Raphael Kubo da Costa feaee54d6e New port: biology/vcftools. ... A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project. WWW: https://github.com/vcftools/vcftools PR: 206926 Submitted by: Jason Bacon <bacon4000@gmail.com>		2016-02-26 17:07:59 +00:00
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ariadne
artemis
avida	mark some of the ports that don't build on powerpc64 for me	2015-12-13 16:07:27 +00:00
babel
bcftools	biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3	2015-12-25 01:31:09 +00:00
bedtools	The bedtools utilities are a suite of tools for performing a wide range of	2016-01-19 08:56:34 +00:00
biococoa
biojava
blat
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
consed	biology/consed: undeprecate, it presumably builds fine but it is restricted.	2015-12-26 13:26:27 +00:00
crux	biology/crux is not jobs safe	2015-12-30 19:49:17 +00:00
emboss
fasta
fasta3
fastdnaml	Convert LICENSE= "GPLxx # or later" to "GPLxx+"	2016-01-12 16:20:31 +00:00
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	Cleanup GH_* and variables order.	2015-12-29 14:30:46 +00:00
fluctuate	- Switch to options helpers	2015-11-19 00:51:15 +00:00
garlic
gff2ps	Convert LICENSE= "GPLxx # or later" to "GPLxx+"	2016-01-12 16:20:31 +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
hmmer	- Update maintainer mail address	2015-12-11 08:48:56 +00:00
htslib	biology/htslib: Replace FreeBSD-specific fix with a generic one	2015-12-29 15:05:44 +00:00
iolib	- Update to 1.14.7	2016-02-20 16:05:59 +00:00
jalview
lagan	Remove deprecated PLIST_DIRSTRY and also no longer needed PLIST_DIRS	2016-01-09 18:26:40 +00:00
lamarc	Cleanup GH_* and variables order.	2015-12-29 14:30:46 +00:00
libgtextutils	Cleanup GH_* and variables order.	2015-12-29 14:30:46 +00:00
libsbml
linux-foldingathome
mafft	- Update to 7.266	2015-12-25 07:19:00 +00:00
mapm3	biology/mapm3: document ncurses rqmt (USES+=ncurses), respect LDFLAGS	2016-02-01 22:09:10 +00:00
migrate
molden	biology/molden: updated distfile, take maintainer	2016-01-20 19:31:52 +00:00
mopac	Convert LICENSE= "GPLxx # or later" to "GPLxx+"	2016-01-12 16:20:31 +00:00
mrbayes
mummer
muscle	mark some of the ports that don't build on powerpc64 for me	2015-12-13 16:07:27 +00:00
ncbi-blast+	Add Public Domain support to ports license framework. You can now use	2016-01-12 14:33:21 +00:00
ncbi-toolkit
p5-AcePerl
p5-Bio-ASN1-EntrezGene
p5-Bio-Das
p5-Bio-Das-Lite
p5-Bio-GFF3
p5-Bio-Glite
p5-Bio-Graphics
p5-Bio-MAGETAB
p5-Bio-NEXUS
p5-Bio-Phylo
p5-Bio-SCF
p5-bioperl
p5-bioperl-run
paml
phrap
phred
phylip
phyml	- Update to 3.2.0	2016-02-26 13:03:05 +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
psi88
py-biopython
pycogent
pyfasta
python-nexus	- Update to 1.34	2016-02-12 13:18:37 +00:00
recombine
ruby-bio	mark ports that don't work with Ruby 2.3	2016-01-17 07:06:25 +00:00
samtools	biology/samtools: document ncurses requirement (USES+=ncurses)	2016-02-01 21:59:14 +00:00
seaview
seqan
seqio
seqtools	biology/seqtools: 4.39.3 -> 4.40.0	2016-02-06 10:17:31 +00:00
sim4
ssaha
t_coffee
tinker
treepuzzle
treeviewx	Convert LICENSE= "GPLxx # or later" to "GPLxx+"	2016-01-12 16:20:31 +00:00
tRNAscan-SE
ugene
vcftools	New port: biology/vcftools.	2016-02-26 17:07:59 +00:00
velvet
wise
xmolwt
Makefile	New port: biology/vcftools.	2016-02-26 17:07:59 +00:00