| .. |
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abyss
|
Mk/bsd.commands.mk: Use absolute path to define GMAKE
|
2024-12-29 12:34:56 +01:00 |
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ad2vcf
|
biology/ad2vcf: Update to 0.1.6.19
|
2024-05-19 08:41:41 -05:00 |
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andi
|
biology/andi: New ports: Efficient estimation of evolutionary distances
|
2024-09-07 14:31:10 -07:00 |
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artemis
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
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atac-seq
|
all: remove support for expired FreeBSD 13.3
|
2025-01-01 17:09:59 +01:00 |
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augustus
|
devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
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avida
|
*/*: Sunset 12.4-RELEASE/12-STABLE from ports tree
|
2023-12-31 01:37:05 +01:00 |
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babel
|
biology/babel: Update WWW
|
2023-10-30 23:37:03 +01:00 |
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bamtools
|
*/*: Bump dependencioes after devel/jsoncpp update
|
2024-09-12 09:20:06 -07:00 |
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bamutil
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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barrnap
|
biology/barrnap: Update descr
|
2022-11-24 19:12:18 -08:00 |
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bbmap
|
biology/bbmap: Update to 39.15
|
2025-01-16 06:35:49 -06:00 |
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bcf-score
|
*/*: bump PORTREVISION after the upgrade to Suitesparse
|
2025-01-11 11:02:35 +01:00 |
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bcftools
|
biology/bcftools: Update to 1.21
|
2024-10-09 17:23:09 -05:00 |
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bedtools
|
biology/bedtools: Update to 2.31.1
|
2023-11-08 10:42:09 -06:00 |
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bfc
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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bifrost
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biology/bifrost: Update to 1.3.5
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2024-03-18 09:29:43 -05:00 |
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bio-mocha
|
biology/bio-mocha: Update to 1.20
|
2024-10-09 17:23:10 -05:00 |
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bioawk
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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biococoa
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audio/opus: bump consumers after update to 1.4
|
2023-04-25 17:17:15 +02:00 |
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biolibc
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biology/biolibc: Update to 0.2.6.4
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2024-05-19 08:40:24 -05:00 |
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biolibc-tools
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biology/biolibc-tools: Move man pages to share/man
|
2024-03-02 18:44:44 +00:00 |
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bioparser
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biology/bioparser: update 3.0.15 → 3.1.0
|
2023-08-29 00:32:45 -07:00 |
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biosig
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*/*: bump PORTREVISION after the upgrade to Suitesparse
|
2025-01-11 11:02:35 +01:00 |
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biosoup
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biology/biosoup: Install cmake files
|
2023-08-29 00:32:45 -07:00 |
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biostar-tools
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biology/biostar-tools: Update to 2.0
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2024-11-07 18:44:28 -06:00 |
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bolt-lmm
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devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
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bowtie
|
*/*: Update WWW to use HTTPS for sourceforge.net projects
|
2023-11-06 11:03:47 +01:00 |
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bowtie2
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biology/bowtie2: Update to 2.5.4
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2024-05-24 06:33:53 -05:00 |
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btllib
|
biology/btllib: update 1.7.3 → 1.7.5
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2024-12-05 10:11:11 -08:00 |
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bwa
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biology/bwa: small improvements
|
2025-01-06 17:29:54 +01:00 |
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canu
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devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
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cd-hit
|
biology/cd-hit: allow to build without GCC on libomp-less systems
|
2023-08-12 03:37:47 +02:00 |
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cdbfasta
|
biology/cdbfasta: Update to 2023.07.10
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2023-07-11 10:40:27 -05:00 |
