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abyss
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2022-09-07 23:58:51 +02:00 |
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ad2vcf
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2022-09-07 23:58:51 +02:00 |
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artemis
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2022-09-07 23:58:51 +02:00 |
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atac-seq
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biology/atac-seq: Update to 0.1.1
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2023-01-12 13:00:03 -06:00 |
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augustus
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math/suitesparse*: bump PORTREVISION of dependant ports
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2023-01-19 17:45:37 +01:00 |
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avida
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2022-09-07 23:58:51 +02:00 |
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babel
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2022-09-07 23:58:51 +02:00 |
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bamtools
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2022-09-07 23:58:51 +02:00 |
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bamutil
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2022-09-07 23:58:51 +02:00 |
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barrnap
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biology/barrnap: Update descr
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2022-11-24 19:12:18 -08:00 |
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bbmap
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2022-09-07 23:58:51 +02:00 |
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bcftools
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biology/bcftools: Update to 1.16
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2023-01-05 17:19:22 -06:00 |
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bedtools
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2022-09-07 23:58:51 +02:00 |
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bfc
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2022-09-07 23:58:51 +02:00 |
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bio-mocha
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biology/bio-mocha: Update to 1.16
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2023-01-05 17:21:03 -06:00 |
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bioawk
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2022-09-07 23:58:51 +02:00 |
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biococoa
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2022-09-07 23:58:51 +02:00 |
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biolibc
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biology/biolibc: Update to 0.2.4
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2022-12-11 14:06:23 -06:00 |
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biolibc-tools
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biology/biolibc-tools: Update to 0.1.4.1
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2022-12-13 18:11:56 -06:00 |
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bioparser
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2022-09-07 23:58:51 +02:00 |
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biosig
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math/suitesparse*: bump PORTREVISION of dependant ports
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2023-01-19 17:45:37 +01:00 |
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biosoup
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biology/biosoup: Update g20201216 -> 0.10.0-2
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2022-10-10 23:10:56 -07:00 |
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biostar-tools
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2022-09-07 23:58:51 +02:00 |
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bolt-lmm
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*/*: bump libboost*.so libraries consumert after Boost upgrade
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2023-01-16 22:32:07 +03:00 |
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bowtie
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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bowtie2
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biology/bowtie2: Update to 2.5.1
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2023-01-21 16:30:48 -06:00 |
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bwa
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2022-09-07 23:58:51 +02:00 |
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canu
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2022-09-07 23:58:51 +02:00 |
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cd-hit
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2022-09-07 23:58:51 +02:00 |
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cdbfasta
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2022-09-07 23:58:51 +02:00 |
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checkm
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2022-09-07 23:58:51 +02:00 |
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clustal-omega
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2022-09-07 23:58:51 +02:00 |
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clustalw
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2022-09-07 23:58:51 +02:00 |
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cufflinks
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*/*: bump libboost*.so libraries consumert after Boost upgrade
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2023-01-16 22:32:07 +03:00 |
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cytoscape
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biology/cytoscape: Broken on armv6, armv7
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2022-12-10 23:41:04 -08:00 |
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ddocent
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2022-09-07 23:58:51 +02:00 |
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diamond
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2022-09-07 23:58:51 +02:00 |
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dsr-pdb
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*/*: bump libboost*.so libraries consumert after Boost upgrade
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2023-01-16 22:32:07 +03:00 |
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edlib
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2022-09-07 23:58:51 +02:00 |
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emboss
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2022-09-07 23:58:51 +02:00 |
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erminej
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2022-09-07 23:58:51 +02:00 |
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exonerate
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2022-09-07 23:58:51 +02:00 |
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fasda
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biology/fasda: Fast and simple differential analysis
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2022-12-12 11:17:22 -06:00 |
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fasta
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2022-09-07 23:58:51 +02:00 |
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fasta3
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2022-09-07 23:58:51 +02:00 |
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fastahack
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2022-09-07 23:58:51 +02:00 |
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fastdnaml
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2022-09-07 23:58:51 +02:00 |
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fastool
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2022-09-07 23:58:51 +02:00 |
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fastp
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2022-09-07 23:58:51 +02:00 |
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fastq-trim
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biology/fastq-trim: Update to 0.1.2
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2022-12-11 15:24:05 -06:00 |
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fastqc
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2022-09-07 23:58:51 +02:00 |
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fasttree
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2022-09-07 23:58:51 +02:00 |
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fastx-toolkit
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2022-09-07 23:58:51 +02:00 |
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figtree
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2022-09-07 23:58:51 +02:00 |
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flash
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2022-09-07 23:58:51 +02:00 |
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fluctuate
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2022-09-07 23:58:51 +02:00 |
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freebayes
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biology/freebayes: Drop redundant tabixpp dep
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2023-01-22 10:42:34 -06:00 |
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garlic
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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gatk
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biology/gatk: Update 4.2.6.1 -> 4.3.0.0
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2022-11-26 20:06:47 -08:00 |
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gcta
