.. |
abyss
|
devel/openmp: update to 9.0.0
|
2019-09-21 18:59:57 +00:00 |
artemis
|
|
|
avida
|
biology/avida: unbreak on powerpc64
|
2019-10-23 16:25:10 +00:00 |
babel
|
|
|
bamtools
|
|
|
bcftools
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
bedtools
|
biology/bedtools: Upgrade to 2.29.0
|
2019-09-13 13:21:59 +00:00 |
biococoa
|
|
|
bolt-lmm
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
bowtie
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
bowtie2
|
Update devel/tbb to 2019.8 and bump dependent ports' revisions
|
2019-09-25 10:03:49 +00:00 |
bwa
|
|
|
canu
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
cd-hit
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
cdbfasta
|
|
|
checkm
|
biology/checkm: Update 1.0.17 -> 1.0.18
|
2019-08-19 08:25:29 +00:00 |
clustal-omega
|
|
|
clustalw
|
|
|
consed
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
cufflinks
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
cytoscape
|
|
|
ddocent
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
diamond
|
biology/diamond: Update to version 0.9.26
|
2019-09-18 18:45:09 +00:00 |
dsr-pdb
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
emboss
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
exonerate
|
|
|
fasta
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
fasta3
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
fastahack
|
biology/fastahack: Upgrade to 1.0.0
|
2019-10-06 21:34:32 +00:00 |
fastdnaml
|
|
|
fastool
|
|
|
fastp
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
fastqc
|
biology/fastqc: Upgrade to 0.11.8
|
2019-09-21 02:44:54 +00:00 |
fasttree
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
fastx-toolkit
|
|
|
figtree
|
|
|
fluctuate
|
|
|
freebayes
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
garlic
|
|
|
gatk
|
biology/gatk: Update 4.0.11.0 -> 4.1.2.0-43
|
2019-07-26 18:03:08 +00:00 |
gemma
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
gff2ps
|
|
|
gmap
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
gperiodic
|
biology/gperiodic: fix NLS and other rough edges
|
2019-08-23 15:26:55 +00:00 |
graphlan
|
|
|
grappa
|
|
|
groopm
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
haplohseq
|
biology/haplohseq: Identify regions of allelic imbalance
|
2019-09-16 01:07:31 +00:00 |
hhsuite
|
devel/openmp: update to 9.0.0
|
2019-09-21 18:59:57 +00:00 |
hisat2
|
|
|
hmmer
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
htslib
|
|
|
hyphy
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
igv
|
biology/igv: Update 2.5.2 -> 2.5.3
|
2019-06-01 20:49:20 +00:00 |
infernal
|
|
|
iolib
|
- Fix build in head i386
|
2019-04-01 19:33:15 +00:00 |
iqtree
|
biology/iqtree: Update to version 1.6.12
|
2019-08-27 01:19:11 +00:00 |
jalview
|
|
|
jellyfish
|
Drop C++11 workaround for GCC < 6 after r449590
|
2019-09-14 22:01:13 +00:00 |
kallisto
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
lagan
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
lamarc
|
|
|
libbigwig
|
New port: biology/libbigwig: C library for handling bigWig files (containing genomic data)
|
2019-07-11 17:05:22 +00:00 |
libgtextutils
|
|
|
libsbml
|
Use USES=pathfix
|
2019-06-22 21:48:14 +00:00 |
mafft
|
|
|
mapm3
|
|
|
migrate
|
|
|
minimap2
|
biology/minimap2: Upgrade to 2.17
|
2019-05-05 14:56:07 +00:00 |
molden
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
mopac
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
mothur
|
biology/mothur: Update 1.42.3 -> 1.43.0
|
2019-10-05 17:04:42 +00:00 |
mrbayes
|
Update devel/readline to 8.0
|
2019-04-09 14:04:49 +00:00 |
mummer
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
muscle
|
|
|
ncbi-blast+
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
ncbi-cxx-toolkit
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
ncbi-toolkit
|
biologi/ncbi-toolkit: Remove dependency on libXp
|
2019-09-28 10:52:57 +00:00 |
ngs-sdk
|
biology/ngs-sdk: Update 2.9.6 -> 2.10.0
|
2019-08-31 15:09:47 +00:00 |
p5-AcePerl
|
|
|
p5-Bio-ASN1-EntrezGene
|
|
|
p5-Bio-Cluster
