[Blends-commit] [SCM] med branch, master, updated. 995e5823a960673507aac016512c079179dc6e04
Andreas Tille
tille at debian.org
Tue Sep 1 20:48:23 UTC 2015
The following commit has been merged in the master branch:
commit c0ba54c6b6ea7f62d04bc91489c06843a315d3a3
Author: Andreas Tille <tille at debian.org>
Date: Tue Sep 1 18:31:59 2015 +0200
Fix whitespace
diff --git a/debian-med-tasks.desc b/debian-med-tasks.desc
index 6324529..042240e 100644
--- a/debian-med-tasks.desc
+++ b/debian-med-tasks.desc
@@ -8,251 +8,251 @@ Key:
med-bio
Packages: list
abacas
- acedb-other
- acedb-other-belvu
- acedb-other-dotter
- aegean
- aevol
+ acedb-other
+ acedb-other-belvu
+ acedb-other-dotter
+ aegean
+ aevol
alien-hunter
- altree
- amap-align
- ampliconnoise
- anfo
- aragorn
- arden
- autodock
- autodock-vina
- autogrid
- bamtools
+ altree
+ amap-align
+ ampliconnoise
+ anfo
+ aragorn
+ arden
+ autodock
+ autodock-vina
+ autogrid
+ bamtools
barrnap
- bedtools
+ bedtools
biomaj
- blast2
- bowtie
- bowtie2
- boxshade
- bwa
- cassiopee
- cd-hit
- cdbfasta
+ blast2
+ bowtie
+ bowtie2
+ boxshade
+ bwa
+ cassiopee
+ cd-hit
+ cdbfasta
chimeraslayer
circos
- clearcut
- clonalframe
- clustalo
- clustalw
- clustalx
- concavity
+ clearcut
+ clonalframe
+ clustalo
+ clustalw
+ clustalx
+ concavity
conservation-code
- dialign
- dialign-tx
- discosnp
- disulfinder
- dnaclust
- dssp
- ecopcr
- edtsurf
- embassy-domainatrix
- embassy-domalign
- embassy-domsearch
- emboss
- exonerate
+ dialign
+ dialign-tx
+ discosnp
+ disulfinder
+ dnaclust
+ dssp
+ ecopcr
+ edtsurf
+ embassy-domainatrix
+ embassy-domalign
+ embassy-domsearch
+ emboss
+ exonerate
fastaq
- fastdnaml
- fastlink
+ fastdnaml
+ fastlink
fastqc
- fasttree
- fastx-toolkit
- ffindex
+ fasttree
+ fastx-toolkit
+ ffindex
figtree
- filo
- flexbar
- freecontact
- gamgi
- garlic
+ filo
+ flexbar
+ freecontact
+ gamgi
+ garlic
gbrowse
- gdpc
- genometools
- gentle
- gff2aplot
+ gdpc
+ genometools
+ gentle
+ gff2aplot
gff2ps
- ghemical
- giira
- glam2
+ ghemical
+ giira
+ glam2
grinder
- gromacs
- gwama
- hhsuite
- hmmer
- hmmer2
- hyphy-mpi
- hyphygui
- idba
- infernal
- ipig
+ gromacs
+ gwama
+ hhsuite
+ hmmer
+ hmmer2
+ hyphy-mpi
+ hyphygui
+ idba
+ infernal
+ ipig
jalview
- jellyfish
+ jellyfish
jmol
- kalign
- kissplice
- kmer
- last-align
+ kalign
+ kissplice
+ kmer
+ last-align
librg-utils-perl
- logol-bin
- loki
- ltrsift
- macs
+ logol-bin
+ loki
+ ltrsift
+ macs
macsyfinder
- mafft
- mapsembler2
- maq
- maqview
- massxpert
- mauve-aligner
- melting
+ mafft
+ mapsembler2
+ maq
+ maqview
+ massxpert
+ mauve-aligner
+ melting
metastudent
- microbegps
+ microbegps
microbiomeutil
- minia
+ minia
mipe
- mira-assembler
- mlv-smile
- mothur
- mrbayes
- mrs
- mummer
- murasaki
- muscle
- mustang
- nast-ier
- ncbi-blast+
- ncbi-epcr
- ncbi-seg
- ncbi-tools-bin
- ncbi-tools-x11
- ncoils
