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freebsd-ports/biology
History
Dmitri Goutnik 8e4bc57934 all: Bump PORTREVISION after lang/go* update
2023-09-08 09:34:56 -05:00
..
abyss
biology/abyss: Update 2.3.5 → 2.3.7
2023-07-22 01:55:01 -07:00
ad2vcf
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
artemis
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
atac-seq
biology/atac-seq: Add curl to metaport deps
2023-07-28 09:35:04 -05:00
augustus
biology/augustus: Fix build with llvm16
2023-08-06 23:53:03 +02:00
avida
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
babel
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
bamtools
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
bamutil
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
barrnap
biology/barrnap: Update descr
2022-11-24 19:12:18 -08:00
bbmap
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
bcf-score
biology/bcf-score: Unbreak build with clang 16
2023-07-16 08:19:06 -05:00
bcftools
biology/bcftools: Update to 1.17
2023-02-24 17:30:58 -06:00
bedtools
biology/bedtools: Update to 2.31.0
2023-04-28 20:03:07 -05:00
bfc
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
bifrost
biology/bifrost: Control -march via CPUTYPE make variable
2023-08-12 09:38:47 -05:00
bio-mocha
biology/bio-mocha: Update to 1.16
2023-01-05 17:21:03 -06:00
bioawk
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
biococoa
audio/opus: bump consumers after update to 1.4
2023-04-25 17:17:15 +02:00
biolibc
biology/biolibc: Update to 0.2.5
2023-08-11 15:35:11 -05:00
biolibc-tools
biology/biolibc-tools: Update to 0.1.4.9
2023-08-11 15:40:49 -05:00
bioparser
biology/bioparser: update 3.0.15 → 3.1.0
2023-08-29 00:32:45 -07:00
biosig
biology/{,py-}biosig: Update 2.5.0 → 2.5.2
2023-07-19 01:17:37 -07:00
biosoup
biology/biosoup: Install cmake files
2023-08-29 00:32:45 -07:00
biostar-tools
audio/opus: bump consumers after update to 1.4
2023-04-25 17:17:15 +02:00
bolt-lmm
*/*: bump all direct Boost cunsumers
2023-04-27 21:25:55 +03:00
bowtie
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
bowtie2
biology/bowtie2: Update to 2.5.1
2023-01-21 16:30:48 -06:00
btllib
biology/btllib: New port: Bioinformatics Technology Lab common code library
2023-07-21 15:24:04 -07:00
bwa
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
canu
biology/canu: Fix build with llvm16
2023-07-20 19:42:34 +02:00
cd-hit
biology/cd-hit: allow to build without GCC on libomp-less systems
2023-08-12 03:37:47 +02:00
cdbfasta
biology/cdbfasta: Update to 2023.07.10
2023-07-11 10:40:27 -05:00
checkm
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
chip-seq
biology/chip-seq: Metaport for ChIP-Seq analysis
2023-06-14 16:23:37 -05:00
clustal-omega
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
clustalw
biology/clustalw: Unbreak build for clang 16
2023-07-15 18:18:42 -05:00
cufflinks
*/*: bump all direct Boost cunsumers
2023-04-27 21:25:55 +03:00
cytoscape
biology/cytoscape: Broken on armv6, armv7
2022-12-10 23:41:04 -08:00
ddocent
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
diamond
biology/diamond: Update to 2.1.8
2023-07-08 00:45:48 -03:00
dsr-pdb
*/*: bump all direct Boost cunsumers
2023-04-27 21:25:55 +03:00
edlib
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
emboss
biology/emboss: Ignore with mysql 8.0
2023-02-01 04:39:38 -06:00
erminej
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
exonerate
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fasda
biology/fasda: Update to 0.1.4
2023-08-11 15:39:06 -05:00
fasta
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fasta3
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fastahack
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fastdnaml
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fastool
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fastp
biology/fastp: Update to 0.23.4
2023-05-31 10:40:00 -05:00
fastq-trim
biology/fastq-trim: Update to 0.1.2
2022-12-11 15:24:05 -06:00
fastqc
biology/fastqc: Update to 0.12.1
2023-03-04 18:17:20 -06:00
fasttree
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fastx-toolkit
biology/fastx-toolkit: Unbreak build on 14-CURRENT
2023-03-07 11:28:13 -06:00
figtree
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
flash
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
fluctuate
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
freebayes
biology/freebayes: Drop redundant tabixpp dep
2023-01-22 10:42:34 -06:00
garlic