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checkm
|
biology/checkm: update 1.2.2 → 1.2.3
|
2024-12-14 22:50:29 -08:00 |
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chip-seq
|
biology/chip-seq: Metaport for ChIP-Seq analysis
|
2023-06-14 16:23:37 -05:00 |
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clustal-omega
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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clustalw
|
biology/clustalw: Unbreak build for clang 16
|
2023-07-15 18:18:42 -05:00 |
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coverm
|
lang/rust: Bump revisions after 1.84.0
|
2025-01-20 12:06:50 +01:00 |
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cufflinks
|
devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
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cytoscape
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
ddocent
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
diamond
|
biology/diamond: Update to 2.1.11
|
2025-01-25 10:35:27 -04:00 |
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dsr-pdb
|
devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
|
edlib
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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emboss
|
*/*: Refactor with IGNORE_WITH_MYSQL
|
2023-12-29 19:24:39 +01:00 |
|
erminej
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
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exonerate
|
biology/exonerate: remove maintainer (email address gone)
|
2024-10-28 13:41:54 +01:00 |
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fasda
|
biology/fasda: Move man pages to share/man
|
2024-03-02 19:03:05 +00:00 |
|
fasta
|
MAN[1-5]PREFIX: eleminate its usage and move man to share/man
|
2024-01-09 16:41:04 +01:00 |
|
fasta3
|
MAN?PREFIX: eleminate its usage and move man to share/man
|
2024-01-10 09:16:01 +01:00 |
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fastahack
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
fastani
|
biology/fastani: Broken where OpenMP isn't available; Update WWW
|
2024-11-02 23:47:52 -07:00 |
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fastdnaml
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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fastool
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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fastp
|
biology/fastp: Update to 0.24.0
|
2024-11-16 07:10:58 -06:00 |
|
fastq-trim
|
biology/fastq-trim: Move man pages to share/man
|
2024-03-02 19:08:45 +00:00 |
|
fastqc
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
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fasttree
|
biology/fasttree: Update to 2.1.11
|
2024-12-03 08:55:06 -06:00 |
|
fastx-toolkit
|
biology/fastx-toolkit: Unbreak build on 14-CURRENT
|
2023-03-07 11:28:13 -06:00 |
|
fermi-lite
|
biology/fermi-lite: enable on powerpc64le
|
2025-01-29 17:56:29 +01:00 |
|
figtree
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
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: Update to 1.3.9
|
2025-02-18 14:45:11 -06:00 |
|
garlic
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
gatk
|
biology/gatk: Update WWW
|
2025-02-14 02:30:52 -08:00 |
|
gcta
|
*/*: bump PORTREVISION after OpenBLAS upgrade
|
2025-01-28 17:42:55 +01:00 |
|
gemma
|
*/*: bump PORTREVISION after OpenBLAS upgrade
|
2025-01-28 17:42:55 +01:00 |
|
generand
|
biology/generand: Move man pages to share/man
|
2024-03-02 19:14:06 +00:00 |
|
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 |
|
gkl
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
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 |
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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: mark as BROKEN with Boost>=1.87 (+)
|
2025-02-14 06:17:11 +03:00 |
|
hhsuite
|
*/*: bump PORTREVISION after OpenMPI upgrade
|
2024-02-18 10:29:31 +01:00 |
|
hisat2
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
hmmer
|
biology/hmmer: update to 3.4
|
2024-10-28 13:41:48 +01:00 |
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htslib
|
biology/htslib: Update to 1.21
|
2024-10-09 17:23:08 -05:00 |
|
hyphy
|
biology/hyphy: Update to 2.5.68
|
2025-01-28 16:48:19 -04:00 |
|
igv
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
infernal
|
biology/infernal: update 1.1.4 → 1.1.5
|
2025-01-30 08:35:31 +01:00 |
|
iolib
|
biology/iolib: Moved man to share/man
|
2024-02-22 14:23:48 +01:00 |
|
iqtree
|
devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
|
jalview
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
jellyfish
|
biology/jellyfish: Move man pages to share/man
|
2024-03-02 19:17:36 +00:00 |
|
kallisto
|
biology/kallisto: Update to 0.51.1,1
|
2024-09-19 17:46:47 -05:00 |
|
kmcp
|
all: Bump after lang/go121 update
|
2024-08-09 06:24:08 +00:00 |
|
lamarc
|
biology/lamarc: Mark BROKEN on 14
|
2023-08-18 08:57:13 +02:00 |
|
libbigwig
|
biology/libbigwig: update 0.4.7 → 0.4.8
|
2025-01-18 01:52:23 -08:00 |
|
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
|
devel/automake: Update to 1.17
|
2024-07-20 13:27:02 +02:00 |
|
libnuml
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
libsbml
|
textproc/xerces-c3: Update to 3.3.0
|
2024-10-25 23:56:41 +08:00 |
|
libsedml
|
biology/libsedml: Fix build with libsbml 5.20.0
|
2023-05-27 12:24:05 +08:00 |
|
linux-foldingathome
|
biology/linux-foldingathome: Update to 8.4.9.
