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abyss
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
artemis
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Clean up after java/openjdk6 and java/openjdk6-jre removal
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2019-11-26 21:46:12 +00:00 |
avida
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biology/avida: unbreak on powerpc64
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2019-10-23 16:25:10 +00:00 |
babel
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bamtools
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bcftools
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math/gsl: update to 2.6
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2019-10-25 23:41:34 +00:00 |
bedtools
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biology/bedtools: Upgrade to 2.29.1
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2019-12-11 15:13:20 +00:00 |
biococoa
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bolt-lmm
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
bowtie
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
bowtie2
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Update devel/tbb to 2019.8 and bump dependent ports' revisions
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2019-09-25 10:03:49 +00:00 |
bwa
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canu
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
cd-hit
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
cdbfasta
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checkm
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biology/checkm: Update 1.0.17 -> 1.0.18
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2019-08-19 08:25:29 +00:00 |
clustal-omega
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clustalw
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consed
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Mark a few ports BROKEN, unfetchable
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2019-11-06 12:48:32 +00:00 |
cufflinks
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
cytoscape
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Clean up after java/openjdk6 and java/openjdk6-jre removal
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2019-11-26 21:46:12 +00:00 |
ddocent
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
diamond
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biology/diamond: Update to v0.9.29
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2019-11-20 17:14:29 +00:00 |
dsr-pdb
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
emboss
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Sprinkle more USES=xorg
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2019-11-07 20:19:59 +00:00 |
exonerate
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fasta
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
fasta3
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
fastahack
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biology/fastahack: Upgrade to 1.0.0
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2019-10-06 21:34:32 +00:00 |
fastdnaml
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fastool
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fastp
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
fastqc
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biology/fastqc: Upgrade to 0.11.8
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2019-09-21 02:44:54 +00:00 |
fasttree
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
fastx-toolkit
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figtree
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fluctuate
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freebayes
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
garlic
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
gatk
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Create devel/gradle5 in preparation of devel/gradle update
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2019-11-20 09:51:43 +00:00 |
gemma
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math/gsl: update to 2.6
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2019-10-25 23:41:34 +00:00 |
gff2ps
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gmap
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
gperiodic
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a-b: Add missing USES={gnome,php,sdl,xorg}
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2019-11-08 09:27:56 +00:00 |
graphlan
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grappa
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groopm
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
haplohseq
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
hhsuite
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devel/openmp: update to 9.0.0
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2019-09-21 18:59:57 +00:00 |
hisat2
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hmmer
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
htslib
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hyphy
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
igv
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infernal
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iolib
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iqtree
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biology/iqtree: Update to version 1.6.12
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2019-08-27 01:19:11 +00:00 |
jalview
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Clean up after java/openjdk6 and java/openjdk6-jre removal
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2019-11-26 21:46:12 +00:00 |
jellyfish
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Drop C++11 workaround for GCC < 6 after r449590
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2019-09-14 22:01:13 +00:00 |
kallisto
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biology/kallisto: Upgrade to 0.46.1
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2019-11-06 00:18:14 +00:00 |
lagan
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
lamarc
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libbigwig
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libgtextutils
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libsbml
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mafft
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mapm3
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migrate
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minimap2
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molden
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
mopac
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
mothur
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biology/mothur: Update 1.42.3 -> 1.43.0
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2019-10-05 17:04:42 +00:00 |
mrbayes
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Mark a few ports BROKEN, unfetchable
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2019-11-06 12:48:32 +00:00 |
mummer
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
muscle
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ncbi-blast+
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
ncbi-cxx-toolkit
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
ncbi-toolkit
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biologi/ncbi-toolkit: Remove dependency on libXp
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2019-09-28 10:52:57 +00:00 |
ngs-sdk
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biology/ngs-sdk: Update 2.9.6 -> 2.10.0
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2019-08-31 15:09:47 +00:00 |
p5-AcePerl
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p5-Bio-ASN1-EntrezGene
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Install Bio::SeqIO::entrezgene
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2019-12-08 16:57:13 +00:00 |
p5-Bio-Cluster
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Update *_DEPENDS
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2019-12-08 16:57:18 +00:00 |
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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Add p5-Bio-DB-EMBL 1.7.4
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2019-12-08 16:49:19 +00:00 |
