Author: tille
Date: Thu Oct 23 21:48:32 2014
New Revision: 4088
URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=4088
Log:
Fix version number of dependency information
Added:
projects/med/trunk/debian-med/dependency_data/debian-med_1.99.json
Removed:
projects/med/trunk/debian-med/dependency_data/debian-med_1.13.3.json
Added: projects/med/trunk/debian-med/dependency_data/debian-med_1.99.json
URL:
http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/dependency_data/debian-med_1.99.json?rev=4088&op=file
==============================================================================
--- projects/med/trunk/debian-med/dependency_data/debian-med_1.99.json (added)
+++ projects/med/trunk/debian-med/dependency_data/debian-med_1.99.json Thu Oct
23 21:48:32 2014
@@ -0,0 +1 @@
+{"oncology": {"ignore": [], "suggests": [], "depends": ["uw-prism", "planunc",
"dicompyler"], "recommends": [], "avoid": []}, "laboratory": {"ignore": [],
"suggests": [], "depends": ["openelis", "openfreezer", "catissuesuite"],
"recommends": [], "avoid": []}, "research": {"ignore": [], "suggests": [],
"depends": ["openclinica"], "recommends": [], "avoid": []}, "tools": {"ignore":
[], "suggests": ["cycle", "mencal", "entangle", "goldencheetah"], "depends":
["pcalendar", "pondus", "mssstest", "wgerman-medical", "hunspell-de-med",
"quitcount", "workrave", "edfbrowser", "hunspell-en-med", "python-clips",
"cronometer", "python3-fitbitscraper", "python-fitbit", "nut-nutrition"],
"recommends": [], "avoid": []}, "cloud": {"ignore": [], "suggests": [],
"depends": ["altree", "clearcut", "fastdnaml", "fasttree", "parsinsert",
"phyml", "phyutility", "prime-phylo", "mrbayes", "tree-puzzle | tree-ppuzzle",
"alien-hunter", "bagpipe", "fastlink", "loki", "gasic", "genometools", "plink",
"probabel",
"r-cran-qtl", "r-other-valdar-bagphenotype.library",
"r-other-mott-happy.hbrem", "amap-align", "blast2", "biosquid", "boxshade",
"cassiopee", "cdbfasta", "cd-hit", "clustalo", "clustalw", "conservation-code",
"dialign", "dialign-tx", "emboss", "embassy-domalign", "embassy-domainatrix",
"embassy-domsearch", "embassy-phylip", "exonerate", "gff2aplot", "gff2ps",
"glam2", "gmap", "hmmer", "jellyfish", "kalign", "mafft", "mlv-smile",
"mummer", "muscle", "neobio", "poa", "prank", "probcons", "proda", "pynast",
"sibsim4", "sigma-align", "sim4", "snap", "squizz", "t-coffee", "wise",
"zalign", "bamtools", "bedtools", "fastx-toolkit", "flexbar", "picard-tools",
"samtools", "tabix", "vcftools", "anfo", "cufflinks", "bowtie", "bowtie2",
"bwa", "last-align", "maq", "perm", "tophat", "smalt", "soapdenovo",
"soapdenovo2", "abyss", "mapsembler2", "idba", "minia", "mira-assembler",
"ssake", "velvet", "ampliconnoise", "arden", "fastqc", "discosnp", "dnaclust",
"fitgcp", "giira", "grinder", "kissplic
e", "macs", "mothur", "paraclu", "r-bioc-hilbertvis", "sra-toolkit",
"aragorn", "infernal", "rnahybrid", "rtax", "autodock", "autodock-vina",
"autogrid", "concavity", "dssp", "freecontact", "gromacs", "hhsuite",
"mustang", "pdb2pqr", "raster3d", "theseus", "melting", "mipe", "ncbi-epcr",
"primer3", "python-cogent", "aevol", "biomaj", "bioperl", "bioperl-run",
"cain", "clonalframe", "circos", "datamash", "filo", "prodigal",
"python-biopython", "python3-biopython", "qiime", "r-bioc-edger",
"r-cran-pvclust", "r-cran-vegan"], "recommends": [], "avoid": []},
"statistics": {"ignore": [], "suggests": ["science-statistics"], "depends":
["r-bioc-edger", "r-bioc-limma", "r-bioc-qvalue", "r-cran-randomforest",
