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abyss
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ad2vcf
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biology/ad2vcf: Update to 0.1.5
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2022-03-15 16:39:32 -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 0.2.2
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2022-03-15 16:35:22 -05:00 |
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biolibc-tools
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biology/biolibc-tools: Update to 0.1.2
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2022-03-15 16:36:49 -05:00 |
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bioparser
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biosig
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biology/biosig: Update 2.3.3 -> 2.4.0
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2022-03-20 12:43:56 -07:00 |
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biosoup
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biostar-tools
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bolt-lmm
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biology/bolt-lmm: Update to 2.3.6
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2022-03-20 10:29:01 -05:00 |
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bowtie
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bowtie2
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biology/bowtie2: Update to 2.4.5
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2022-01-21 08:33:54 -06:00 |
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bwa
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canu
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cd-hit
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cdbfasta
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checkm
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biology/checkm: Fix build with setuptools 58.0.0+
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2022-03-25 21:38:04 +08:00 |
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clustal-omega
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clustalw
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cufflinks
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cytoscape
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ddocent
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diamond
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biology/diamond: Update to 2.0.14
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2022-01-13 13:42:38 -04:00 |
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dsr-pdb
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biology/dsr-pdb: Remove -pg (mcount instrumentation) flag
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2022-03-21 17:07:11 -07:00 |
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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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biology/fastp: Add USE_GCC to hack around seg faults
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2022-01-21 10:16:01 -06:00 |
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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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fastx-toolkit
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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figtree
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flash
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fluctuate
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freebayes
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biology/freebayes: Update to 1.3.6
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2022-02-06 14:23:45 -06:00 |
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garlic
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gatk
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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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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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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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hhsuite
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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: Fix build with clang 13.0.0
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2022-02-21 16:13:16 -04:00 |
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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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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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iqtree
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jalview
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jellyfish
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kallisto
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biology/kallisto: Update to 0.48.0
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2022-01-19 07:57:36 -06:00 |
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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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textproc/libxml2: bump all dependencies
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2022-03-26 09:27:27 +01:00 |
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libsbml
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textproc/libxml2: bump all dependencies
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2022-03-26 09:27:27 +01:00 |
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libsedml
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textproc/libxml2: bump all dependencies
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2022-03-26 09:27:27 +01:00 |
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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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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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minimap2
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mmseqs2
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molden
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*: Clean up some things
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2022-01-17 14:20:25 +01:00 |
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mopac
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mothur
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biology/mothur: Update 1.46.1 -> 1.47.0
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2022-01-21 09:14:38 -08:00 |
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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 1.45.0
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2022-03-31 06:02:45 +08:00 |
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ncbi-cxx-toolkit
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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ncbi-entrez-direct
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*/*: Bump PORTREVISION after lang/go 1.18 update
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2022-03-30 03:01:44 -04:00 |
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ncbi-toolkit
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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ncbi-vdb
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textproc/libxml2: bump all dependencies
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2022-03-26 09:27:27 +01:00 |
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ngs-sdk
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biology/ngs-sdk: Update 2.11.1 -> 2.11.2
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2022-01-27 01:29:09 -08:00 |
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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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pbseqan
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peak-classifier
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biology/peak-classifier: Update to 0.1.3
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2022-03-15 16:41:51 -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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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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plink
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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pooler
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biology/pooler: Update to 1.84
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2022-03-14 09:41:38 -05:00 |
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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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biology/py-bcbio-gff: Read and write Generic Feature Format (GFF)
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2022-02-03 13:38:42 -06:00 |
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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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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: Add missing dependency
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2022-02-12 09:12:39 -06:00 |
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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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py-goatools
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py-gtfparse
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py-hits
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py-libnuml
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py-libsedml
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biology/{,py-}libsedml: Update 2.0.27 -> 2.0.28
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2022-03-05 18:15:32 -08:00 |
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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-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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cleanup: remove transitive py27 deprecation (www/qt5-webengine)
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2022-01-23 21:56:25 +01:00 |
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py-orange3-single-cell
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cleanup: remove transitive py27 deprecation (www/qt5-webengine)
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2022-01-23 21:56:25 +01:00 |
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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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py-PySCeS
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biology/py-PySCeS: fix with Python ≠ 3.8
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2022-03-02 19:49:25 +01:00 |
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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 13.8.0 -> 14.0.0
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2022-01-19 10:10:01 -08:00 |
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py-scikit-bio
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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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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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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seqan3
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seqan-apps
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seqio
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seqkit
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*/*: Bump PORTREVISION after lang/go 1.18 update
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2022-03-30 03:01:44 -04:00 |
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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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spoa
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devel/cpu_features: Install cmake files, install headers into a dedicated directory
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2022-01-26 08:45:29 -08:00 |
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sra-tools
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textproc/libxml2: bump all dependencies
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2022-03-26 09:27:27 +01:00 |
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stacks
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star
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stringtie
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subread
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tabixpp
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taxonkit
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*/*: Bump PORTREVISION after lang/go 1.18 update
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2022-03-30 03:01:44 -04:00 |
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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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unikmer
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*/*: Bump PORTREVISION after lang/go 1.18 update
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2022-03-30 03:01:44 -04:00 |
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vcf2hap
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biology/vcf2hap: Update to 0.1.5
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2022-03-15 16:45:04 -05:00 |
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vcf-split
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biology/vcf-split: Update to 0.1.4
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2022-03-15 16:43:40 -05:00 |
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vcflib
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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vcftools
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velvet
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viennarna
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Update CONFLICTS definitions in categories a* to c*
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2022-02-06 19:36:07 +01:00 |
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vsearch
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biology/vsearch: Update to 2.21.1
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2022-01-23 16:32:43 -06:00 |
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vt
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wise
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Makefile
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biology/fastq-trim: Lightening fast sequence read trimmer
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2022-03-19 07:25:58 -05:00 |
