..
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
bedtools
The bedtools utilities are a suite of tools for performing a wide range of
2016-01-19 08:56:34 +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
biology/crux is not jobs safe
2015-12-30 19:49:17 +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
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
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/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
Remove $FreeBSD$ from patches files in categories a-j.
2015-05-22 13:34:20 +00:00
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
- Add LICENSE_FILE
2015-10-14 23:51:20 +00:00
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
- Update options
2015-06-28 15:30:41 +00:00
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
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+
Add Public Domain support to ports license framework. You can now use
2016-01-12 14:33:21 +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
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
- 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
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 1.34
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
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: 4.39.3 -> 4.40.0
2016-02-06 10:17:31 +00:00
sim4
ssaha
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
Convert LICENSE= "GPLxx # or later" to "GPLxx+"
2016-01-12 16:20:31 +00:00
tRNAscan-SE
ugene
biology/ugene: qt4-linguist -> qt4-linguisttools
2015-08-18 20:02:45 +00:00
vcftools
New port: biology/vcftools.
2016-02-26 17:07:59 +00:00
velvet
Designatate 4 ports as unsafe for parallel building
2015-01-19 17:43:57 +00:00
wise
xmolwt
Fix previous commit.
2015-08-19 13:41:51 +00:00
Makefile
New port: biology/vcftools.
2016-02-26 17:07:59 +00:00