|
2025-02-14 09:21:35 +01:00 |
|
locarna
|
biology/locarna: Move man pages to share/man
|
2024-03-03 10:04:08 +00:00 |
|
mafft
|
biology/mafft: Moved man to share/man
|
2024-02-22 14:23:49 +01:00 |
|
mapm3
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
mashmap
|
biology/mashmap: Broken on armv7
|
2024-01-12 17:57:41 -08:00 |
|
mca-calling
|
biology/mca-calling: Core tools for mCA event calling
|
2024-10-24 08:32:05 -05:00 |
|
megahit
|
biology/megahit: Add cmake patch to respect ports build flags
|
2022-11-24 08:10:13 -06:00 |
|
metaeuk
|
biology/metaeuk: builds now fine on powerpc64le
|
2025-01-29 17:56:26 +01:00 |
|
migrate
|
biology/migrate: fix build on !x86
|
2024-07-09 12:04:31 +02:00 |
|
minimap2
|
biology/minimap2: Add NOT_FOR_ARCHS for most 32-bit processors
|
2024-07-20 14:55:08 -05:00 |
|
mmseqs2
|
biology/mmseqs2: Update to 17.b804.f
|
2025-01-25 07:24:31 -06:00 |
|
molden
|
all: return jmd's ports to the pool after safekeeping their commit bit.
|
2024-11-28 17:10:52 +01:00 |
|
mothur
|
biology/mothur: update 1.48.1 → 1.48.2
|
2024-11-04 23:25:49 -08:00 |
|
mrbayes
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
mummer
|
biology/mummer: update 4.0.0 → 4.0.1
|
2025-02-08 00:07:06 -08:00 |
|
muscle
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
ncbi-blast+
|
devel/grpc: Update to 1.70.1
|
2025-02-08 05:34:57 +08:00 |
|
ncbi-cxx-toolkit
|
biology/ncbi-cxx-toolkit: update 28.0.11 → 28.0.12
|
2025-01-07 01:29:09 -08:00 |
|
ncbi-entrez-direct
|
all: Bump after lang/go121 update
|
2024-08-09 06:24:08 +00:00 |
|
ncbi-toolkit
|
all: drop support for expired FreeBSD 14.0
|
2024-10-01 20:56:20 +02:00 |
|
ngs-sdk
|
biology/ngs-sdk: Attempt to fix build on i386
|
2024-04-28 00:10:02 -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
|
biology/p5-Bio-DB-NCBIHelper: Update to 1.7.8
|
2023-12-25 16:59:52 +08:00 |
|
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
|
biology/p5-BioPerl: Update to 1.007008
|
2023-10-11 20:57:41 +08:00 |
|
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: Update to 0.6.10
|
2024-07-23 11:01:28 -04:00 |
|
paml
|
biology/paml: Update to 4.10.7
|
2023-07-08 00:46:53 -03:00 |
|
pbbam
|
devel/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
|
peak-classifier
|
biology/peak-classifier: Clean up USES=python
|
2024-04-05 08:43:40 +08:00 |
|
pear-merger
|
MANPREFIX: eliminate its usage
|
2024-01-12 16:11:29 +01:00 |
|
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-amd64
|
2024-06-16 17:25:18 +02:00 |
|
picard-tools
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
plink
|
*/*: bump PORTREVISION after OpenBLAS upgrade
|
2025-01-28 17:42:55 +01:00 |
|
pooler
|
biology/pooler: Update to 1.89
|
2025-02-01 01:36:31 +00:00 |
|
preseq
|
preseq: Not for 32-bit platforms
|
2024-11-24 07:50:11 -06:00 |
|
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
|
biology/prodigy-lig: update 1.1.2 → 1.1.3
|
2024-10-15 08:33:52 -07:00 |
|
protomol
|
graphics/tiff: Update to 4.6.0
|
2024-04-27 14:44:59 +02:00 |
|
psi88
|
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
|
2023-04-23 09:09:58 +00:00 |
|
py-bcbio-gff
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
py-biom-format
|
biology/py-biom-format: update 2.1.10 → 2.1.16
|
2024-07-13 11:06:57 -07:00 |
|
py-biopython
|
biology/py-biopython: Update 1.83 => 1.85
|