"r-cran-beeswarm", "r-cran-pvclust"], "recommends": [], "avoid": []},
"psychology": {"ignore": [], "suggests": ["science-psychophysics",
"python-visionegg"], "depends": ["python-pyepl", "praat", "r-cran-foreign",
"psignifit", "python-pypsignifit", "r-cran-psy", "psychopy", "miscpsycho",
"psych", "psychometric", "psychotree", "psyphy"], "recommends": [], "avoid":
[]}, "pharmacy": {"ignore": [], "suggests": [], "depends": ["chemtool",
"raccoon", "r-cran-dosefinding"], "recommends": [], "avoid": []},
"typesetting": {"ignore": [], "suggests": ["kbibtex", "biber", "bibus",
"referencer", "jabref-plugin-oo"], "depends": ["texlive-science",
"texlive-latex-extra", "king"], "recommends": [], "avoid": []}, "bio-ngs":
{"ignore": [], "suggests": [], "depends": ["bedtools", "bwa", "bowtie",
"fastx-toolkit", "filo", "last-align", "maq", "picard-tools", "r-bioc-edger",
"r-bioc-hilbertvis", "samtools", "sra-toolkit", "ssake", "tabix", "tophat",
"vcftools", "velvet", "mothur", "qiime", "cufflinks", "mira-assembler",
"kissplice", "mosaik-aligner", "forge", "uc-echo", "annovar"], "recommends":
[], "avoid": []}, "bio": {"ignore": ["mozilla-biofox", "riso", "catissuecore",
"trapss"], "suggests": ["emboss-explorer", "melting-gui", "biomaj-watcher",
"cain", "r-cran-boolnet", "mobyle", "mo
byle-programs", "mobyle-tutorials", "maude"], "depends": ["altree",
"beast-mcmc", "fastdnaml", "njplot", "tree-puzzle | tree-ppuzzle", "probalign",
"treeviewx", "figtree", "spread-phy", "phylip", "fastlink", "loki", "plink",
"r-cran-qtl", "r-cran-genabel", "amap-align", "boxshade", "fastx-toolkit",
"gff2aplot", "muscle", "sim4", "sibsim4", "tabix", "tophat", "wise", "maqview",
"bwa", "mummer", "blast2", "ncbi-blast+", "mafft", "sra-toolkit", "t-coffee",
"kalign", "hmmer", "exonerate", "dialign", "dialign-tx", "poa", "probcons",
"proda", "seaview", "sigma-align", "emboss", "embassy-domalign",
"embassy-domainatrix", "embassy-domsearch", "embassy-phylip", "arb",
"clustalx", "clustalo", "clustalw | clustalw-mpi", "mothur", "bowtie",
"bowtie2", "transtermhp", "last-align", "maq", "ssake", "velvet", "qiime",
"infernal", "rnahybrid", "adun.app", "garlic", "gamgi", "gdpc", "ghemical",
"jmol", "pymol", "r-other-bio3d", "massxpert", "gromacs", "rasmol", "modeller",
"plasmidomics", "gff2ps", "
ncbi-epcr", "ncbi-tools-bin", "ncbi-tools-x11", "perlprimer", "readseq",
"tigr-glimmer", "melting", "mipe", "primer3", "gbrowse", "biomaj", "glam2",
"raster3d", "phyml", "autodock", "autogrid", "autodock-vina", "autodocktools",
"mustang", "probabel", "theseus", "staden-io-lib-utils", "samtools",
"bedtools", "filo", "gassst", "r-bioc-hilbertvis", "r-other-mott-happy.hbrem",
"seq-gen", "snp-sites", "mira-assembler", "alien-hunter", "seqan-apps",
"ncoils", "gentle", "gmap", "igv", "picard-tools", "acedb-other-dotter",
"acedb-other-belvu", "acedb-other", "python-cogent", "paml", "velvetoptimiser",
"ensembl", "mrbayes", "pdb2pqr", "squizz", "clonalframe", "dssp", "jellyfish",
"ballview", "pynast", "raxml", "mlv-smile", "cd-hit", "cufflinks",
"r-bioc-cummerbund", "eigensoft", "grinder", "jalview", "reprof", "tm-align",
"norsnet", "norsp", "predictnls", "prime-phylo", "proftmb", "profbval",
"profisis", "hhsuite", "ffindex", "flexbar", "blimps-utils", "sift", "neobio",
"ray", "ugene", "logo
l-bin", "soapdenovo", "soapdenovo2", "microbiomeutil", "chimeraslayer",
"nast-ier", "wigeon", "minia", "trimmomatic", "saint", "rtax", "rate4site",
"topp", "openms", "acacia", "arden", "biceps", "emperor", "fitgcp", "gasic",
