| .. |
|
artemis
|
|
|
|
avida
|
biology/avida: Fix build with Clang 6
|
2018-08-25 03:22:18 +00:00 |
|
babel
|
|
|
|
bamtools
|
|
|
|
bcftools
|
|
|
|
bedtools
|
Fix build on gcc-based archs by updating USES.
|
2018-09-22 05:30:31 +00:00 |
|
biococoa
|
Update Objective-C LLVM version to 6.0.
|
2018-09-26 15:23:37 +00:00 |
|
bowtie
|
Add DOCS options to ports that should have one.
|
2018-09-10 13:14:50 +00:00 |
|
bowtie2
|
|
|
|
bwa
|
|
|
|
canu
|
|
|
|
cd-hit
|
|
|
|
cdbfasta
|
|
|
|
chemeq
|
|
|
|
clustal-omega
|
|
|
|
clustalw
|
|
|
|
clustalx
|
|
|
|
consed
|
|
|
|
cytoscape
|
|
|
|
ddocent
|
|
|
|
diamond
|
|
|
|
emboss
|
|
|
|
exonerate
|
|
|
|
fasta
|
|
|
|
fasta3
|
|
|
|
fastahack
|
|
|
|
fastdnaml
|
|
|
|
fastool
|
|
|
|
fastqc
|
|
|
|
fasttree
|
|
|
|
fastx-toolkit
|
|
|
|
fluctuate
|
|
|
|
freebayes
|
Upgrade these ports to USES=compiler:c++11-lang to fix build on gcc-based
|
2018-09-18 09:28:34 +00:00 |
|
garlic
|
|
|
|
gff2ps
|
|
|
|
gmap
|
|
|
|
gperiodic
|
|
|
|
grappa
|
|
|
|
hmmer
|
|
|
|
htslib
|
|
|
|
hyphy
|
|
|
|
igv
|
|
|
|
infernal
|
Allow building on powerpc64.
|
2018-09-27 23:02:56 +00:00 |
|
iolib
|
- Update to 1-14-10
|
2018-09-28 18:47:49 +00:00 |
|
iqtree
|
biology/iqtree: Update to version 1.6.7
|
2018-08-27 01:20:28 +00:00 |
|
jalview
|
|
|
|
jellyfish
|
|
|
|
kallisto
|
Update science/hdf5 to 1.10.2
|
2018-09-05 22:05:23 +00:00 |
|
lagan
|
|
|
|
lamarc
|
biology/lamarc: Fix build with Clang 6
|
2018-08-25 03:13:37 +00:00 |
|
libgtextutils
|
|
|
|
libsbml
|
biology/libsbml: Fix build with Clang 6
|
2018-08-25 03:31:43 +00:00 |
|
linux-foldingathome
|
|
|
|
mafft
|
|
|
|
mapm3
|
|
|
|
migrate
|
|
|
|
molden
|
|
|
|
mopac
|
|
|
|
mrbayes
|
|
|
|
mummer
|
|
|
|
muscle
|
|
|
|
ncbi-blast+
|
|
|
|
ncbi-toolkit
|
|
|
|
ngs-sdk
|
biology/ngs-sdk: Update 2.9.1 -> 2.9.2
|
2018-09-19 18:09:37 +00:00 |
|
njplot
|
|
|
|
p5-AcePerl
|
|
|
|
p5-Bio-ASN1-EntrezGene
|
|
|
|
p5-Bio-Coordinate
|
|
|
|
p5-Bio-Das
|
|
|
|
p5-Bio-Das-Lite
|
|
|
|
p5-Bio-FeatureIO
|
|
|
|
p5-Bio-GFF3
|
|
|
|
p5-Bio-Glite
|
|
|
|
p5-Bio-Graphics
|
|
|
|
p5-Bio-MAGETAB
|
|
|
|
p5-Bio-NEXUS
|
|
|
|
p5-Bio-Phylo
|
|
|
|
p5-Bio-SCF
|
- Update to 1-14-10
|
2018-09-28 18:47:49 +00:00 |
|
p5-BioPerl
|
|
|
|
p5-BioPerl-Run
|
|
|
|
p5-transdecoder
|
|
|
|
p5-TrimGalore
|
|
|
|
paml
|
|
|
|
pbbam
|
More precisely specify USES=compiler to fix build on gcc-based
|
2018-09-18 08:14:23 +00:00 |
|
pbcopper
|
More precisely specify USES=compiler to fix build on gcc-based
|
2018-09-18 08:14:23 +00:00 |
|
pbseqan
|
|
|
|
pear-merger
|
|
|
|
phrap
|
Add DOCS options to ports that should have one.
