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-biolccc
Update to 1.4.0
2012-05-13 12:20:54 +00:00
py-DendroPy
Update to 3.12.0
2012-07-18 06:21:15 +00:00
py-h5py
- remove MD5
2011-07-03 13:22:24 +00:00
py-hcluster
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-mdp
- Update to 3.2
2012-08-08 21:27:15 +00:00
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 0.9.9
2012-03-06 06:32:28 +00:00
py-obspy-core
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.db
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.gse2
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.imaging
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.iris
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.mseed
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.signal
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.taup
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.wav
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
py-obspy.xseed
Fix typos and make small modifications in COMMENT (according to Porter's
2012-08-03 15:54:35 +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
Fix typos and make small modifications in COMMENT (according to Porter's
2012-08-03 15:54:35 +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 0.10.1
2012-05-23 07:48:47 +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 0.7.3
2012-04-11 07:17:21 +00:00
qcl
Remove more tags from pkg-descr files fo the form:
2011-10-24 04:17:37 +00:00
qtresistors
- Convert USE_QT_VER=4 and QT_COMPONETS to USE_QT4
2012-06-06 06:44:37 +00:00
R-cran-AMORE
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
R-cran-bayesm
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
R-cran-DCluster
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
R-cran-e1071
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
R-cran-eco
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
R-cran-Epi
- Update to 1.1.36
2012-06-30 03:31:07 +00:00
R-cran-epicalc
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
R-cran-snow
- Update to 0.3-10
2012-07-16 13:42:19 +00:00
R-cran-som
update math/R to 2.15.1, switch to the new options format, and
2012-06-26 23:57:00 +00:00
ruby-dcl
- Update to 1.7.0.
2012-07-25 01:23:45 +00:00
ruby-gphys
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
ruby-netcdf
- update to 0.6.6
2012-03-08 04:34:40 +00:00
rubygem-ai4r
- Cannoicalize the WWW: [again],
2011-06-23 17:51:43 +00:00
silo
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
simlib
- remove MD5
2011-07-03 13:22:24 +00:00
step
- Detect eigen2 by checking for .pc file, not min. port version.
2012-06-27 01:14:01 +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
- Remove unnecessary USE_PERL5
2012-05-06 09:35:33 +00:00
v_sim
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
veusz
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
vis5d+
- update png to 1.5.10
2012-06-01 05:26:28 +00:00
vmd
Update to 1.9.1.
2012-04-23 04:48:03 +00:00
x11iraf
Register CONFLICTS
2012-06-11 09:52:17 +00:00
xmakemol
Switch from libglut to freeglut and retire libglut. Libglut hasn't been
2012-08-04 22:52:02 +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
Complete the removal of ics to silence warnings on pointyhat.
2012-07-12 01:57:21 +00:00