"giira", "ipig", "aevol", "amos-assembler", "hawkeye", "anfo", "apollo",
"aragorn", "axparafit", "axpcoords", "bamtools", "bagpipe", "bigsdb", "bitseq",
"blat", "cassiopee", "cdbfasta", "cinema", "clearcut", "clonalorigin",
"cluster3", "crac", "crossbow", "cytoscape", "dazzle", "ecell", "edtsurf",
"emmax", "fasttree", "fastaq", "fastqc", "unc-fish", "forester", "freecontact",
"freebayes", "fsa", "genometools", "grabix", "grogui", "haploview", "hmmer2",
"idba", "jbrowse", "kempbasu", "kissplice", "lagan", "ltrsift", "logomat-m",
"kclust", "mach-haplotyper", "macs", "mage2tab", "martj", "mauvealigner",
"meme", "metastudent", "molekel", "mosaik-aligner", "mpsqed", "mrs", "mugsy",
"murasaki", "ncbi-seg", "ngila", "ngsqctoolkit", "nw-align", "oases",
"pal2nal", "para
clu", "parsinsert", "patman", "patristic", "pcma", "perm", "phyloviz-core",
"phyutility", "plato", "prank", "predictprotein", "proalign", "prodigal",
"pscan-tfbs", "psipred", "pycorrfit", "pyscanfcs", "python-reaper",
"r-bioc-rtracklayer", "r-bioc-gviz", "r-bioc-biostrings", "r-cran-vegan",
"relion-gui", "relion-bin | relion-bin-mpi",
"r-other-valdar-bagphenotype.library", "rdp-classifier", "rosetta", "sap",
"sga", "seqtk", "sequenceconverter.app", "situs", "smalt", "snpeff", "spades",
"ssaha", "staden", "strap", "strap-base", "tacg", "treeview", "uc-echo",
"varscan", "vienna-rna", "vmd", "wgs-assembler", "zalign", "zodiac-zeden",
"discosnp", "mapsembler2", "dnaclust", "copycat", "btk-core", "asap", "cactus",
"contralign", "concavity", "conservation-code", "galaxy", "genographer",
"pftools", "phylographer", "phylowin", "gbioseq", "phpphylotree", "tracetuner",
"twain", "rose", "glimmerhmm", "genezilla", "exalt", "jigsaw", "genesplicer",
"mummergpu", "amoscmp", "minimus", "bambus", "g
mv", "pyrophosphate-tools", "figaro", "mirbase", "elph", "uniprime",
"genetrack", "operondb", "trnascan-se", "artemis", "act", "cdna-db",
"das-proserver", "spice", "decipher", "est-db", "finex", "hexamer", "coot",
"r-cran-ape", "caftools", "roche454ace2caf", "big-blast", "blixem", "cap3",
"coalesce", "estferret", "estscan", "fasta", "fluctuate", "lamarc", "lucy",
"maxd", "mesquite", "migrate", "msatfinder", "mview", "oligoarrayaux",
"omegamap", "partigene", "pfaat", "prot4est", "qtlcart", "rbs-finder",
"recombine", "splitstree", "taverna", "taxinspector", "tetra", "trace2dbest",
"profit", "obo-edit", "jstreeview", "phagefinder", "codonw", "compclust",
"treebuilder3d", "excavator", "tigr-assembler", "treetime", "abacas",
"profnet-bval", "profnet-chop", "profnet-con", "profnet-isis", "profnet-md",
"profnet-norsnet", "profnet-prof", "profnet-snapfun", "profphd-net",
"profphd-utils", "profphd", "abyss", "ampliconnoise", "disulfinder", "circos",
"populations", "raccoon", "librg-utils-per
l", "snap", "vcftools", "hilbertvisgui", "beads", "x-tandem-pipeline",
"forge", "metarep", "arachne", "maker2", "repeatmasker", "rmblast", "augustus",
"e-hive", "cmap", "gbrowse-syn", "tripal", "genemark", "python-orange",
"tigr-glimmer-mg"], "recommends": [], "avoid": []}, "his": {"ignore": [],
"suggests": [], "depends": ["care2x", "fis-gtm", "vista-foia", "ewd-920",
"gnuhealth", "world-vista", "ipath", "patientos", "openmrs", "hkma-cms",
"oscar-mcmaster", "openeyes"], "recommends": [], "avoid": []}, "dental":
{"ignore": [], "suggests": [], "depends": ["openmolar", "imagetooth",
"entangle"], "recommends": [], "avoid": []}, "practice": {"ignore":
["clearhealth"], "suggests": ["libctapimkt1", "openpms", "resmedicinae",