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2022-09-07 23:58:51 +02:00 |
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gemma
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2022-09-07 23:58:51 +02:00 |
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generand
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2022-09-07 23:58:51 +02:00 |
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gff2ps
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2022-09-07 23:58:51 +02:00 |
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gffread
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2022-09-07 23:58:51 +02:00 |
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gmap
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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gperiodic
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2022-09-07 23:58:51 +02:00 |
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graphlan
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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groopm
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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haplohseq
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*/*: bump libboost*.so libraries consumert after Boost upgrade
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2023-01-16 22:32:07 +03:00 |
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hhsuite
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biology/hhsuite: Disable on 32-bit architectures following upstream advice
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2022-10-01 11:16:04 -07:00 |
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hisat2
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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hmmer
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biology/hmmer: Update to 3.3.2
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2022-10-11 15:13:01 -05:00 |
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htslib
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biology/htslib: Update to 1.16
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2023-01-05 17:16:08 -06:00 |
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hyphy
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biology/hyphy: Update to upstream tag 2.5.46hf1
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2023-01-09 22:05:57 -04:00 |
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igv
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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infernal
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biology/infernal: Update to 1.1.4
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2022-10-12 11:15:54 +01:00 |
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iolib
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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iqtree
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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jalview
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biology/jalview: Update 2.11.1.4 -> 2.11.2.5
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2022-10-11 23:58:18 -07:00 |
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jellyfish
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biology/jellyfish: Bump PORTREVISION for biology/htslib update
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2023-01-05 19:24:44 -06:00 |
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kallisto
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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kmcp
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biology/kmcp: Update 0.8.4 → 0.9.1
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2023-01-27 22:56:37 -08:00 |
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lamarc
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biology/lamarc: Refactor after wxgtk28 removal
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2022-12-31 04:54:58 +01:00 |
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libbigwig
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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libcombine
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biology/libcombine: Update 0.2.19 -> 0.2.20
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2022-12-08 03:11:24 -08:00 |
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libgff
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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libgtextutils
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2022-09-07 23:58:51 +02:00 |
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libneurosim
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2022-09-07 23:58:51 +02:00 |
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libnuml
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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libsbml
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biology/libsbml: unbreak build after 18c6e18276 (+)
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2023-01-18 17:47:24 +03:00 |
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libsedml
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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linux-foldingathome
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2022-09-07 23:58:51 +02:00 |
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mafft
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2022-09-07 23:58:51 +02:00 |
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mapm3
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2022-09-07 23:58:51 +02:00 |
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megahit
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biology/megahit: Add cmake patch to respect ports build flags
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2022-11-24 08:10:13 -06:00 |
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metaeuk
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biology/metaeuk: Fix build on systems withour OpenMP enabled
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2022-12-10 01:51:02 -08:00 |
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migrate
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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minimap2
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2022-09-07 23:58:51 +02:00 |
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mmseqs2
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2022-09-07 23:58:51 +02:00 |
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molden
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2022-09-07 23:58:51 +02:00 |
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mothur
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2022-09-07 23:58:51 +02:00 |
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mrbayes
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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mummer
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2022-09-07 23:58:51 +02:00 |
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muscle
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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ncbi-blast+
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devel/grpc: Update to 1.49.0
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2022-10-03 10:14:06 +08:00 |
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ncbi-cxx-toolkit
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graphics/proj: Update to 9.1.1
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2023-01-18 15:48:50 +01:00 |
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ncbi-entrez-direct
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all: Bump PORTVERSION after lang/go{118,119} update
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2023-01-14 06:31:17 -05:00 |
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ncbi-toolkit
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*/*: Bump PORTREVISION for consumers of libunistring
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2022-10-22 11:36:07 +02:00 |
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ncbi-vdb
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2022-09-07 23:58:51 +02:00 |
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ngs-sdk
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2022-09-07 23:58:51 +02:00 |
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p5-AcePerl
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-ASN1-EntrezGene
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-Cluster
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-Coordinate
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-Das
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-Das-Lite
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-DB-EMBL
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2022-09-07 23:58:51 +02:00 |
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p5-Bio-DB-NCBIHelper
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2022-09-07 23:58:51 +02:00 |
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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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2022-09-07 23:58:51 +02:00 |
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p5-BioPerl
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2022-09-07 23:58:51 +02:00 |
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p5-BioPerl-Run
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2022-09-07 23:58:51 +02:00 |
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p5-transdecoder
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2022-09-07 23:58:51 +02:00 |
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p5-TrimGalore
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2022-09-07 23:58:51 +02:00 |
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paml
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biology/paml: Update to 4.10.6