|
2018-09-10 13:14:50 +00:00 |
|
phred
|
Add DOCS options to ports that should have one.
|
2018-09-10 13:14:50 +00:00 |
|
phylip
|
|
|
|
phyml
|
Change 4 ports from net/mpich2 to net/mpich
|
2018-09-22 18:00:24 +00:00 |
|
plinkseq
|
|
|
|
primer3
|
biology/primer3: Fix build with Clang 6
|
2018-08-25 03:35:46 +00:00 |
|
protomol
|
biology/protomol: Fix doubled USES overwriting the old value
|
2018-08-25 03:47:25 +00:00 |
|
psi88
|
|
|
|
py-biom-format
|
|
|
|
py-biopython
|
|
|
|
py-bx-python
|
biology/py-bx-python: Update 0.8.1 -> 0.8.2
|
2018-08-26 09:50:41 +00:00 |
|
py-cutadapt
|
biology/py-cutadapt: Upgrade to 1.18
|
2018-09-20 14:10:52 +00:00 |
|
py-Genesis-PyAPI
|
|
|
|
py-loompy
|
New port: biology/py-loompy: Work with .loom files for single-cell RNA-seq data
|
2018-09-21 08:04:50 +00:00 |
|
py-macs2
|
|
|
|
py-orange3-bioinformatics
|
|
|
|
py-orange3-single-cell
|
|
|
|
py-pysam
|
biology/py-pysam: Update 0.15.0 -> 0.15.1
|
2018-09-17 17:40:28 +00:00 |
|
pycogent
|
|
|
|
pyfasta
|
|
|
|
python-nexus
|
- Update to 1.63
|
2018-09-22 08:54:58 +00:00 |
|
rainbow
|
|
|
|
recombine
|
|
|
|
ruby-bio
|
|
|
|
rubygem-bio
|
Update to 1.5.2
|
2018-09-21 18:08:24 +00:00 |
|
samtools
|
|
|
|
seaview
|
biology/seaview: Fix build with Clang 6
|
2018-09-08 09:01:35 +00:00 |
|
seqan
|
|
|
|
seqan1
|
|
|
|
seqan-apps
|
|
|
|
seqio
|
|
|
|
seqtk
|
|
|
|
seqtools
|
|
|
|
sim4
|
|
|
|
slclust
|
|
|
|
smithwaterman
|
|
|
|
stacks
|
biology/stacks: Enable OpenMP (oversight in previous commit)
|
2018-09-01 14:14:11 +00:00 |
|
stringtie
|
|
|
|
t_coffee
|
|
|
|
tabixpp
|
|
|
|
tinker
|
|
|
|
treepuzzle
|
|
|
|
trimadap
|
|
|
|
trimmomatic
|
|
|
|
tRNAscan-SE
|
- Unbreak by adding missing pkg-plist
|
2018-09-28 00:12:48 +00:00 |
|
ugene
|
Update to 1.31.0
|
2018-09-02 20:47:15 +00:00 |
|
unanimity
|
More precisely specify USES=compiler to fix build on gcc-based
|
2018-09-18 08:14:23 +00:00 |
|
vcflib
|
|
|
|
vcftools
|
|
|
|
velvet
|
|
|
|
wise
|
|
|
|
xmolwt
|
|
|
|
Makefile
|
New port: biology/py-loompy: Work with .loom files for single-cell RNA-seq data
|
2018-09-21 08:04:50 +00:00 |
