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abyss
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devel/libffi: Bump deps PORTREVISION for shlib change
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2022-05-09 12:23:51 -07:00 |
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ad2vcf
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biology/ad2vcf: Update to 0.1.6
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2022-06-11 09:26:57 -05:00 |
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artemis
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avida
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babel
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bamtools
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bamutil
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bbmap
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bcftools
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biology/bcftools: Update to 1.15
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2022-02-26 09:04:10 -06:00 |
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bedtools
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bfc
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bio-mocha
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biology/bio-mocha: Update bcftools submodule to 1.15
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2022-02-26 09:04:10 -06:00 |
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bioawk
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biococoa
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biolibc
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biology/biolibc: Update to 0.2.3
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2022-06-11 09:26:56 -05:00 |
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biolibc-tools
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*: bump PORTREVISION of devel/xxhash users.
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2022-08-13 20:54:30 +02:00 |
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bioparser
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biosig
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biology/biosig: Update 2.4.1 -> 2.4.2
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2022-06-19 09:53:42 -07:00 |
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biosoup
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biostar-tools
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bolt-lmm
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devel/boost-all: bump all library consumers after boost upgrade
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2022-05-22 23:17:16 +03:00 |
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bowtie
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bowtie2
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bwa
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canu
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devel/boost-all: bump all library consumers after boost upgrade
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2022-05-22 23:17:16 +03:00 |
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cd-hit
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biology/cd-hit: check for omp.h on all architectures
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2022-04-27 13:22:07 +00:00 |
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cdbfasta
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checkm
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biology/checkm: Update 1.1.11 -> 1.2.0
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2022-05-01 11:14:09 -07:00 |
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clustal-omega
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clustalw
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cufflinks
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biology/cufflinks: Unbreak
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2022-07-27 20:43:46 -07:00 |
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cytoscape
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ddocent
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diamond
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biology/diamond: Update to 2.0.15
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2022-04-24 14:50:21 -03:00 |
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dsr-pdb
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devel/boost-all: bump all library consumers after boost upgrade
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2022-05-22 23:17:16 +03:00 |
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edlib
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emboss
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erminej
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exonerate
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fasta
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fasta3
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fastahack
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fastdnaml
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fastool
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fastp
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fastq-trim
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biology/fastq-trim: Update to 0.1.1.4
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2022-03-21 16:19:36 -05:00 |
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fastqc
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fasttree
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biology/fasttree: check for omp.h on all architectures
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2022-04-27 13:22:02 +00:00 |
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fastx-toolkit
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figtree
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flash
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fluctuate
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freebayes
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garlic
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gatk
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biology/gatk: Use Java 17 instead of EOLed Java 12
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2022-05-24 15:39:38 -07:00 |
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gcta
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gemma
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generand
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gff2ps
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gffread
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biology/gffread: remove local poudriere files
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2022-03-07 23:44:38 +01:00 |
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gmap
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gperiodic
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graphlan
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groopm
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biology/groopm: Fix build with setuptools 58.0.0+
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2022-03-25 21:38:04 +08:00 |
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haplohseq
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devel/boost-all: bump all library consumers after boost upgrade
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2022-05-22 23:17:16 +03:00 |
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hhsuite
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biology/hhsuite: check for omp.h on all architectures
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2022-04-27 13:22:04 +00:00 |
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hisat2
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hmmer
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htslib
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biology/htslib: Update to 1.15
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2022-02-26 09:04:10 -06:00 |
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hyphy
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biology/hyphy: Update to 2.5.39
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2022-05-26 23:38:12 -03:00 |
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igv
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infernal
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*/*: fix trailing whitespace in pkg-descr's
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2022-04-01 18:09:49 +03:00 |
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iolib
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iqtree
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devel/boost-all: bump all library consumers after boost upgrade
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2022-05-22 23:17:16 +03:00 |