|
|
|
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
|
Fix typo
|
2019-04-23 14:11:50 +00:00 |
p5-Bio-NEXUS
|
|
|
p5-Bio-Phylo
|
|
|
p5-Bio-SCF
|
|
|
p5-BioPerl
|
Update to 1.007006 (1.7.6)
|
2019-09-07 22:44:02 +00:00 |
p5-BioPerl-Run
|
|
|
p5-transdecoder
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
p5-TrimGalore
|
biology/p5-TrimGalore: Upgrade to 0.6.4
|
2019-09-21 02:51:26 +00:00 |
paml
|
|
|
pbbam
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
pbcopper
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
pbseqan
|
|
|
pear-merger
|
|
|
phrap
|
|
|
phred
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
phylip
|
|
|
phyml
|
biology/phyml: update to 3.3.20190909
|
2019-09-10 21:04:16 +00:00 |
plinkseq
|
|
|
primer3
|
|
|
prodigal
|
biology/prodigal: Eliminate a very old version from the portscout discovery process
|
2019-10-12 15:40:21 +00:00 |
prodigy-lig
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
protomol
|
|
|
psi88
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-biom-format
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-biopython
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-bx-python
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-cutadapt
|
biology/py-cutadapt: Upgrade to 2.5
|
2019-09-13 13:17:26 +00:00 |
py-dnaio
|
|
|
py-fastTSNE
|
devel/openmp: update to 9.0.0
|
2019-09-21 18:59:57 +00:00 |
py-Genesis-PyAPI
|
|
|
py-gffutils
|
Bump a few PORTREVISIONs after r498529
|
2019-04-10 06:18:31 +00:00 |
py-gtfparse
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-loompy
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-macs2
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-multiqc
|
biology/py-multiqc: Aggregate bioinformatics analysis reports
|
2019-09-23 16:09:30 +00:00 |
py-orange3-bioinformatics
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-orange3-single-cell
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
py-pyfaidx
|
Bump a few PORTREVISIONs after r498529
|
2019-04-10 06:18:31 +00:00 |
py-pysam
|
biology/py-pysam: Update 0.15.2 -> 0.15.3
|
2019-08-31 15:49:18 +00:00 |
py-xenaPython
|
New port: biology/py-xenaPython: API for Xena Hub to access genetic information shared through the hub
|
2019-04-12 17:01:10 +00:00 |
pycogent
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
pyfasta
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
python-nexus
|
|
|
rainbow
|
|
|
recombine
|
Fix after gets(3) retirement using gets_s(3).
|
2019-09-02 05:00:43 +00:00 |
ruby-bio
|
|
|
rubygem-bio
|
|
|
samtools
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
seaview
|
|
|
seqan
|
|
|
seqan1
|
Fix some misspelled or duplicated LICENSE_*
|
2019-09-17 19:21:45 +00:00 |
seqan-apps
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
seqio
|
|
|
seqtk
|
|
|
seqtools
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
sim4
|
|
|
slclust
|
|
|
smithwaterman
|
|
|
stacks
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
star
|
biology/star: Upgrade to 2.7.2d
|
2019-10-06 22:18:31 +00:00 |
stringtie
|
|
|
t_coffee
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
tabixpp
|
|
|
tophat
|
biology/tophat: Fast splice junction mapper for RNA-Seq reads
|
2019-09-27 00:49:48 +00:00 |
treekin
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
treepuzzle
|
|
|
trimadap
|
biology/trimadap: Mark only for amd64 and i386
|
2019-05-11 00:18:24 +00:00 |
trimmomatic
|
biology/trimmomatic: Upgrade to 0.39
|
2019-09-14 14:45:49 +00:00 |
tRNAscan-SE
|
biology/tRNAscan-SE: Update to 2.0.3
|
2019-06-08 01:31:18 +00:00 |
ugene
|
|
|
unanimity
|
devel/boost-*: update to 1.71.0
|
2019-08-19 15:35:27 +00:00 |
vcflib
|
|
|
vcftools
|
|
|
velvet
|
|
|
viennarna
|
Bump PORTREVISION for ports depending on the canonical version of GCC
|
2019-07-26 20:46:53 +00:00 |
vsearch
|
biology/vsearch: Update to 2.13.4
|
2019-05-11 13:42:33 +00:00 |
wise
|
Convert to UCL & cleanup pkg-message (categories a-c)
|
2019-08-13 16:00:39 +00:00 |
Makefile
|
Remove expired ports:
|
2019-10-16 15:29:32 +00:00 |