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2022-11-12 22:35:29 -04:00 |
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pbbam
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biology/pbbam: Bump PORTREVISION for biology/htslib update
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2023-01-05 19:25:09 -06:00 |
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pbseqan
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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peak-classifier
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biology/peak-classifier: Update to 0.1.4-5
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2022-12-11 14:09:20 -06:00 |
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pear-merger
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2022-09-07 23:58:51 +02:00 |
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phrap
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2022-09-07 23:58:51 +02:00 |
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phred
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2022-09-07 23:58:51 +02:00 |
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phyml
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2022-09-07 23:58:51 +02:00 |
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picard-tools
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2022-09-07 23:58:51 +02:00 |
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plink
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2022-09-07 23:58:51 +02:00 |
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pooler
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biology/pooler: update to 1.86
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2022-12-19 08:56:15 +01:00 |
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primer3
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2022-09-07 23:58:51 +02:00 |
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prodigal
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2022-09-07 23:58:51 +02:00 |
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prodigy-lig
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biology/prodigy-lig: Update 1.0.0-3 -> 1.0.1
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2023-01-23 00:17:38 -08:00 |
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protomol
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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psi88
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Remove WWW lines that have been moved into Makefiles
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2022-09-08 17:46:38 +02:00 |
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py-bcbio-gff
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-biom-format
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-biopython
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biology/py-biopython: Update to 1.80
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2022-12-05 19:45:16 +08:00 |
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py-biosig
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biology/py-biosig: New port: Library for reading and writing different biosignal data format
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2022-12-30 00:32:02 -08:00 |
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py-bx-python
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-crossmap
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-cutadapt
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-deeptools
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-deeptoolsintervals
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-dna-features-viewer
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-dnaio
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-ete3
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-Genesis-PyAPI
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-gffutils
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-goatools
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-gtfparse
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-hits
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-libnuml
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2022-09-07 23:58:51 +02:00 |
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py-libsedml
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2022-09-07 23:58:51 +02:00 |
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py-loompy
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-macs2
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Remove WWW entries moved into port Makefiles
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2022-09-07 23:58:51 +02:00 |
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py-mrcfile
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-multiqc
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-ont-fast5-api
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2022-09-07 23:58:51 +02:00 |
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py-orange3-bioinformatics
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-orange3-single-cell
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Revert: "all: deprecate ports depending on expired security/py-keyrings.alt"
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2022-12-06 12:12:04 +01:00 |
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py-pandas-charm
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-py2bit
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
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2023-01-11 18:58:34 +03:00 |
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py-pybigwig
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-pyfaidx
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-pyrodigal
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-pysam
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-PySCeS
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-python-libsbml
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-pywgsim
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-resdk
|
biology/py-resdk: Update 15.0.0 → 16.0.0
|
2023-01-27 22:56:38 -08:00 |
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py-scikit-bio
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*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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py-valerius
|
biology/py-valerius: New port: Python bioinformatics tools
|
2022-10-03 21:06:22 -07:00 |
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py-xenaPython
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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pyfasta
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
|
python-nexus
|
*/*: rename CHEESESHOP to PYPI in MASTER_SITES
|
2023-01-11 18:58:34 +03:00 |
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rainbow
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
rampler
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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readseq
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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recombine
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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rna-seq
|
biology/rna-seq: Update to 0.1.1
|
2023-01-12 13:02:14 -06:00 |
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ruby-bio
|
Mk/**ruby.mk: Switch from USE_RUBY=yes to USES=ruby
|
2023-01-14 17:08:33 -06:00 |
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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 |
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sam2pairwise
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
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samtools
|
biology/samtools: Update to 1.16.1
|
2023-01-05 17:17:34 -06:00 |
|
scrm
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
seaview
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +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
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
seqan-apps
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
seqio
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
seqkit
|
all: Bump PORTVERSION after lang/go{118,119} update
|
2023-01-14 06:31:17 -05:00 |
|
seqtk
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
sigviewer
|
Mk/Uses: always use colon for build/run suffix
|
2022-09-11 12:20:14 +02:00 |
|
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
|
biology/snpeff: Update to 5.1
|
2022-12-19 12:50:00 -06:00 |
|
spoa
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
sra-tools
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
stacks
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
star
|
biology/star: Bump PORTREVISION for biology/htslib update
|
2023-01-05 19:27:16 -06:00 |
|
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 PORTVERSION after lang/go{118,119} update
|
2023-01-14 06:31:17 -05:00 |
|
treekin
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
treepuzzle
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
trimadap
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
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
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
ugene
|
Mk/Uses: always use colon for build/run suffix
|
2022-09-11 12:20:14 +02:00 |
|
unikmer
|
all: Bump PORTVERSION after lang/go{118,119} update
|
2023-01-14 06:31:17 -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: Patch in time.h for struct timespec
|
2023-01-26 08:14:07 -06:00 |
|
vcftools
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
velvet
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
viennarna
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
vsearch
|
biology/vsearch: Update to 2.22.1
|
2022-09-21 11:24:14 -05:00 |
|
vt
|
biology/vt: Bump PORTREVISION for biology/htslib update
|
2023-01-05 19:19:19 -06:00 |
|
wise
|
Remove WWW entries moved into port Makefiles
|
2022-09-07 23:58:51 +02:00 |
|
Makefile
|
biology/atac-seq: Metaport for ATAC-Seq analysis
|
2023-01-11 17:47:02 -06:00 |