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jalview
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jellyfish
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kallisto
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*/*: Replace science/szip with science/libaec
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2022-06-16 23:13:01 +08:00 |
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lamarc
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libbigwig
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libgff
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libgtextutils
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libneurosim
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libnuml
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biology/{,py-}libnuml: Update 1.1.5 -> 1.1.6
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2022-04-23 18:36:56 -07:00 |
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libsbml
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textproc/libxml2: bump all LIB_DEPENDS consumers
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2022-04-10 15:11:41 -04:00 |
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libsedml
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biology/{,py-}libsedml: Update 2.0.31 -> 2.0.32
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2022-06-08 22:53:28 -07:00 |
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linux-foldingathome
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mafft
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mapm3
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migrate
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minimap2
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mmseqs2
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biology/mmseqs2: Not require OpenMP on systems where OpenMP isn't enabled
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2022-07-23 09:41:44 -07:00 |
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molden
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biology/molden: Unbreak build; Correct WWW
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2022-07-19 01:07:49 -07:00 |
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mothur
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biology/mothur: Update 1.47.0 -> 1.48.0
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2022-05-19 19:10:18 -07:00 |
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mrbayes
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mummer
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muscle
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ncbi-blast+
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devel/grpc: Update to 1.47.0
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2022-06-30 00:32:34 +08:00 |
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ncbi-cxx-toolkit
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biology/ncbi-cxx-toolkit: Broken on armv6
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2022-08-06 16:29:45 -07:00 |
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ncbi-entrez-direct
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*/*: Bump port revisons after lang/go{117,118} update
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2022-06-07 16:56:10 -05:00 |
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ncbi-toolkit
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Fix CONFLICTS_INSTALL in benchmarks and biology
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2022-06-29 16:53:54 +02:00 |
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ncbi-vdb
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textproc/libxml2: bump all LIB_DEPENDS consumers
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2022-04-10 15:11:41 -04:00 |
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ngs-sdk
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biology/ngs-sdk: Broken on armv6, armv7
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2022-07-22 15:35:02 -07:00 |
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p5-AcePerl
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p5-Bio-ASN1-EntrezGene
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p5-Bio-Cluster
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p5-Bio-Coordinate
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p5-Bio-Das
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p5-Bio-Das-Lite
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p5-Bio-DB-EMBL
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p5-Bio-DB-NCBIHelper
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p5-Bio-FeatureIO
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p5-Bio-GFF3
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p5-Bio-Glite
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p5-Bio-Graphics
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p5-Bio-MAGETAB
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p5-Bio-NEXUS
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p5-Bio-Phylo
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p5-Bio-SCF
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p5-Bio-Variation
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p5-BioPerl
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p5-BioPerl-Run
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p5-transdecoder
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p5-TrimGalore
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paml
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pbbam
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devel/boost-all: bump all library consumers after boost upgrade
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2022-05-22 23:17:16 +03:00 |
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pbseqan
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peak-classifier
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biology/peak-classifier: Update to 0.1.4
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2022-06-11 09:26:57 -05:00 |
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pear-merger
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phrap
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phred
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phyml
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picard-tools
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plink
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pooler
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biology/pooler: use openmp only when omp.h is present
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2022-04-27 13:22:12 +00:00 |
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primer3
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prodigal
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prodigy-lig
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protomol
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psi88
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py-bcbio-gff
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py-biom-format
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py-biopython
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py-bx-python
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py-crossmap
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biology/py-crossmap: Fix build with setuptools 58.0.0+
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2022-03-25 21:38:04 +08:00 |
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py-cutadapt
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biology/py-cutadapt: fix tests by adding missing test depend
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2022-04-07 21:59:32 +03:00 |
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py-deeptools
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py-deeptoolsintervals
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py-dna-features-viewer
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biology/py-dna-features-viewer: Update to 3.1.1
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2022-05-08 07:48:38 -05:00 |
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py-dnaio
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py-ete3
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devel/py-qt5, devel/py-sip: Update versions
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2022-03-07 18:39:13 +01:00 |
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py-Genesis-PyAPI
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py-gffutils
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biology/py-gffutils: Update 0.10.1 -> 0.11.0
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2022-06-06 17:38:48 -07:00 |
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py-goatools
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py-gtfparse