2025-02-15 20:08:17 +03:00 |
|
py-biosig
|
biology/{.py-}biosig: update 2.6.0 → 2.6.1
|
2024-08-05 07:37:01 -07:00 |
|
py-bx-python
|
biology/py-bx-python: update 0.11.0 → 0.13.0
|
2024-12-15 06:55:17 -08:00 |
|
py-crossmap
|
all: remove explicit versions in USES=python for "3.x+"
|
2023-06-27 21:34:34 +02:00 |
|
py-cutadapt
|
biology/py-cutadapt: Update to 5.0
|
2025-01-10 16:35:23 +01:00 |
|
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
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
py-dnaio
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
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
|
biology/py-gffutils: update 0.11.1 → 0.13
|
2024-06-16 18:20:35 -07:00 |
|
py-goatools
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
py-gtfparse
|
biology/py-gtfparse: Fix fetch
|
2024-12-05 19:44:23 -08:00 |
|
py-hits
|
all: remove explicit versions in USES=python for "3.x+"
|
2023-06-27 21:34:34 +02:00 |
|
py-htseq
|
py-htseq: New maintainer
|
2024-11-28 06:22:44 -06:00 |
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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-macs3
|
biology/py-macs3: Update to 3.0.2
|
2024-09-14 08:23:32 -05:00 |
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py-mrcfile
|
biology/py-mrcfile: update 1.5.2 → 1.5.3
|
2024-07-26 01:57:55 -07:00 |
|
py-multiqc
|
biology/py-multiqc: Add missing py-natsort RUN_DEPEND
|
2024-12-12 08:52:37 -06:00 |
|
py-newick
|
biology/py-newick: Add new port
|
2024-02-03 00:58:29 +00:00 |
|
py-ont-fast5-api
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
py-orange3-bioinformatics
|
biology/py-orange3-bioinformatics: Update 4.3.1 → 4.8.4
|
2025-02-18 22:45:18 +03:00 |
|
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
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
py-pyfaidx
|
all: remove explicit versions in USES=python for "3.x+"
|
2023-06-27 21:34:34 +02:00 |
|
py-pyrodigal
|
biology/py-pyrodigal: update 3.5.2 → 3.6.3
|
2024-11-12 00:32:35 -08:00 |
|
py-pysam
|
biology/py-pysam: update 0.22.1 → 0.23.0
|
2025-02-06 07:05:43 -08:00 |
|
py-PySCeS
|
biology/py-PySCeS: update 1.2.1 → 1.2.2
|
2024-08-03 01:27:31 -07:00 |
|
py-python-libsbml
|
biology/py-python-libsbml: update 5.20.1 → 5.20.4
|
2024-11-12 02:18:13 -08:00 |
|
py-pywgsim
|
Multiple biology ports: Replace pypi homepage with github
|
2025-02-21 07:04:08 -06:00 |
|
py-resdk
|
biology/py-resdk: update 21.2.0 → 21.2.1
|
2024-11-10 19:54:22 -08:00 |
|
py-scikit-bio
|
biology/py-scikit-bio: update 0.6.2 → 0.6.3
|
2025-01-13 19:26:05 -08:00 |
|
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
|
biology/python-nexus: Update to 2.9.0 and fix build with python-3.11
|
2024-02-03 00:58:29 +00:00 |
|
R-cran-Biobase
|
biology/R-cran-Biobase: New port
|
2023-12-15 13:55:44 +01:00 |
|
R-cran-BiocGenerics
|
biology/R-cran-BiocGenerics: New port
|
2023-12-15 13:55:44 +01:00 |
|
R-cran-BiocManager
|
biology/R-cran-BiocManager: Update version 1.30.24=>1.30.25
|
2024-09-08 19:28:55 +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
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
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
|
biology/rubygem-bio: Update to 2.0.5
|
2023-09-30 08:46:30 +08:00 |
|
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/boost: bump consumers after Boost-1.87 update
|
2025-02-14 06:17:22 +03:00 |