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
gatk
biology/gatk: Update 4.3.0.0 → 4.4.0.0
2023-06-04 15:02:58 -07:00
gcta
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
gemma
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
generand
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
gff2ps
biology/gff2ps: drop maintainership
2023-05-21 16:20:36 +00:00
gffread
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
gmap
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
gperiodic
accessibility/at-spi2-core: update to 2.46.0
2023-03-02 06:23:10 +01:00
graphlan
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
groopm
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
haplohseq
biology/haplohseq: Fix build on FreeBSD 14
2023-07-09 11:37:39 -05:00
hhsuite
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
hisat2
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
hmmer
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
htslib
biology/htslib: fix build on armv7
2023-04-18 23:55:29 +02:00
hyphy
biology/hyphy: Update to 2.5.53
2023-09-05 11:49:35 -03:00
igv
audio/opus: bump consumers after update to 1.4
2023-04-25 17:17:15 +02:00
infernal
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
iolib
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
iqtree
biology/iqtree: Update to 2.2.2.7
2023-09-04 23:45:37 -03:00
jalview
biology/jalview: Fix build by using gradle-7.6.1 instead of gradle-8.0.1
2023-06-18 02:58:53 -07:00
jellyfish
biology/jellyfish: Bump PORTREVISION for biology/htslib update
2023-01-05 19:24:44 -06:00
kallisto
biology/kallisto: Clean up build
2023-07-24 10:44:58 -05:00
kmcp
all: Bump PORTREVISION after lang/go* update
2023-09-08 09:34:56 -05:00
lamarc
biology/lamarc: Mark BROKEN on 14
2023-08-18 08:57:13 +02:00
libbigwig
biology/libbigwig: Update 0.4.6 → 0.4.7
2023-07-17 00:09:00 -07:00
libcombine
biology/libcombine: Fix build with libsbml 5.20.0
2023-05-27 12:24:05 +08:00
libgff
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
libgtextutils
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
libneurosim
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
libnuml
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
libsbml
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
libsedml
biology/libsedml: Fix build with libsbml 5.20.0
2023-05-27 12:24:05 +08:00
linux-foldingathome
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
locarna
biology/locarna: Fix tests
2023-07-17 09:22:42 -07:00
mafft
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
mapm3
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
mashmap
biology/mashmap: Update 3.1.0 → 3.1.1
2023-08-22 09:32:45 -07:00
megahit
biology/megahit: Add cmake patch to respect ports build flags
2022-11-24 08:10:13 -06:00
metaeuk
biology/metaeuk: Add NATIVE option
2023-07-14 17:31:14 -07:00
migrate
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
minimap2
biology/minimap2: Update to 2.25
2023-04-29 09:53:40 -05:00
mmseqs2
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
molden
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
mothur
biology/mothur: Fix build on 14
2023-08-18 08:57:12 +02:00
mrbayes
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
mummer
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
muscle
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
ncbi-blast+
biology/ncbi-blast+: Update to 2.14.1
2023-08-26 07:57:04 -05:00
ncbi-cxx-toolkit
graphics/proj: Update to 9.2.1
2023-07-26 21:58:55 +02:00
ncbi-entrez-direct
all: Bump PORTREVISION after lang/go* update
2023-09-08 09:34:56 -05:00
ncbi-toolkit
*/*: Bump jpeg-turbo users treewide
2023-07-28 19:13:17 +02:00
ncbi-vdb
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
ngs-sdk
biology/ngs-sdk: Update 2.11.2 → 3.0.1
2023-06-26 15:51:40 -07:00
p5-AcePerl
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-ASN1-EntrezGene
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Cluster
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Coordinate
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Das
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Das-Lite
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-DB-EMBL
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-DB-NCBIHelper
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-FeatureIO
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-GFF3
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Glite
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Graphics