p5-Bio-DB-NCBIHelper
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Add p5-Bio-DB-NCBIHelper 1.7.6
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2019-12-08 16:49:25 +00:00 |
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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Add p5-Bio-Variation 1.7.4
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2019-12-08 16:49:31 +00:00 |
p5-BioPerl
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Update to 1.007007 (1.7.7)
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2019-12-08 16:57:23 +00:00 |
p5-BioPerl-Run
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p5-transdecoder
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
p5-TrimGalore
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biology/p5-TrimGalore: Upgrade to 0.6.5
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2019-11-26 16:20:12 +00:00 |
paml
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biology/paml: Update to version 4.9j
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2019-11-22 15:32:40 +00:00 |
pbbam
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
pbcopper
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
pbseqan
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biology/unanimity and dependencies: Flag as no longer open source
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2019-11-24 15:53:00 +00:00 |
pear-merger
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phrap
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phred
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
phylip
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
phyml
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biology/phyml: disable -march=native
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2019-12-06 13:04:41 +00:00 |
plinkseq
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Mark a few ports BROKEN, unfetchable
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2019-11-06 12:48:32 +00:00 |
primer3
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prodigal
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biology/prodigal: Eliminate a very old version from the portscout discovery process
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2019-10-12 15:40:21 +00:00 |
prodigy-lig
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
protomol
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
psi88
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-biom-format
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- Limit python version (does not build with 3.7+)
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2019-11-08 12:12:42 +00:00 |
py-biopython
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-bx-python
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biology/py-bx-python: Update 0.8.4 -> 0.8.6
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2019-11-23 05:53:50 +00:00 |
py-cutadapt
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biology/py-cutadapt: Upgrade to 2.7
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2019-11-23 14:45:53 +00:00 |
py-dnaio
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biology/py-dnaio: Upgrade to 0.4.1
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2019-11-23 14:40:00 +00:00 |
py-fastTSNE
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devel/openmp: update to 9.0.0
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2019-09-21 18:59:57 +00:00 |
py-Genesis-PyAPI
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py-gffutils
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py-gtfparse
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-loompy
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-macs2
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-multiqc
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biology/py-multiqc: Upgrade to 1.8
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2019-11-26 16:25:08 +00:00 |
py-orange3-bioinformatics
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-orange3-single-cell
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
py-pyfaidx
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py-pysam
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biology/py-pysam: Update 0.15.2 -> 0.15.3
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2019-08-31 15:49:18 +00:00 |
py-xenaPython
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pycogent
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
pyfasta
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
python-nexus
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rainbow
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recombine
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Fix after gets(3) retirement using gets_s(3).
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2019-09-02 05:00:43 +00:00 |
ruby-bio
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rubygem-bio
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samtools
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Convert to UCL & cleanup pkg-message (categories a-c)
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2019-08-13 16:00:39 +00:00 |
seaview
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
seqan
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seqan1
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Fix some misspelled or duplicated LICENSE_*
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2019-09-17 19:21:45 +00:00 |
seqan-apps
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
seqio
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seqtk
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seqtools
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Mark a few ports BROKEN, unfetchable
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2019-11-06 12:48:32 +00:00 |
sim4
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slclust
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smithwaterman
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stacks
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
star
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biology/star: Upgrade to 2.7.2d
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2019-10-06 22:18:31 +00:00 |
stringtie
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t_coffee
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Mark a few ports BROKEN, unfetchable
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2019-11-06 12:48:32 +00:00 |
tabixpp
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tophat
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
treekin
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Bump PORTREVISION for ports depending on the canonical version of GCC
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2019-07-26 20:46:53 +00:00 |
treepuzzle
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trimadap
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trimmomatic
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Clean up after java/openjdk6 and java/openjdk6-jre removal
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2019-11-26 21:46:12 +00:00 |
tRNAscan-SE
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ugene
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Mark a few ports BROKEN, unfetchable
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2019-11-06 12:48:32 +00:00 |
unanimity
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devel/boost-*: update to 1.72.0
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2019-12-11 17:53:48 +00:00 |
vcflib
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vcftools
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velvet
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viennarna
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Add USES=xorg USES=gl, ports categories b
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2019-11-04 21:08:20 +00:00 |
vsearch
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wise
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a-b: Add missing USES={gnome,php,sdl,xorg}
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2019-11-08 09:27:56 +00:00 |
Makefile
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Add p5-Bio-Variation 1.7.4
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2019-12-08 16:49:31 +00:00 |