Rene Ladan 357e5ae814 biology/consed: undeprecate, it presumably builds fine but it is restricted. ... Add a note to ports/LEGAL		2015-12-26 13:26:27 +00:00
..
ariadne	6 ports categories: Remove $PTHREAD_LIBS	2015-03-24 16:01:21 +00:00
artemis	- Add empty directory to plist	2015-03-11 14:41:53 +00:00
avida	mark some of the ports that don't build on powerpc64 for me	2015-12-13 16:07:27 +00:00
babel	Unbreak the build on PowerPC (at least) by always using va_copy() macro for	2015-09-02 10:10:06 +00:00
bcftools	biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3	2015-12-25 01:31:09 +00:00
biococoa	Make all GNUstep ports install into the System domain so that the Local domain is available for stuff built from source.	2015-09-19 10:33:34 +00:00
biojava
blat	Update to upstream version 36	2015-01-01 18:17:53 +00:00
bwa	mark some of the ports that don't build on powerpc64 for me	2015-12-13 16:07:27 +00:00
cd-hit	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
cdbfasta	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
chemeq
clustalw	MASTER_SITES cleanup.	2015-05-14 10:15:04 +00:00
consed	biology/consed: undeprecate, it presumably builds fine but it is restricted.	2015-12-26 13:26:27 +00:00
crux	Unbreak the build on PowerPC, it had nothing to do with "error in pthreads":	2015-09-02 09:23:05 +00:00
emboss	Fix packaging as a user (pkg already takes care of credentials)	2015-03-18 21:52:19 +00:00
fasta	- Do not falsely advertise that PowerPC build runs out of space and fails	2015-09-02 10:35:25 +00:00
fasta3	- Update to 36.3.8	2015-10-16 13:31:10 +00:00
fastdnaml
fastool	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
fasttree	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
fastx-toolkit	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
fluctuate	- Switch to options helpers	2015-11-19 00:51:15 +00:00
garlic
gff2ps	Fix ports that confused the meaning of WRKDIR and WRKSRC.	2015-11-05 12:36:25 +00:00
gmap	mark some of the ports that don't build on powerpc64 for me	2015-12-13 16:07:27 +00:00
gperiodic
grappa	biology/grappa: define license (GPLv2)	2015-09-25 18:55:08 +00:00
hmmer	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
htslib	biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3	2015-12-25 01:31:09 +00:00
iolib	- Update to 1.14.6	2015-11-09 16:02:13 +00:00
jalview	Remove $FreeBSD$ from patches files in categories a-j.	2015-05-22 13:34:20 +00:00
lagan	- Fix shebangs	2015-06-11 10:17:24 +00:00
lamarc	Remove ansi version fo wxGTK 2.8 and only keep the unicode version	2015-09-16 19:51:26 +00:00
libgtextutils	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
libsbml	- Add LICENSE_FILE	2015-10-14 23:51:20 +00:00
linux-foldingathome	Cleanup plist	2014-12-20 17:27:08 +00:00
mafft	- Update to 7.266	2015-12-25 07:19:00 +00:00
mapm3
migrate	- Update options	2015-06-28 15:30:41 +00:00
molden
mopac	- Upadate biology/mopac to version 1.15	2014-12-16 22:10:23 +00:00
mrbayes
mummer	Fix build on mips by properly respecting compiler and flags	2015-08-05 12:18:41 +00:00
muscle	mark some of the ports that don't build on powerpc64 for me	2015-12-13 16:07:27 +00:00
ncbi-blast+	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
ncbi-toolkit
p5-AcePerl	Make it so that the default Perl is always called perl5.	2015-09-14 12:19:48 +00:00
p5-Bio-ASN1-EntrezGene	Start removing MASTER_SITE_SUBDIR=CPAN:username where possible. The	2015-06-24 15:16:23 +00:00
p5-Bio-Das
p5-Bio-Das-Lite	Remove TEST dependency on p5-Test-Simple when the version in core is	2015-02-26 16:54:41 +00:00
p5-Bio-GFF3	Make it so that the default Perl is always called perl5.	2015-09-14 12:19:48 +00:00
p5-Bio-Glite
p5-Bio-Graphics	Make it so that the default Perl is always called perl5.	2015-09-14 12:19:48 +00:00
p5-Bio-MAGETAB	Some OCD cleanups on some of the perl@ ports.	2015-03-12 23:00:02 +00:00
p5-Bio-NEXUS	Make it so that the default Perl is always called perl5.	2015-09-14 12:19:48 +00:00
p5-Bio-Phylo	- Update to 0.58	2014-12-07 04:41:47 +00:00
p5-Bio-SCF
p5-bioperl	Make it so that the default Perl is always called perl5.	2015-09-14 12:19:48 +00:00
p5-bioperl-run	For the new USE_GITHUB with only GH_TAGNAME set default DISTNAME to	2015-03-20 20:07:50 +00:00
paml	Update biology/paml to 4.8a and unbreak.	2015-04-10 15:39:01 +00:00
phrap
phred
phylip	Unbreak	2015-07-28 17:52:11 +00:00
phyml	Convert to USES=autoreconf	2014-12-28 19:14:13 +00:00
platon	- Mark BROKEN: checksum mismatch:	2015-11-29 03:13:34 +00:00
plink	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
plinkseq	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
primer3
protomol	Convert ports to use the options helpers in categories [abc]*, and minor fixes.	2015-08-19 13:29:59 +00:00
psi88	- Strip binaries	2015-06-03 17:27:08 +00:00
py-biopython	Update to 1.65.	2015-08-05 10:32:31 +00:00
pycogent
pyfasta
python-nexus	- Update to 1.32	2015-12-11 00:59:39 +00:00
recombine
ruby-bio	- Fix typo	2015-10-10 23:15:16 +00:00
samtools	biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3	2015-12-25 01:31:09 +00:00
seaview	biology/seaview: Broken, Does not fetch (checksum mismatch)	2015-11-02 08:14:30 +00:00
seqan	biology/segan: Limit GCC to 4.8 while waiting for update	2015-03-21 11:53:27 +00:00
seqio
seqtools	biology/seqtools: 4.39.2 -> 4.39.3	2015-12-05 13:20:21 +00:00
sim4
ssaha	Cleanup plist	2014-12-20 17:27:08 +00:00
t_coffee	MASTER_SITES cleanup.	2015-05-14 10:15:04 +00:00
tinker	Convert ports to use the options helpers in categories [abc]*, and minor fixes.	2015-08-19 13:29:59 +00:00
treepuzzle
treeviewx	- Pet portlint	2015-10-14 23:50:11 +00:00
tRNAscan-SE
ugene	biology/ugene: qt4-linguist -> qt4-linguisttools	2015-08-18 20:02:45 +00:00
velvet	Designatate 4 ports as unsafe for parallel building	2015-01-19 17:43:57 +00:00
wise	Cleanup plist	2014-12-20 17:27:08 +00:00
xmolwt	Fix previous commit.	2015-08-19 13:41:51 +00:00
Makefile	Remove expired ports:	2015-11-28 23:08:03 +00:00