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-MAGETAB
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-NEXUS
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Phylo
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-SCF
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-Bio-Variation
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-BioPerl
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-BioPerl-Run
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
p5-transdecoder
p5-transdecoder: Update to 5.7.1
2023-08-05 15:58:40 -05:00
p5-TrimGalore
biology/p5-TrimGalore: Fix build
2023-08-05 22:05:05 +02:00
paml
biology/paml: Update to 4.10.7
2023-07-08 00:46:53 -03:00
pbbam
biology/pbbam: Bump PORTREVISION for biology/htslib update
2023-01-05 19:25:09 -06:00
pbseqan
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
peak-classifier
biology/peak-classifier: Clean up USES=python
2023-09-07 04:50:36 +08:00
pear-merger
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
phrap
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
phred
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
phyml
biology/phyml: fix build on non-x86
2023-05-08 10:25:50 +02:00
picard-tools
*/*: Refactor java/openjdk7 removal
2023-04-04 13:10:53 -05:00
plink
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
pooler
biology/pooler: update to 1.86
2022-12-19 08:56:15 +01:00
primer3
biology/primer3: Fix build with llvm16
2023-08-05 20:55:50 +02:00
prodigal
biology/prodigal: Update 2.6.3-7 → 2.6.3-16
2023-07-22 00:37:33 -07:00
prodigy-lig
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
protomol
*/*: Bump jpeg-turbo users treewide
2023-07-28 19:13:17 +02:00
psi88
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
py-bcbio-gff
biology/py-bcbio-gff: Update to 0.7.0
2023-03-16 17:32:06 -05:00
py-biom-format
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-biopython
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-biosig
biology/{,py-}biosig: Update 2.5.0 → 2.5.2
2023-07-19 01:17:37 -07:00
py-bx-python
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-crossmap
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-cutadapt
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-deeptools
biology/py-deeptools: Update to 3.5.2
2023-06-19 07:09:17 -05:00
py-deeptoolsintervals
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
2023-01-11 18:58:34 +03:00
py-dna-features-viewer
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
py-dnaio
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-ete3
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-Genesis-PyAPI
biology/py-Genesis-PyAPI: Add NO_ARCH
2023-08-01 00:42:07 +08:00
py-gffutils
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-goatools
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-gtfparse
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-hits
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-htseq
biology/py-htseq: Update to 2.0.4
2023-08-05 11:40:26 -05:00
py-libnuml
biology/py-libnuml: Allow build with swig 4.1.0+
2023-04-19 02:05:12 +08:00
py-libsedml
biology/py-libsedml: Allow build with swig 4.1.0+
2023-04-19 02:05:12 +08:00
py-loompy
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-macs2
biology/py-macs2: Update to 2.2.9.1
2023-08-06 13:17:52 -05:00
py-mrcfile
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
py-multiqc
biology/py-multiqc: Update to 1.15
2023-08-05 11:18:37 -05:00
py-ont-fast5-api
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
py-orange3-bioinformatics
biology/py-orange3-bioinformatics: Change RUN_DEPENDS from py-requests-cache to py-requests-cache0
2023-08-01 00:42:07 +08:00
py-orange3-single-cell
biology/py-orange3-single-cell: Add NO_ARCH
2023-08-01 00:42:07 +08:00
py-pandas-charm
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-py2bit
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
2023-01-11 18:58:34 +03:00
py-pybigwig
biology/py-pybigwig: Update to 0.3.21
2023-04-01 16:10:15 -05:00
py-pyfaidx
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-pyrodigal
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-pysam
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
py-PySCeS
biology/py-PySCeS: Update 1.1.0 → 1.1.1
2023-07-25 23:20:25 -07:00
py-python-libsbml
biology/py-python-libsbml: Use CMAKE_BUILD_PARALLEL_LEVEL env var for parallelization
2023-07-26 00:04:04 -07:00
py-pywgsim
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
2023-01-11 18:58:34 +03:00
py-resdk