|
sam2pairwise
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
samtools
|
biology/samtools: Update to 1.21
|
2024-10-09 17:23:09 -05:00 |
|
scrm
|
biology/scrm: Move man pages to share/man
|
2024-03-02 19:59:23 +00:00 |
|
seaview
|
biology/seaview: unbreak the port's build against FLTK 1.3.10
|
2025-02-05 16:37:24 +00:00 |
|
seqan
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
seqan-apps
|
biology/seqan-apps: Fix build with llvm16
|
2023-08-06 23:53:04 +02:00 |
|
seqan1
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
seqan3
|
biology/seqan3: update 3.2.0 → 3.3.0
|
2023-09-10 11:10:47 -07:00 |
|
seqkit
|
biology/seqkit: update 2.8.2 → 2.9.0
|
2024-11-04 17:26:42 -08:00 |
|
seqtk
|
biology/seqtk: Update to 1.4
|
2023-05-23 17:42:13 -05:00 |
|
seqwish
|
biology/seqwish: Broken on 13
|
2024-12-19 22:05:53 -08:00 |
|
sigviewer
|
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
|
2023-04-23 09:09:58 +00:00 |
|
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
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
spoa
|
biology/spoa: Broken on i386
|
2024-04-11 21:05:12 -07:00 |
|
sra-tools
|
biology/sra-tools: Update to 3.2.0
|
2025-01-29 14:16:40 -06:00 |
|
stacks
|
biology/stacks: fix build without libomp
|
2025-01-22 12:27:04 +01:00 |
|
star
|
biology/star: Use EXTRACT_AFTER_ARGS to omit unused htslib dir
|
2024-05-05 09:58:47 -05:00 |
|
stringtie
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
subread
|
biology/subread: Update to 2.0.8
|
2025-01-19 06:46:51 -06:00 |
|
tabixpp
|
biology/tabixpp: Undeprecate and update to 1.1.2
|
2025-02-18 09:39:35 -06:00 |
|
taxonkit
|
biology/taxonkit: update 0.17.0 → 0.18.0
|
2024-11-04 17:26:41 -08:00 |
|
treekin
|
*/*: bump PORTREVISION to chase blas/lapack, Suitesparse and BLIS
|
2025-01-24 13:18:28 +01:00 |
|
treepuzzle
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
trimadap
|
biology/trimadap: drop not necessary powerpc64le knob
|
2025-01-29 17:56:25 +01:00 |
|
trimmomatic
|
Mk/**java.mk: Convert bsd.java.mk to USES
|
2024-12-31 09:57:55 +01:00 |
|
tRNAscan-SE
|
biology/tRNAscan-SE: Update to 2.0.11
|
2022-10-12 12:45:24 +01:00 |
|
ucsc-userapps
|
biology/ucsc-userapps: Update to v474
|
2024-11-28 09:59:20 -06:00 |
|
ugene
|
MAN?PREFIX: eleminate its usage and move man to share/man
|
2024-01-10 09:16:01 +01:00 |
|
unikmer
|
biology/unikmer: Update WWW
|
2025-01-05 20:01:04 -08:00 |
|
vcf-split
|
biology/vcf-split: Move man pages to share/man
|
2024-03-02 20:04:57 +00:00 |
|
vcf2hap
|
biology/vcf2hap: Move man pages to share/man
|
2024-03-02 20:07:47 +00:00 |
|
vcflib
|
biology/vcflib: Update to 1.0.12
|
2024-11-25 08:49:37 -06:00 |
|
vcftools
|
biology/vcftools: Move man pages to share/man
|
2024-03-02 20:35:56 +00:00 |
|
velvet
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
viennarna
|
*/*: bump PORTREVISION to chase blas/lapack, Suitesparse and BLIS
|
2025-01-24 13:18:28 +01:00 |
|
vsearch
|
biology/vsearch: Update to 2.29.4
|
2025-02-16 08:21:06 -06:00 |
|
vt
|
biology/vt: Bump PORTREVISION for biology/htslib update
|
2023-01-05 19:19:19 -06:00 |
|
wfa2-lib
|
biology/wfa2-lib: fix build without libomp
|
2024-08-04 14:00:47 +02:00 |
|
wise
|
all: drop support for expired FreeBSD 14.0
|
2024-10-01 20:56:20 +02:00 |
|
Makefile
|
biology/ncbi-vdb: Remove expired port
|
2025-01-01 11:59:57 +01:00 |
