Andrej Zverev 6f12870030 - convert to the new perl5 framework ... Approved by: portmgr (bapt@, blanket)		2013-09-07 07:44:26 +00:00
..
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	Update to latest GNUstep core libraries.	2013-08-28 18:26:01 +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	- convert to the new perl5 framework	2013-09-07 07:44:26 +00:00
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	Fix typos in COMMENT	2012-07-25 06:32:06 +00:00
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	Fix typos in COMMENT	2012-07-24 07:19:21 +00:00
ncbi-toolkit	- Make ports use the libc provided iconv implementation on 10-CURRENT	2013-09-04 18:06:07 +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	- Add WWW	2013-08-29 17:16:52 +00:00
p5-Bio-ASN1-EntrezGene	- convert to the new perl5 framework	2013-09-07 07:44:26 +00:00
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	- convert to the new perl5 framework	2013-09-07 07:44:26 +00:00
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	Make sure to respect CC and CXX, this fixes the build on head without gcc	2013-08-28 06:04:51 +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	Switch from libglut to freeglut and retire libglut. Libglut hasn't been	2012-08-04 22:52:02 +00:00
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	- convert to the new perl5 framework	2013-09-07 07:44:26 +00:00
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	- Disconnect ports removed in r325546	2013-08-29 02:28:57 +00:00