"sqlclinic", "openrep"], "depends": ["gnumed-client", "gnumed-server",
"libchipcard-tools", "ginkgocadx", "freediams", "freemedforms-emr",
"r-cran-medadherence", "clinica", "entangle", "medintux", "mirth", "tinyheb",
"mirrormed", "elexis", "freeb", "freemed", "elementa
lclinic", "openemr", "clearhealth", "proteus", "thera-pi", "freeshim",
"remitt", "qrisk2"], "recommends": [], "avoid": []}, "imaging-dev": {"ignore":
[], "suggests": ["libvtkedge-dev", "igstk-examples",
"insighttoolkit3-examples", "libnifti-doc", "libvtk5.4", "libics-dev",
"python-libavg", "emokit", "libeegdev-dev", "libxdffileio-dev",
"python-tifffile"], "depends": ["ctn-dev", "cimg-dev", "libminc-dev",
"libmdc2-dev", "libvtk5-dev", "libnifti-dev", "libigstk4-dev",
"libinsighttoolkit3-dev | libinsighttoolkit4-dev", "libvolpack1-dev",
"python-gdcm", "python-mvpa2", "python-nipy", "python-nipype", "python-nitime",
"python-casmoothing", "libvia-dev", "odin", "libcv-dev", "libvxl1-dev",
"libteem-dev", "gmic", "libgiftiio-dev", "libactiviz.net-cil",
"libvistaio-dev", "libmia-2.2-dev", "libmiaviewit-dev", "libmialm-dev",
"python-mia | python3-mia", "libopenigtlink1-dev", "r-cran-rniftilib",
"libmni-perllib-perl", "python-dicom", "libopenmeeg-dev", "python-nibabel",
"libgdf-dev", "octave-
gdf", "python-pyxnat", "python-dipy", "libbiosig-dev", "libctk-dev",
"python-cfflib", "libopenslide-dev", "python-openslide", "libopenslide-java",
"libbio-formats-java", "octave-dicom", "libcamitk3-dev", "libpapyrus3-dev",
"python-mne", "python-vmtk", "libvmtk-dev", "libvigraimpex-dev",
"python-vigra", "libvtk-dicom0.4-dev", "libedf-dev"], "recommends": [],
"avoid": []}, "imaging": {"ignore": [], "suggests": ["imagemagick", "pngquant",
"imview", "trimage", "conquest-dbase", "conquest-mysql", "conquest-postgres",
"conquest-sqlite", "paraview", "visit", "mrisim", "connectomeviewer", "eeglab",
"elastix", "python-pyxid", "dtitk", "openwalnut-qt4", "miview", "cmtk",
"freesurfer", "xnat", "isis", "pymeg", "stabilitycalc", "hid",
"incf-nidash-oneclick-clients"], "depends": ["amide", "ctsim", "ctn",
"dicomnifti", "imagej", "minc-tools", "medcon", "python-nibabel",
"python-dicom", "xmedcon", "dcmtk", "nifti-bin", "aeskulap", "fsl", "fslview",
"via-bin", "gwyddion", "sofa-apps", "python-mvpa2
", "python-nipy", "python-nipype", "caret", "libgdcm-tools", "slicer",
"lipsia", "dicom3tools", "imagevis3d", "odin", "dicomscope", "pixelmed-apps",
"vmtk", "gofigure2", "ginkgocadx", "openslide-tools", "volview",
"conquest-common", "camitk-imp", "crea", "orthanc", "teem-apps",
"bioimagesuite", "drjekyll", "libdcm4che-java", "dcm4chee", "piano",
"mesa-test-tools", "devide", "dicom4j", "opendicom.net", "afni", "blox",
"ecg2png", "kradview", "opensourcepacs", "mni-autoreg", "mni-n3", "brainvisa",
"maris", "micromanager", "fiji", "cdmedicpacs", "stir", "openelectrophy",
"invesalius", "mricron", "voxbo", "mrtrix", "ants", "itksnap", "mriconvert",
"mia-tools", "mialmpick", "mia-viewit", "sigviewer", "tifffile",
"mni-icbm152-nlin-2009", "mni-colin27-nifti", "mipav", "jist",
"openmeeg-tools", "jemris", "insightapplications", "tempo", "dti-query",
"plastimatch", "medisnap", "gimias", "mayam", "biosig-tools", "python-surfer",
"dicoogle", "cellprofiler", "bioimagexd", "omero", "king", "vtk-di
com-tools", "gdf-tools"], "recommends": ["python-nitime", "python-dipy"],
"avoid": []}, "data": {"ignore": [], "suggests": [], "depends": ["freediams",
"freemedforms-freedata", "python-hl7", "drugref.org"], "recommends": [],
"avoid": []}, "cms": {"ignore": [], "suggests": ["zope-zms", "xnat", "hid"],
