..
ariadne
artemis
avida
Mark various ports as broken on armv6: invokes x86 asm.
2017-02-26 12:56:41 +00:00
babel
bcftools
bedtools
biococoa
biojava
blat
biology/blat: Fix build on DF (taken from dports)
2016-12-18 04:46:53 +00:00
bowtie
bowtie2
biology/bowtie2: update to 2.3.0
2017-02-27 14:08:30 +00:00
bwa
Mark various ports broken on aarch64 and armv6.
2017-01-31 03:40:46 +00:00
cd-hit
biology/cd-hit: Update to bug-fix release 4.6.6
2016-12-20 16:48:12 +00:00
cdbfasta
Update WWW: SF redirects to https://sourceforge.net/projects/ <PROJECT_NAME>/
2017-01-20 20:33:30 +00:00
chemeq
biology/chemeq: fix build on GCC (taken from dports)
2016-12-18 04:22:26 +00:00
clustalw
consed
crux
diamond
biology/diamond: Update to version 0.8.36.
2017-02-12 14:04:57 +00:00
emboss
fasta
fasta3
fastdnaml
fastool
Never set WRKSRC when using USE_GITHUB.
2017-01-03 18:12:13 +00:00
fasttree
fastx-toolkit
fluctuate
garlic
gff2ps
gmap
Mark various ports as broken on armv6: invokes x86 asm.
2017-02-26 12:56:41 +00:00
gperiodic
Remove libintl.so.9 compatibility link that was added in r374303 to
2016-12-08 19:52:19 +00:00
grappa
hmmer
htslib
iolib
Fix USE_GITHUB's GH_TAGNAME usage.
2017-02-28 08:33:44 +00:00
jalview
jellyfish
Remove BROKEN_FreeBSD_9
2017-01-01 03:45:12 +00:00
lagan
lamarc
biology/lamarc: Fix build on DF (taken from dports)
2016-12-18 04:34:33 +00:00
libgtextutils
libsbml
linux-foldingathome
mafft
mapm3
migrate
molden
biology/molden: Unbreak port, regenerate checksums, increment PORTREVISION.
2017-02-11 02:06:03 +00:00
mopac
mrbayes
mummer
muscle
ncbi-blast+
biology/ncbi-blast+: Add MAKE_JOBS_UNSAFE
2016-12-22 16:49:16 +00:00
ncbi-toolkit
njplot
p5-AcePerl
Move -fPIC to where Linux puts it so it is limited to a single library.
2017-02-13 22:43:58 +00:00
p5-Bio-ASN1-EntrezGene
- Add LICENSE
2016-12-18 15:25:13 +00:00
p5-Bio-Coordinate
- Add p5-Bio-Coordinate 1.007001
2016-12-19 15:54:39 +00:00
p5-Bio-Das
- Add LICENSE
2016-12-18 15:25:18 +00:00
p5-Bio-Das-Lite
p5-Bio-GFF3
p5-Bio-Glite
p5-Bio-Graphics
Bump PORTREVISION for ports affected by the fix the last commit.
2017-01-31 16:21:45 +00:00
p5-Bio-MAGETAB
p5-Bio-NEXUS
p5-Bio-Phylo
- Add LICENSE_FILE
2016-12-18 15:25:22 +00:00
p5-Bio-SCF
p5-BioPerl
Bump PORTREVISION for ports affected by the fix the last commit.
2017-01-31 16:21:45 +00:00
p5-BioPerl-Run
Bump PORTREVISION for ports affected by the fix the last commit.
2017-01-31 16:21:45 +00:00
p5-transdecoder
Never set WRKSRC when using USE_GITHUB.
2017-01-03 18:12:13 +00:00
paml
phrap
phred
phylip
phyml
plink
plinkseq
biology/plinkseq: unbreak with clang 4.0
2017-02-27 14:09:25 +00:00
primer3
protomol
biology/protomol: Support build with C++11 (taken from dports)
2016-12-18 05:34:42 +00:00
psi88
py-biom-format
py-biopython
pycogent
pyfasta
python-nexus
- Update to 1.42
2017-03-01 07:00:37 +00:00
recombine
ruby-bio
rubygem-bio
Update to 1.5.1
2017-02-06 23:03:17 +00:00
samtools
seaview
seqan
seqan1
seqan-apps
Mark a few more ports that create large logfiles broken on armv6.
2017-02-26 15:38:10 +00:00
seqio
seqtools
Remove BROKEN_FreeBSD_9
2017-01-01 03:45:12 +00:00
sim4
slclust
Update WWW: SF redirects to https://sourceforge.net/projects/ <PROJECT_NAME>/
2017-01-20 20:33:30 +00:00
ssaha
t_coffee
tinker
treepuzzle
treeviewx
Mark the remaining ports depending on Google Code as DEPRECATED, with an
2017-03-03 16:00:19 +00:00
trimmomatic
tRNAscan-SE
ugene
- Remove always-true/false conditions after FreeBSD 9, 10.1, 10.2 EOL
2017-01-09 13:16:49 +00:00
vcftools
Assume "pkg-config zlib" works after 9.x reached EOL
2017-01-03 17:06:49 +00:00
velvet
wise
Remove libintl.so.9 compatibility link that was added in r374303 to
2016-12-08 19:52:19 +00:00
xmolwt
Remove libintl.so.9 compatibility link that was added in r374303 to
2016-12-08 19:52:19 +00:00
Makefile
Move devel/rubygem-bio to biology/rubygem-bio
2017-02-05 04:26:56 +00:00
bebf3178ae