biology/py-resdk: update 19.0.0 → 19.0.1
2023-08-27 23:31:28 -07:00
py-scikit-bio
biology/py-scikit-bio: Update 0.5.8 → 0.5.9
2023-08-03 00:02:05 -07:00
py-valerius
biology/py-valerius: New port: Python bioinformatics tools
2022-10-03 21:06:22 -07:00
py-xenaPython
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
pyfasta
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
python-nexus
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
rainbow
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
rampler
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
readseq
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
recombine
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
rna-seq
biology/rna-seq: Add biology/star dep to metaport
2023-07-31 09:36:06 -05:00
ruby-bio
Mk/**ruby.mk: Switch from USE_RUBY=yes to USES=ruby
2023-01-14 17:08:33 -06:00
rubygem-bio
Mk/**ruby.mk: Switch from USE_RUBY=yes to USES=ruby
2023-01-14 17:08:33 -06:00
rubygem-bio-executables
Mk/**ruby.mk: Switch from USE_RUBY=yes to USES=ruby
2023-01-14 17:08:33 -06:00
rubygem-bio-old-biofetch-emulator
Mk/**ruby.mk: Switch from USE_RUBY=yes to USES=ruby
2023-01-14 17:08:33 -06:00
rubygem-bio-shell
Mk/**ruby.mk: Switch from USE_RUBY=yes to USES=ruby
2023-01-14 17:08:33 -06:00
salmon
devel/onetbb: Update to 2021.10.0
2023-08-21 12:09:23 +02:00
sam2pairwise
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
samtools
biology/samtools: Update to 1.17
2023-02-24 17:27:21 -06:00
scrm
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
seaview
*/*: Bump jpeg-turbo users treewide
2023-07-28 19:13:17 +02:00
seqan
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
seqan1
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
seqan3
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
seqan-apps
biology/seqan-apps: Fix build with llvm16
2023-08-06 23:53:04 +02:00
seqio
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
seqkit
all: Bump PORTREVISION after lang/go* update
2023-09-08 09:34:56 -05:00
seqtk
biology/seqtk: Update to 1.4
2023-05-23 17:42:13 -05:00
seqwish
biology/seqwish: Add comment
2023-08-24 23:22:32 -07:00
sigviewer
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
sim4
Remove WWW lines that have been moved into Makefiles
2022-09-08 17:46:38 +02:00
slclust
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
smithwaterman
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
snpeff
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
spoa
biology/spoa: update 4.0.7 → 4.1.0
2023-08-29 09:59:01 -07:00
sra-tools
biology/sra-tools: Update to 3.0.6
2023-08-10 12:17:24 -05:00
stacks
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
star
biology/star: Fix SIMD issue on non-amd64
2023-08-21 09:33:20 -05:00
stringtie
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
subread
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
tabixpp
biology/tabixpp: Deprecate
2023-01-22 11:01:57 -06:00
taxonkit
all: Bump PORTREVISION after lang/go* update
2023-09-08 09:34:56 -05:00
treekin
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
2023-04-23 09:09:58 +00:00
treepuzzle
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
trimadap
biology/trimadap: drop GCC requirement on powerpc64le
2023-08-03 10:40:03 +00:00
trimmomatic
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
tRNAscan-SE
biology/tRNAscan-SE: Update to 2.0.11
2022-10-12 12:45:24 +01:00
ucsc-userapps
all: remove explicit versions in USES=python for "3.x+"
2023-06-27 21:34:34 +02:00
ugene
Mk/Uses: always use colon for build/run suffix
2022-09-11 12:20:14 +02:00
unikmer
all: Bump PORTREVISION after lang/go* update
2023-09-08 09:34:56 -05:00
vcf2hap
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
vcf-split
biology/vcf-split: Update to 0.1.5-4
2022-12-11 14:11:33 -06:00
vcflib
biology/vcflib: not for armv6/7
2023-07-31 01:59:09 +03:00
vcftools
biology/vcftools: Unbreak build with clang 16
2023-07-15 20:29:00 -05:00
velvet
Remove WWW entries moved into port Makefiles
2022-09-07 23:58:51 +02:00
viennarna
biology/viennarna: Mark BROKEN on 14
2023-08-18 08:57:13 +02:00
vsearch
biology/vsearch: Update to 2.23.0
2023-07-08 14:10:45 -05:00
vt
biology/vt: Bump PORTREVISION for biology/htslib update
2023-01-05 19:19:19 -06:00
wfa2-lib
*/*: Sunset 12.3-RELEASE from ports tree
2023-03-30 18:59:51 -05:00
wise
*/*: Fix build with llvm16 on 13.2-STABLE
2023-07-26 02:48:20 +02:00
Makefile
biology/py-htseq: Python library for sequence analysis
2023-07-28 10:41:58 -05:00