+ mira-assembler
+ mlv-smile
+ mothur
+ mrbayes
+ mrs
+ mummer
+ murasaki
+ muscle
+ mustang
+ nast-ier
+ ncbi-blast+
+ ncbi-epcr
+ ncbi-seg
+ ncbi-tools-bin
+ ncbi-tools-x11
+ ncoils
neobio
- njplot
+ njplot
norsnet
norsp
- paraclu
- parsinsert
- pdb2pqr
+ paraclu
+ parsinsert
+ pdb2pqr
perlprimer
- perm
- phylip
- phyml
- phyutility
+ perm
+ phylip
+ phyml
+ phyutility
picard-tools
plasmidomics
- plink
- poa
- populations
- prank
+ plink
+ poa
+ populations
+ prank
predictnls
predictprotein
- prime-phylo
- primer3
- proalign
- probabel
- probalign
- probcons
- proda
- prodigal
+ prime-phylo
+ primer3
+ proalign
+ probabel
+ probalign
+ probcons
+ proda
+ prodigal
profbval
profisis
- profnet-bval
- profnet-chop
- profnet-con
- profnet-isis
- profnet-md
- profnet-norsnet
- profnet-prof
- profnet-snapfun
+ profnet-bval
+ profnet-chop
+ profnet-con
+ profnet-isis
+ profnet-md
+ profnet-norsnet
+ profnet-prof
+ profnet-snapfun
profphd
- profphd-net
- profphd-utils
- proftmb
- progressivemauve
- pycorrfit
- pymol
+ profphd-net
+ profphd-utils
+ proftmb
+ progressivemauve
+ pycorrfit
+ pymol
pynast
- pyscanfcs
- python-cogent
- qiime
- r-bioc-annotate
- r-bioc-biostrings
+ pyscanfcs
+ python-cogent
+ qiime
+ r-bioc-annotate
+ r-bioc-biostrings
r-bioc-cummerbund
- r-bioc-edger
+ r-bioc-edger
r-bioc-gviz
- r-bioc-hilbertvis
- r-bioc-limma
- r-bioc-rtracklayer
- r-cran-ape
- r-cran-genabel
- r-cran-phangorn
- r-cran-qtl
- r-cran-seqinr
- r-cran-vegan
+ r-bioc-hilbertvis
+ r-bioc-limma
+ r-bioc-rtracklayer
+ r-cran-ape
+ r-cran-genabel
+ r-cran-phangorn
+ r-cran-qtl
+ r-cran-seqinr
+ r-cran-vegan
r-other-bio3d
- r-other-mott-happy.hbrem
- rasmol
- raster3d
- rate4site
- raxml
- ray
+ r-other-mott-happy.hbrem
+ rasmol
+ raster3d
+ rate4site
+ raxml
+ ray
rdp-alignment
rdp-classifier
rdp-readseq
- readseq
- relion-bin
- relion-bin+gui
+ readseq
+ relion-bin
+ relion-bin+gui
reprof
- rna-star
- rnahybrid
+ rna-star
+ rnahybrid
rtax
- saint
- samtools
- scythe
- seaview
- seqan-apps
- seqtk
- sibsim4
- sickle
- sigma-align
- sim4
- smalt
- snap
- snp-sites
- soapdenovo
- soapdenovo2
- squizz
- sra-toolkit
+ saint
+ samtools
+ scythe
+ seaview
+ seqan-apps
+ seqtk
+ sibsim4
+ sickle
+ sigma-align
+ sim4
+ smalt
+ snap
+ snp-sites
+ soapdenovo
+ soapdenovo2
+ squizz
+ sra-toolkit
ssake
- staden
- staden-io-lib-utils
- subread
- swarm
- t-coffee
- tabix
- theseus
- tigr-glimmer
- tm-align
- tophat
- toppred
+ staden
+ staden-io-lib-utils
+ subread
+ swarm
+ t-coffee
+ tabix
+ theseus
+ tigr-glimmer
+ tm-align
+ tophat
+ toppred
transdecoder
- transtermhp
- tree-puzzle
- treeviewx
+ transtermhp
+ tree-puzzle
+ treeviewx
trimmomatic
- uc-echo
- vcftools
- velvet
+ uc-echo
+ vcftools
+ velvet
velvetoptimiser
- vsearch
+ vsearch
wigeon
- wise
- zalign
+ wise
+ zalign
Task: med-bio-dev
Section: debian-med
@@ -265,72 +265,72 @@ Key:
Packages: list
bioperl
bioperl-run
- biosquid
- libace-perl
- libai-fann-perl
- libbambamc-dev
- libbamtools-dev
+ biosquid
+ libace-perl
+ libai-fann-perl
+ libbambamc-dev
+ libbamtools-dev
libbio-graphics-perl
libbio-mage-perl
libbio-mage-utils-perl
libbio-primerdesigner-perl
- libbiococoa-dev
+ libbiococoa-dev
libbiojava-java
libbiojava3-java
libbiojava4-java
libchado-perl
- libffindex0-dev
- libfreecontact-perl
- libfreecontact0-dev
- libgenome-1.3-dev
+ libffindex0-dev
+ libfreecontact-perl
+ libfreecontact0-dev
+ libgenome-1.3-dev
libgenome-model-tools-music-perl
libgenome-perl
- libgenometools0-dev
+ libgenometools0-dev
libgo-perl
- libhmsbeagle-dev
- libhts-dev
+ libhmsbeagle-dev
+ libhts-dev
libjebl2-java
- libkmer-dev
- libmems-1.6-dev
- libmuscle-3.7-dev
- libncbi6-dev
+ libkmer-dev
+ libmems-1.6-dev
+ libmuscle-3.7-dev
+ libncbi6-dev
libnhgri-blastall-perl
libpal-java
- librcsb-core-wrapper0-dev
+ librcsb-core-wrapper0-dev
librdp-taxonomy-tree-java
- librelion-dev
- librg-blast-parser-perl
+ librelion-dev
+ librg-blast-parser-perl
librg-reprof-bundle-perl
- librostlab-blast0-dev
- librostlab3-dev
- libsbml5-dev
- libsnp-sites1-dev
- libsort-key-top-perl
- libsrf-dev
- libssm-dev
- libstaden-read-dev
- libtfbs-perl
- libvibrant6-dev
- libzerg-perl
- libzerg0-dev
- mcl
- pyfai
- python-biom-format
- python-biopython
- python-cobra
- python-cogent
- python-corepywrap
- python-csb
- python-freecontact
- python-htseq
- python-mmtk
- python-rdkit
+ librostlab-blast0-dev
+ librostlab3-dev
+ libsbml5-dev
+ libsnp-sites1-dev
+ libsort-key-top-perl
+ libsrf-dev
+ libssm-dev
+ libstaden-read-dev
+ libtfbs-perl
+ libvibrant6-dev
+ libzerg-perl
+ libzerg0-dev
+ mcl
+ pyfai
+ python-biom-format
+ python-biopython
+ python-cobra
+ python-cogent
+ python-corepywrap
+ python-csb
+ python-freecontact
+ python-htseq
+ python-mmtk
+ python-rdkit
python-screed
- python3-hyphy
- python3-ruffus
- r-bioc-biobase
+ python3-hyphy
+ python3-ruffus
+ r-bioc-biobase
r-cran-genetics
- r-cran-haplo.stats
+ r-cran-haplo.stats
ruby-bio
sbmltoolbox
seqan-dev
@@ -342,28 +342,28 @@ Description: Debian Med bioinformatics applications usable in Next Generation Se
sequences produced by next generation sequencing.
Relevance: 10
Packages: list
- bedtools
- bowtie
- bwa
- fastx-toolkit
- filo
- kissplice
- last-align
- maq
- mira-assembler
- mothur
+ bedtools
+ bowtie
+ bwa
+ fastx-toolkit
+ filo
+ kissplice
+ last-align
+ maq
+ mira-assembler
+ mothur
picard-tools
- qiime
- r-bioc-edger
- r-bioc-hilbertvis
- samtools
- sra-toolkit
+ qiime
+ r-bioc-edger
+ r-bioc-hilbertvis
+ samtools
+ sra-toolkit
ssake
- tabix
- tophat
- uc-echo
- vcftools
- velvet
+ tabix
+ tophat
+ uc-echo
+ vcftools
+ velvet
Task: med-bio-phylogeny
Section: debian-med
@@ -374,32 +374,32 @@ Description: Debian Med phylogeny packages
related software.
