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gentoo/sci-biology
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Justin Lecher a5be401eb7 sci-biology/rebase: Bump to latest release 
Signed-off-by: Justin Lecher <jlec@gentoo.org>
Package-Manager: Portage-2.3.40, Repoman-2.3.9
2018-06-09 21:33:20 +01:00
..
aaindex
sci-biology/aaindex: use HTTPs
2018-06-09 10:08:55 -04:00
abyss
sci-biology/abyss: bump up to 2.0.3
2018-03-15 23:33:14 +00:00
allpathslg
sci-biology/allpathslg: Sanitize ebuild
2017-12-24 19:00:27 +01:00
amap
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
amos
sci-biology/amos: Drop old
2018-03-03 18:44:08 +01:00
ApE
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
arb
sci-biology/arb: Remove old
2018-01-01 13:42:51 +01:00
ariadne
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
augustus
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
bamtools
sci-biology/bamtools: Use ninja for building
2018-06-02 15:24:55 +02:00
bcftools
sci-biology/bcftools: Update contact for mmokrejs
2018-01-06 11:18:58 +01:00
bedtools
sci-biology/bedtools: Add support for newer python
2017-12-10 11:21:44 +01:00
bfast
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
biogrep
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
biopandas
sci-biology/biopandas: Drop old
2018-05-16 16:25:52 +02:00
bioperl
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
bioperl-db
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
bioperl-network
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
bioperl-run
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
biopython
sci-biology/biopython: Bump to 1.71
2018-05-27 16:31:36 +02:00
bioruby
sci-biology/bioruby: add ruby24
2018-05-06 18:18:00 +02:00
biosql
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
blat
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
blossoc
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
bowtie
sci-biology/bowtie: Remove old
2017-12-25 17:08:50 +01:00
bwa
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
cd-hit
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
clustal-omega
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
clustalw
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
clustalw-mpi
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
clustalx
sci-biology/clustalx: Drop Qt4-based
2018-03-18 10:37:30 +01:00
consed
sci-biology/consed: Rehash
2018-01-14 00:01:44 +01:00
cufflinks
sci-biology/cufflinks: Fix building with GCC 7
2017-12-24 12:30:38 +01:00
cutg
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
dialign2
sci-biology/dialign2: Port to EAPI 6
2017-12-24 22:23:41 +01:00
dialign-tx
sci-biology/dialign-tx: Remove old
2017-12-25 17:08:56 +01:00
diya
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
elph
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy
…
embassy-cbstools
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-clustalomega
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-domainatrix
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-domalign
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-domsearch
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-emnu
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-esim4
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-hmmer
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-iprscan
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-meme
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-mse
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-phylipnew
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-signature
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-structure
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-topo
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
embassy-vienna
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
emboss
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
eugene
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
exonerate
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
express
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
fasta
sci-biology/fasta: use HTTPs
2018-05-21 13:02:30 -04:00
fasttree
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
fastx_toolkit
sci-biology/fastx_toolkit: Initial addition
2018-01-10 10:52:26 +01:00
finchtv
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
foldingathome
sci-biology/foldingathome: fix systemd unit
2018-04-25 10:54:31 -04:00
gatk
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
GBrowse
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
gibbs
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
glimmer
sci-biology/glimmer: use HTTPs
2018-05-21 13:02:32 -04:00
glimmerhmm
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
gmap
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
goby
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
goby-cpp
sci-biology/goby-cpp: [QA] Move aux files to a distfile
2017-12-10 01:05:28 +01:00
hmmer
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
HTSeq
sci-biology/HTSeq: Update contact for mmokrejs
2018-01-06 11:18:57 +01:00
iedera
sci-biology/iedera: Remove old
2018-01-01 13:42:48 +01:00
infernal
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
iqpnni
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
kalign
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
kallisto
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
lagan
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
last
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
libgtextutils
sci-biology/libgtextutils: Initial addition
2018-01-10 10:52:21 +01:00
mafft
sci-biology/mafft: use HTTPs
2018-05-21 13:02:31 -04:00
maq
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
maqview
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
mcl
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
meme
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
mira
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
mosaik
sci-biology/mosaik: Fix building with GCC 7
2017-12-24 19:00:17 +01:00
mothur
sci-biology/mothur: use HTTPs
2018-05-21 13:02:31 -04:00
mrbayes
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
mummer
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
muscle
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
ncbi-tools
sci-biology/ncbi-tools: use HTTPs
2018-05-21 13:02:30 -04:00
newick-utils
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
njplot
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
pals
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
paml
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
phrap
sci-biology/phrap: Rehash
2018-01-14 00:02:34 +01:00
phred
sci-biology/phred: Rehash
2018-01-14 00:04:04 +01:00
phylip
sci-biology/phylip: Update dependencies (x11-proto/* -> x11-base/xorg-proto).
2018-05-21 18:05:15 -07:00
phyml
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
picard
Retirement: ercpe@gentoo.org bug #475224
2018-04-26 10:38:02 +02:00
piler
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
pilercr
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
plink
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
poa
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
prank
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
primer3
sci-biology/primer3: Remove old
2017-12-25 17:09:02 +01:00
prints
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
probcons
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
prodigal
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
profphd
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
prosite
sci-biology/prosite: use HTTPs
2018-05-21 13:02:31 -04:00
psipred
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
pysam
update pypi HOMEPAGE to avoid redirection
2018-04-26 15:26:28 -04:00
qrna
sci-biology/qrna: Drop old
2018-04-06 01:24:56 +02:00
raxml
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
rebase
sci-biology/rebase: Bump to latest release
2018-06-09 21:33:20 +01:00
recon
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
repeatmasker
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
repeatmasker-libraries
sci-biology/repeatmasker-libraries: Update Manifest hashes.
2018-01-13 20:27:20 +01:00
rmblast
sci-biology/rmblast: [QA] Move patch to a distfile
2017-12-10 01:05:29 +01:00
rnaview
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
samtools
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
seaview
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
seqan
sci-biology/seqan: inherit versionator
2018-05-19 00:32:54 +02:00
shrimp
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
sibsim4
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
sim4
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
snpfile
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
STAR
sci-biology/STAR: Update contact for mmokrejs
2018-01-06 11:18:57 +01:00
stride
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
t-coffee
sci-biology/t-coffee: Remove old
2017-12-25 17:09:07 +01:00
tophat
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
transfac
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
tree-puzzle
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
treeviewx
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
trf
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
trnascan-se
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
uchime
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
ucsc-genome-browser
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
unafold
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
update-blastdb
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
vaal
sci-biology/vaal: [QA] Move the patch to a distfile
2017-12-10 01:05:29 +01:00
vcftools
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
velvet
sci-biology/velvet: use HTTPs
2018-05-21 13:02:31 -04:00
vienna-rna
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
wgs-assembler
sci-biology/wgs-assembler: remove old
2018-05-21 13:02:41 -04:00
wise
sci-biology/wise: Move patches to a distfile
2017-12-10 01:05:30 +01:00
yass
sci-biology/*: Update Manifest hashes
2017-12-10 13:46:30 +01:00
metadata.xml
…