"depends": [], "recommends": [], "avoid": []}, "bio-phylogeny": {"ignore": [],
"suggests": [], "depends": ["altree", "fastdnaml", "njplot", "tree-puzzle |
tree-ppuzzle", "probalign", "treeviewx", "phylip", "muscle", "t-coffee",
"kalign", "hmmer", "exonerate", "dialign", "dialign-tx", "poa", "probcons",
"proda", "seaview", "sigma-align", "gmap", "clustalx", "clustalw |
clustalw-mpi", "mustang", "phyml", "beast-mcmc", "tm-align", "mrbayes",
"figtree", "populations", "proalign", "prottest", "treeview", "phylowin",
"gbioseq", "phpphylotree", "jstreeview", "treetime", "jmodeltest", "forester",
"patristic", "spread-phy"], "recommends": [], "avoid": []}, "bio-dev":
{"ignore": [], "suggests": [
"python-biopython-sql | python3-biopython-sql", "python-biopython-doc",
"libfreecontact-doc", "r-cran-rocr", "r-bioc-affy", "r-bioc-affyio",
"r-bioc-altcdfenvs", "r-bioc-annotationdbi", "r-bioc-biocgenerics",
"r-bioc-biomart", "r-bioc-biovizbase", "r-bioc-bsgenome",
"r-bioc-genomeinfodb", "r-bioc-genomicalignments", "r-bioc-genomicfeatures",
"r-bioc-genomicranges", "r-bioc-graph", "r-bioc-hypergraph", "r-bioc-iranges",
"r-bioc-makecdfenv", "r-bioc-preprocesscore", "r-bioc-rsamtools",
"r-bioc-shortread", "r-bioc-snpstats", "r-bioc-variantannotation",
"r-bioc-xvector", "librostlab-doc", "librostlab-blast-doc", "libswarm2-dev",
"libgtextutils-dev"], "depends": ["bioperl", "bioperl-run", "libncbi6-dev",
"mcl", "biosquid", "libvibrant6-dev", "python-biopython | python3-biopython",
"python-cogent", "ruby-bio", "libbiojava-java", "libbiojava3-java",
"libgenome-1.3-dev", "libai-fann-perl", "libbio-mage-perl",
"libnhgri-blastall-perl", "libtfbs-perl", "libfreecontact0-dev",
"libfreecontact-p
erl", "libgo-perl", "r-cran-genetics", "r-cran-haplo.stats",
"libbio-graphics-perl", "libbio-primerdesigner-perl", "libace-perl",
"libbiococoa-dev", "libstaden-read-dev", "libsrf-dev", "libzerg0-dev",
"libzerg-perl", "librg-reprof-bundle-perl", "python-corepywrap",
"librcsb-core-wrapper0-dev", "libsbml5-dev", "sbmltoolbox", "seqan-dev",
"libbio-mage-utils-perl", "libchado-perl", "libpal-java", "libjebl2-java",
"r-bioc-biobase", "libffindex0-dev", "librostlab3-dev",
"librostlab-blast0-dev", "librg-blast-parser-perl", "libsort-key-top-perl",
"libhmsbeagle-dev", "libforester-java", "libbambamc-dev", "libbamtools-dev",
"libbio-das-perl", "python-mmtk", "libopenms-dev", "libgenometools0-dev",
"python-biom-format", "python-rdkit", "libgenome-perl",
"libgenome-model-tools-music-perl", "pyfai", "libhts-dev", "python-htseq",
"python-csb | python3-csb", "python-freecontact", "libsnp-sites1-dev",
"libssm-dev", "librelion-dev", "bioclipse", "libgff-perl", "libmems-1.5-1",
"python-pysam", "libgb
fp-dev", "octace-bioinfo"], "recommends": [], "avoid": []}, "epi": {"ignore":
[], "suggests": ["r-cran-msm", "repast"], "depends": ["epigrass",
"r-cran-epibasix", "r-cran-epitools", "r-cran-surveillance", "r-cran-epi",
"r-cran-diagnosismed", "r-cran-epicalc", "r-cran-epir", "ushahidi",
"netepi-analysis", "netepi-collection"], "recommends": [], "avoid": []},
"physics": {"ignore": [], "suggests": ["paw-demos", "libbiosig-dev",
"python-biosig", "octave-biosig", "openvibe", "python-multipletau"], "depends":
["paw++", "paw", "octave", "r-base", "biosig-tools", "gdf-tools", "gate"],
"recommends": [], "avoid": []}, "rehabilitation": {"ignore": [], "suggests":
["aghermann"], "depends": ["sitplus"], "recommends": [], "avoid": []}}
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