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Ted Tanberry e4e2a2eb17 sci-biology/vaal: Remove old patches 
Package-Manager: portage-2.2.26
2015-12-27 13:50:04 +01:00
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aaindex
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
abyss
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
allpathslg
sci-biology/allpathslg: Drop old
2015-12-23 19:55:56 +01:00
amap
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
amos
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
ApE
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
arb
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
ariadne
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
augustus
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
bamtools
sci-biology/bamtools: Add missing die and drop old patch
2015-12-13 15:05:28 +01:00
beast-mcmc
sci-biology/beast-mcmc: Updated dev-java/jdom slot from 1.0 -> 0 for v1
2015-09-29 22:19:52 +01:00
bedtools
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
bfast
sci-biology/bfast: Fix inlining
2015-12-25 12:44:51 +01:00
biogrep
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
biojava
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
biopandas
sci-biology/biopandas: New package, ebuild written by me
2015-11-24 13:10:17 +01:00
bioperl
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
bioperl-db
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
bioperl-network
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
bioperl-run
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
biopython
sci-biology/biopython: Version Bump
2015-10-26 11:30:01 +01:00
bioruby
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
biosql
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
blat
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
blossoc
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
bowtie
sci-biology/bowtie: Chop DESCRIPTION to 80 chars
2015-12-26 19:05:43 +01:00
bwa
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
cd-hit
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
clustal-omega
sci-biology/clustal-omega: Drop old
2015-08-27 15:47:53 +02:00
clustalw
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
clustalw-mpi
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
clustalx
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
consed
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
cufflinks
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
cutg
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
dialign2
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
dialign-tx
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
diya
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
elph
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
embassy
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-cbstools
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-clustalomega
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-domainatrix
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-domalign
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-domsearch
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-emnu
sci-biology/embassy-emnu: Fix call to eclass function
2015-12-07 09:22:31 +01:00
embassy-esim4
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-hmmer
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-iprscan
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-meme
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-mse
sci-biology/embassy-mse: Move use_enable call to local scope
2015-11-23 11:46:39 +01:00
embassy-phylipnew
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-signature
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-structure
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-topo
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
embassy-vienna
sci-biology/embassy-vienna: Add explicit -std=gnu89 to CFLAGS
2015-12-26 23:36:56 +01:00
emboss
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
eugene
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
exonerate
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
express
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
fasta
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
fasttree
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
finchtv
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
foldingathome
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
gatk
Update remote-ids
2015-10-16 15:31:49 +02:00
GBrowse
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
gibbs
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
glimmer
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
glimmerhmm
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
gmap
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
goby
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
goby-cpp
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
hmmer
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
iedera
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
infernal
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
iqpnni
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
kalign
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
lagan
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
last
Drop deprecated usage of parallel python eclass functions
2015-10-22 12:26:44 +02:00
mafft
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mammoth
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
maq
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
maqview
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mauve
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mauvealigner
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mcl
sci-biology/mcl: Version bump, fix bug 569040 and QA issues.
2015-12-25 12:44:51 +01:00
meme
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mira
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mosaik
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
mothur
sci-biology/mothur: Drop old
2015-09-25 20:40:53 +02:00
mrbayes
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
mummer
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
muscle
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
ncbi-tools
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
newick-utils
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
njplot
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
pals
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
paml
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
phrap
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
phred
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
phylip
sci-biology/phylip: Fix install path for libs
2015-12-07 08:15:03 +01:00
phyml
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
picard
Add missing remote-id type=sourceforge
2015-10-01 14:02:01 +02:00
piler
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
pilercr
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
plink
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
poa
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
prank
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
primer3
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
prints
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
probcons
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
prodigal
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
profphd
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
prosite
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
psipred
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
pysam
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
qrna
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
raxml
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
readseq
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
rebase
sci-biology/rebase: Version Bump
2015-10-30 13:03:49 +01:00
recon
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
repeatmasker
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
repeatmasker-libraries
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
rmblast
sci-biology/rmblast: Fix bug 569622.
2015-12-25 12:44:51 +01:00
rnaview
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
samtools
sci-biology/samtools: amd64 stable wrt bug #525630
2015-09-24 14:55:27 +02:00
seaview
sci-biology/seaview: Version Bump
2015-11-20 12:29:21 +01:00
seqan
sci-biology/seqan: drop SSE instruction check in pkg_pretend(), which sometimes fails on correct situations, add -msse4.1 unconditionally
2015-10-19 23:43:18 +03:00
shrimp
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
sibsim4
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
sim4
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
snpfile
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
stride
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
t-coffee
sci-biology/t-coffee: Import fix for CVE-2015-8621
2015-12-25 11:38:04 +01:00
tophat
sci-biology/tophat: correct dependency on sci-biology/seqan
2015-10-19 23:45:48 +03:00
transfac
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
tree-puzzle
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
treeviewx
sci-biology/treeviewx: Import debian patchset for wxgtk-3.0 support
2015-10-25 10:24:01 +01:00
trf
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
trnascan-se
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
uchime
sci-biology/uchime: x86 stable wrt bug #556066
2015-09-25 16:23:15 +02:00
ucsc-genome-browser
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
unafold
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
update-blastdb
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
vaal
sci-biology/vaal: Remove old patches
2015-12-27 13:50:04 +01:00
vcftools
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
velvet
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
vienna-rna
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
wgs-assembler
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
wise
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00
yass
Update hashes in Manifest
2015-09-23 17:27:33 +02:00
metadata.xml
Revert DOCTYPE SYSTEM https changes in metadata.xml
2015-08-24 16:30:34 -04:00