Relevance: 10
Packages: list
- altree
- clustalw
- clustalx
- dialign
- dialign-tx
- exonerate
- fastdnaml
+ altree
+ clustalw
+ clustalx
+ dialign
+ dialign-tx
+ exonerate
+ fastdnaml
figtree
- hmmer
- kalign
- mrbayes
- muscle
- mustang
- njplot
- phyml
- poa
- populations
- proalign
- probalign
- probcons
- proda
- sigma-align
- t-coffee
- tm-align
- tree-puzzle
- treeviewx
+ hmmer
+ kalign
+ mrbayes
+ muscle
+ mustang
+ njplot
+ phyml
+ poa
+ populations
+ proalign
+ probalign
+ probcons
+ proda
+ sigma-align
+ t-coffee
+ tm-align
+ tree-puzzle
+ treeviewx
Task: med-cloud
Section: debian-med
@@ -412,148 +412,148 @@ Relevance: 10
Key:
med-cloud
Packages: list
- acedb-other
- aevol
+ acedb-other
+ aevol
alien-hunter
- altree
- amap-align
- ampliconnoise
- anfo
- aragorn
- arden
- autodock
- autodock-vina
- autogrid
- bamtools
- bedtools
+ altree
+ amap-align
+ ampliconnoise
+ anfo
+ aragorn
+ arden
+ autodock
+ autodock-vina
+ autogrid
+ bamtools
+ bedtools
biomaj
bioperl
bioperl-run
- biosquid
- blast2
- bowtie
- bowtie2
- boxshade
- bwa
+ biosquid
+ blast2
+ bowtie
+ bowtie2
+ boxshade
+ bwa
cain
- cassiopee
- cd-hit
- cdbfasta
+ cassiopee
+ cd-hit
+ cdbfasta
circos
- clearcut
- clonalframe
- clustalo
- clustalw
- concavity
+ clearcut
+ clonalframe
+ clustalo
+ clustalw
+ concavity
conservation-code
- datamash
- dialign
- dialign-tx
- discosnp
- disulfinder
- dnaclust
- dssp
- embassy-domainatrix
- embassy-domalign
- embassy-domsearch
- emboss
- exonerate
- fastdnaml
- fastlink
+ datamash
+ dialign
+ dialign-tx
+ discosnp
+ disulfinder
+ dnaclust
+ dssp
+ embassy-domainatrix
+ embassy-domalign
+ embassy-domsearch
+ emboss
+ exonerate
+ fastdnaml
+ fastlink
fastqc
- fasttree
- fastx-toolkit
- filo
- flexbar
- freecontact
- genometools
- gff2aplot
+ fasttree
+ fastx-toolkit
+ filo
+ flexbar
+ freecontact
+ genometools
+ gff2aplot
gff2ps
- giira
- glam2
+ giira
+ glam2
grinder
- gromacs
- hhsuite
- hmmer
- idba
- infernal
- jellyfish
- kalign
- kissplice
- last-align
- loki
- macs
- mafft
- mapsembler2
- maq
- melting
- minia
+ gromacs
+ hhsuite
+ hmmer
+ idba
+ infernal
+ jellyfish
+ kalign
+ kissplice
+ last-align
+ loki
+ macs
+ mafft
+ mapsembler2
+ maq
+ melting
+ minia
mipe
- mira-assembler
- mlv-smile
- mothur
- mrbayes
- mummer
- muscle
- mustang
- ncbi-epcr
- ncbi-tools-bin
- ncoils
+ mira-assembler
+ mlv-smile
+ mothur
+ mrbayes
+ mummer
+ muscle
+ mustang
+ ncbi-epcr
+ ncbi-tools-bin
+ ncoils
neobio
- paraclu
- parsinsert
- pdb2pqr
- perm
- phyml
- phyutility
+ paraclu
+ parsinsert
+ pdb2pqr
+ perm
+ phyml
+ phyutility
picard-tools
- plink
- poa
- prank
- prime-phylo
- primer3
- probabel
- probcons
- proda
- prodigal
+ plink
+ poa
+ prank
+ prime-phylo
+ primer3
+ probabel
+ probcons