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py-hits
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py-libnuml
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biology/{,py-}libnuml: Update 1.1.5 -> 1.1.6
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2022-04-23 18:36:56 -07:00 |
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py-libsedml
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biology/{,py-}libsedml: Update 2.0.31 -> 2.0.32
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2022-06-08 22:53:28 -07:00 |
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py-loompy
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biology/py-loompy: Update 3.0.6 -> 3.0.7
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2022-03-06 09:09:59 -08:00 |
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py-macs2
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py-mrcfile
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biology/py-mrcfile: New port: MRC file I/O library which is used in structural biology
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2022-05-01 10:37:04 -07:00 |
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py-multiqc
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py-ont-fast5-api
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biology/py-ont-fast5-api: Update to 4.0.2
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2022-03-25 11:37:29 -05:00 |
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py-orange3-bioinformatics
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py-orange3-single-cell
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py-pandas-charm
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py-py2bit
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py-pybigwig
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py-pyfaidx
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py-pysam
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biology/py-pysam: Remove BROKEN lines
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2022-07-19 08:53:29 -07:00 |
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py-PySCeS
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biology/py-PySCeS: Update 1.0.1 -> 1.0.2
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2022-05-20 15:02:59 -07:00 |
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py-python-libsbml
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py-pywgsim
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py-resdk
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biology/py-resdk: Update 14.1.0 -> 15.0.0
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2022-06-06 17:38:49 -07:00 |
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py-scikit-bio
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biology/py-scikit-bio: Broken on aarch64
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2022-06-03 15:56:03 -07:00 |
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py-xenaPython
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pyfasta
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python-nexus
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biology/python-nexus: Fix build with setuptools 58.0.0+
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2022-03-25 21:38:05 +08:00 |
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rainbow
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rampler
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readseq
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recombine
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ruby-bio
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rubygem-bio
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rubygem-bio-executables
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rubygem-bio-old-biofetch-emulator
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rubygem-bio-shell
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sam2pairwise
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samtools
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biology/samtools: Update to 1.15
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2022-02-26 09:04:10 -06:00 |
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scrm
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seaview
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seqan
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seqan1
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seqan3
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biology/seqan3: Update 3.1.0 -> 3.2.0
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2022-06-24 00:20:46 -07:00 |
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seqan-apps
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devel/cmake: Update to 3.23.0
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2022-05-16 08:49:43 +02:00 |
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seqio
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seqkit
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*/*: Bump port revisons after lang/go{117,118} update
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2022-06-07 16:56:10 -05:00 |
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seqtk
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sigviewer
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sim4
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slclust
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smithwaterman
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snpeff
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cleanup: remove expired versions of OpenJDK (12 through 16)
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2022-05-24 22:09:35 +02:00 |
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spoa
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sra-tools
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textproc/libxml2: bump all LIB_DEPENDS consumers
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2022-04-10 15:11:41 -04:00 |
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stacks
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star
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biology/star: Broken on systems where OpenMP isn't enabled
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2022-07-23 18:25:22 -07:00 |
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stringtie
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subread
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tabixpp
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taxonkit
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biology/taxonkit: Update 0.11.1 -> 0.12.0
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2022-06-08 23:08:00 -07:00 |
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treekin
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treepuzzle
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trimadap
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trimmomatic
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tRNAscan-SE
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ucsc-userapps
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ugene
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biology/ugene: Correct BROKEN message
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2022-08-04 09:36:57 -07:00 |
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unikmer
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*/*: Bump port revisons after lang/go{117,118} update
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2022-06-07 16:56:10 -05:00 |
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vcf2hap
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biology/vcf2hap: Update to 0.1.6
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2022-06-11 09:26:57 -05:00 |
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vcf-split
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biology/vcf-split: Update to 0.1.5
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2022-06-11 09:26:56 -05:00 |
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vcflib
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Fix CONFLICTS_INSTALL in benchmarks and biology
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2022-06-29 16:53:54 +02:00 |
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vcftools
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velvet
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viennarna
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vsearch
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vt
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wise
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Makefile
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biology/mopac: Move to science/mopac; Add TIMESTAMP to distinfo; Take maintainership
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2022-06-19 00:52:28 -07:00 |
