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b057defb54
freebsd-ports/biology
History
Wen Heping b057defb54 - Update to 2.3.5 
- Add LICENSE
- Remove pkg-message since license changed upstream
- Do not install test files as example
2013-08-20 14:11:56 +00:00
..
adun
ariadne . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 14:10:02 +00:00
artemis Decommissioning java 1.5 (EOLed since October 2009): 2012-12-10 11:25:27 +00:00
avida - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
babel . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 19:01:47 +00:00
biococoa - cleanup comments 2012-10-13 13:39:56 +00:00
biojava Remove hardcoded extract dependency on diablo-jdk16, directly use USE_ZIP 2012-12-11 07:26:38 +00:00
blast - Take maintainership 2012-10-01 14:55:55 +00:00
blat . remove pkg-plist (along with the previous commit). 2013-06-19 18:44:32 +00:00
boinc-simap Use bsd.port.options.mk instead of bsd.port.{pre|post}.mk 2013-04-29 12:20:35 +00:00
chemeq . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 20:01:30 +00:00
clustalw
consed
crux - adoption of optionsNG 2013-03-18 06:48:55 +00:00
dotter - Mark broken checksum mismatch 2013-03-25 01:41:31 +00:00
embassy Convert from USE_MOTIF to USES=motif 2013-07-09 21:49:35 +00:00
emboss - update libdg to 2.1.0 2013-08-09 14:05:52 +00:00
fasta Fix some PORT_OPTIONS conversions 2013-06-30 20:53:06 +00:00
fasta3 - Update to 36.3.6 2013-07-19 14:08:02 +00:00
fastdnaml . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 13:35:55 +00:00
finchtv - Reassign to the heap at maintainer's request 2012-10-01 14:45:16 +00:00
fluctuate . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 12:43:28 +00:00
garlic
genpak - update libdg to 2.1.0 2013-08-09 14:05:52 +00:00
gff2ps . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 18:56:37 +00:00
gmap
gperiodic . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 19:05:47 +00:00
grappa
hmmer - Convert to new perl framework 2013-08-03 08:45:51 +00:00
iolib - Update to 7.31.0 2013-07-11 16:26:26 +00:00
jalview Decommissioning java 1.5 (EOLed since October 2009): 2012-12-10 11:25:27 +00:00
lagan - Convert to new perl framework 2013-08-03 13:44:00 +00:00
lamarc - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
libgenome biology/libgenome: Mark jobs unsafe 2013-08-14 09:53:39 +00:00
libsbml - adoption of optionsNG 2013-03-18 06:50:12 +00:00
linux-foldingathome
mafft Mark as broken on sparc64: depends on thread-local storage, which is not 2012-09-08 08:30:39 +00:00
mapm3
migrate - Update to 3.5.1 2013-05-26 07:49:47 +00:00
molden - Update to 5.0.6 2013-04-26 06:57:37 +00:00
mopac - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
mrbayes
mummer
muscle
ncbi-toolkit Convert from USE_MOTIF to USES=motif 2013-07-09 21:49:35 +00:00
njplot Convert from USE_MOTIF to USES=motif 2013-07-10 07:33:24 +00:00
ortep3 . introdice optionsNG to the port; 2013-06-19 20:06:59 +00:00
p5-AcePerl - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-ASN1-EntrezGene
p5-Bio-Das - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-Das-Lite - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-GFF3 - Pet portlint: remove blank line among *_DEPENDS 2013-08-06 13:03:54 +00:00
p5-Bio-Glite - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-Graphics - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-MAGETAB - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-NEXUS - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-Phylo - Convert to new perl framework 2013-08-02 18:52:07 +00:00
p5-Bio-SCF - Convert to new perl framework 2013-08-06 08:50:49 +00:00
p5-bioperl - Convert to new perl framework 2013-08-06 08:50:49 +00:00
p5-bioperl-run
paml - Trim Makefile headers 2013-06-01 14:22:35 +00:00
phd2fasta Remove unneeded escaping 2013-04-26 16:23:13 +00:00
phrap
phred
phylip - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
phyml - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
platon
plink Add new ports biology/plink [1] and biology/plinkseq [2]: 2012-09-27 09:59:25 +00:00
plinkseq Fix build with protobuf-2.5.0 2013-03-21 14:09:22 +00:00
povchem - remove empty files 2013-02-15 08:57:19 +00:00
primer3 - Update to 2.3.5 2013-08-20 14:11:56 +00:00
protomol - adoption of optionsNG 2013-03-18 06:54:39 +00:00
psi88 . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 19:54:13 +00:00
py-biopython - update to 1.60 2012-09-25 08:06:42 +00:00
pycogent - Update to 1.5.3 2012-10-08 03:17:02 +00:00
pyfasta - Trim Makefile headers 2013-06-01 14:22:35 +00:00
pymol
python-nexus
rasmol Convert to USES=imake 2013-06-28 18:32:25 +00:00
recombine . NOPORTDOCS -> PORT_OPTIONS:MDOCS; 2013-06-19 19:15:14 +00:00
ruby-bio - adoption of optionsNG 2013-03-18 06:55:42 +00:00
seaview - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
seqan Replace USE_GCC=4.6+ and USE_GCC=4.4+ by USE_GCC=yes. 2013-08-17 16:27:24 +00:00
seqio Remove stale (since r321246) pkg-plist file. 2013-06-19 21:04:36 +00:00
sim4 . add license (GPLv2); 2013-06-19 16:36:53 +00:00
ssaha - Reassign to the heap at maintainer's request 2012-10-01 14:45:16 +00:00
t_coffee - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
tinker biology/tinker: Regenerate distinfo to unbreak fetch 2013-08-18 11:38:34 +00:00
treepuzzle
treeviewx - Reassign to the heap at maintainer's request 2012-10-01 14:45:16 +00:00
tRNAscan-SE - Convert to new perl framework 2013-08-03 08:45:51 +00:00
ugene - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
velvet
wise - Convert to new perl framework 2013-08-03 13:44:00 +00:00
xmolwt - Remove MAKE_JOBS_SAFE variable 2013-08-14 22:35:50 +00:00
Makefile KDE3 and QT3 expired on 2013-07-01, remove these ports. 2013-07-26 19:19:20 +00:00