+ proda
+ prodigal
pynast
- python-biopython
- python-cogent
- python3-biopython
- qiime
- r-bioc-edger
- r-bioc-hilbertvis
+ python-biopython
+ python-cogent
+ python3-biopython
+ qiime
+ r-bioc-edger
+ r-bioc-hilbertvis
r-cran-pvclust
- r-cran-qtl
- r-cran-vegan
- r-other-mott-happy.hbrem
- raster3d
- readseq
- rnahybrid
+ r-cran-qtl
+ r-cran-vegan
+ r-other-mott-happy.hbrem
+ raster3d
+ readseq
+ rnahybrid
rtax
- samtools
- seqan-apps
- sibsim4
- sigma-align
- sim4
- smalt
- snap
- soapdenovo
- soapdenovo2
- squizz
- sra-toolkit
+ samtools
+ seqan-apps
+ sibsim4
+ sigma-align
+ sim4
+ smalt
+ snap
+ soapdenovo
+ soapdenovo2
+ squizz
+ sra-toolkit
ssake
- staden-io-lib-utils
- t-coffee
- tabix
- theseus
- tigr-glimmer
- tophat
- tree-puzzle
- vcftools
- velvet
- wise
- zalign
+ staden-io-lib-utils
+ t-coffee
+ tabix
+ theseus
+ tigr-glimmer
+ tophat
+ tree-puzzle
+ vcftools
+ velvet
+ wise
+ zalign
Task: med-cms
Section: debian-med
@@ -573,7 +573,7 @@ Relevance: 10
Key:
med-data
Packages: list
- freediams
+ freediams
freemedforms-freedata
python-hl7
@@ -603,12 +603,12 @@ Key:
Packages: list
epigrass
r-cran-diagnosismed
- r-cran-epi
- r-cran-epibasix
+ r-cran-epi
+ r-cran-epibasix
r-cran-epicalc
r-cran-epir
r-cran-epitools
- r-cran-surveillance
+ r-cran-surveillance
Task: med-his
Section: debian-med
@@ -648,39 +648,39 @@ Relevance: 10
Key:
med-imaging
Packages: list
- aeskulap
- amide
- biosig-tools
- caret
- conquest-common
- ctn
- ctsim
- dcmtk
- dicom3tools
- dicomnifti
+ aeskulap
+ amide
+ biosig-tools
+ caret
+ conquest-common
+ ctn
+ ctsim
+ dcmtk
+ dicom3tools
+ dicomnifti
dicomscope
- fslview
- gdf-tools
- gwyddion
+ fslview
+ gdf-tools
+ gwyddion
imagej
- imagevis3d
+ imagevis3d
invesalius
king
- libgdcm-tools
- medcon
- mia-tools
- mia-viewit
- mialmpick
- minc-tools
- mriconvert
- mricron
- mrtrix
- nifti-bin
- odin
- openslide-tools
- orthanc
+ libgdcm-tools
+ medcon
+ mia-tools
+ mia-viewit
+ mialmpick
+ minc-tools
+ mriconvert
+ mricron
+ mrtrix
+ nifti-bin
+ odin
+ openslide-tools
+ orthanc
pixelmed-apps
- plastimatch
+ plastimatch
python-dicom
python-dipy
python-mvpa2
@@ -689,12 +689,12 @@ Packages: list
python-nipype
python-nitime
python-surfer
- sigviewer
- sofa-apps
- teem-apps
- voxbo
- vtk-dicom-tools
- xmedcon
+ sigviewer
+ sofa-apps
+ teem-apps
+ voxbo
+ vtk-dicom-tools
+ xmedcon
Task: med-imaging-dev
Section: debian-med
@@ -706,41 +706,41 @@ Key:
med-imaging-dev
Packages: list
cimg-dev
- ctn-dev
- gmic
- libactiviz.net-cil
- libbiosig-dev
- libcv-dev
- libedf-dev
- libgdf-dev
- libgiftiio-dev
- libinsighttoolkit3-dev
- libismrmrd-dev
- libmaxflow-dev
- libmdc2-dev
- libmia-2.2-dev
- libmialm-dev
- libmiaviewit-dev
- libminc-dev
- libnifti-dev
- libopenslide-dev
- libpapyrus3-dev
- libteem-dev
- libvigraimpex-dev
- libvistaio-dev
- libvolpack1-dev
- libvtk-dicom-java
- libvtk-dicom0.5-dev
- libvtk5-dev
- libvxl1-dev
- octave-gdf
- odin
- python-casmoothing
+ ctn-dev
+ gmic
+ libactiviz.net-cil
+ libbiosig-dev
+ libcv-dev
+ libedf-dev
+ libgdf-dev
+ libgiftiio-dev
+ libinsighttoolkit3-dev
+ libismrmrd-dev
+ libmaxflow-dev
+ libmdc2-dev
+ libmia-2.2-dev
+ libmialm-dev
+ libmiaviewit-dev
+ libminc-dev
+ libnifti-dev
+ libopenslide-dev
+ libpapyrus3-dev
+ libteem-dev
+ libvigraimpex-dev
+ libvistaio-dev
+ libvolpack1-dev
+ libvtk-dicom-java
+ libvtk-dicom0.5-dev
+ libvtk5-dev
+ libvxl1-dev
+ octave-gdf
+ odin
+ python-casmoothing
python-cfflib
python-dicom
python-dipy
- python-gdcm
- python-mia
+ python-gdcm
+ python-mia
python-mne
python-mvpa2
python-nibabel
@@ -749,8 +749,8 @@ Packages: list
python-nitime
python-openslide
python-pyxnat
- python-vigra
- r-cran-rniftilib
+ python-vigra
+ r-cran-rniftilib
Task: med-laboratory
Section: debian-med
@@ -761,7 +761,7 @@ Relevance: 10
Key:
med-laboratory
Packages: list
- opencfu
+ opencfu
Task: med-oncology
Section: debian-med
@@ -784,7 +784,7 @@ Relevance: 10
Key:
med-pharmacy
Packages: list
- chemtool
+ chemtool
Task: med-physics
Section: debian-med
@@ -797,11 +797,11 @@ Relevance: 10
Key:
med-physics
Packages: list
- biosig-tools
- gdf-tools
- octave
- paw
- paw++
+ biosig-tools
+ gdf-tools
+ octave
+ paw
+ paw++
r-base
Task: med-practice
@@ -813,13 +813,13 @@ Relevance: 10
Key:
med-practice
Packages: list
- freediams
- freemedforms-emr
+ freediams
+ freemedforms-emr
gnumed-client
gnumed-server
- libchipcard-tools
- qrisk2
- r-cran-medadherence
+ libchipcard-tools
+ qrisk2
+ r-cran-medadherence
Task: med-psychology
Section: debian-med
@@ -830,11 +830,11 @@ Relevance: 10
Key:
med-psychology
Packages: list
- praat
- psignifit
+ praat
+ psignifit
psychopy
- python-pyepl
- r-cran-foreign
+ python-pyepl
+ r-cran-foreign
r-cran-psy
Task: med-rehabilitation
@@ -846,7 +846,7 @@ Relevance: 10
Key:
med-rehabilitation
Packages: list
- sitplus
+ sitplus
Task: med-statistics
Section: debian-med
@@ -857,11 +857,11 @@ Relevance: 10
Key:
med-statistics
Packages: list
- r-bioc-edger
- r-bioc-limma
+ r-bioc-edger
+ r-bioc-limma
r-bioc-qvalue
r-cran-pvclust
- r-cran-randomforest
+ r-cran-randomforest
Task: med-tools
Section: debian-med
@@ -873,17 +873,17 @@ Key:
med-tools
Packages: list
cronometer
- edfbrowser
+ edfbrowser
hunspell-de-med
hunspell-en-med
- nut-nutrition
+ nut-nutrition
pcalendar
pondus
- python-clips
+ python-clips
python-fitbit
- quitcount
+ quitcount
wgerman-medical
- workrave
+ workrave
Task: med-typesetting
Section: debian-med
--
Debian Med metapackages
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