The following commit has been merged in the master branch:
commit 756da9a0762e8e1335ad87905e4df4dcde2f4491
Author: Andreas Tille <[email protected]>
Date: Wed Apr 19 21:07:03 2017 +0200
Forgit to add dependency data for version 3.0.1 - just commit it to Git
hereby
diff --git a/dependency_data/debian-med_3.0.1.json
b/dependency_data/debian-med_3.0.1.json
new file mode 100644
index 0000000..170d579
--- /dev/null
+++ b/dependency_data/debian-med_3.0.1.json
@@ -0,0 +1 @@
+{"oncology": {"ignore": [], "suggests": [], "depends": ["uw-prism",
"orthanc-wsi", "planunc", "dicompyler"], "recommends": [], "avoid": []},
"laboratory": {"ignore": [], "suggests": [], "depends": ["opencfu",
"orthanc-wsi", "openelis", "openfreezer", "catissuesuite"], "recommends": [],
"avoid": []}, "research": {"ignore": [], "suggests": [], "depends":
["openclinica"], "recommends": [], "avoid": []}, "tools": {"ignore": [],
"suggests": ["cycle", "mencal", "entangle", "goldencheetah", "sleepyhead"],
"depends": ["pcalendar", "pondus", "mssstest", "wgerman-medical",
"hunspell-de-med", "quitcount", "workrave", "edfbrowser", "hunspell-en-med",
"python-clips", "cronometer", "python-fitbit", "r-cran-fitcoach",
"r-cran-fitbitscraper", "galileo", "nut-nutrition", "nutsqlite", "pesco"],
"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", "ve
lvet", "ampliconnoise", "arden", "fastqc", "discosnp", "dnaclust", "fitgcp",
"giira", "grinder", "kissplice", "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", "acedb-other", "disulfinder", "ncbi-tools-bin",
"ncoils", "python-cogent", "readseq", "tigr-glimmer", "seqan-apps",
"staden-io-lib-utils", "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",
"rstudio", "r-bioc-mult
test", "r-cran-ade4"], "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", "r-cran-qqman"], "depends": ["texlive-science",
"texlive-latex-extra", "king"], "recommends": [], "avoid": []}, "bio-ngs":
{"ignore": [], "suggests": [], "depends": ["bedtools", "bwa", "bowtie",
"blasr", "daligner", "mhap", "fastx-toolkit", "filo", "last-align", "maq",
"picard-tools", "r-bioc-edger", "r-bioc-hilbertvis", "rna-star", "samtools",
"sra-toolkit", "ssake", "tabix", "tophat", "bcftools", "
vcftools", "velvet", "sprai", "mothur", "qiime", "cufflinks",
"mira-assembler", "kissplice", "scoary", "umap", "dindel", "mosaik-aligner",
"forge", "uc-echo", "annovar"], "recommends": [], "avoid": []}, "bio":
{"ignore": ["mozilla-biofox", "riso", "catissuecore", "trapss"], "suggests":
["emboss-explorer", "adun.app", "melting-gui", "biomaj", "biomaj-watcher",
"cain", "science-workflow", "getdata", "metastudent-data",
"metastudent-data-2", "metastudent-data-3", "mrs", "r-bioc-annotationhub",
"r-bioc-aroma.light", "r-bioc-ensembldb", "r-bioc-go.db", "r-bioc-savr",
"r-cran-qqman", "r-cran-rentrez", "r-cran-boolnet", "r-cran-pheatmap",
"mobyle", "mobyle-programs", "mobyle-tutorials", "maude"], "depends":
["altree", "beast-mcmc", "beast2-mcmc", "fastdnaml", "njplot", "tree-puzzle |
tree-ppuzzle", "probalign", "treeviewx", "figtree", "hyphygui", "hyphy-mpi |
hyphy-pt", "spread-phy", "phylip", "fastlink", "loki", "plink", "plink1.9",
"r-cran-qtl", "r-cran-genabel", "amap-align", "boxshade"
, "fastx-toolkit", "gff2aplot", "muscle", "sim4", "sibsim4", "tabix",
"tophat", "wise", "maqview", "blasr", "daligner", "dascrubber", "mhap", "bwa",
"mummer", "ncbi-blast+-legacy", "plast", "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", "mothur", "bowtie", "bowtie2",
"transtermhp", "last-align", "maq", "ssake", "velvet | velvet-long", "qiime",
"infernal", "rnahybrid", "adun-core", "garlic", "gamgi", "gdpc", "ghemical",
"jmol", "pymol", "r-cran-bio3d", "massxpert", "gromacs", "rasmol", "modeller",
"plasmidomics", "gff2ps", "ncbi-epcr", "ncbi-tools-bin", "ncbi-tools-x11",
"perlprimer", "readseq", "tigr-glimmer", "melting", "mipe", "primer3",
"artemis", "gbrowse", "python3-biomaj3", "glam2", "raster3d", "phyml",
"autodock", "autogrid", "aut
odock-vina", "autodocktools", "mgltools-pmv", "mgltools-vision",
"mgltools-cadd", "mustang", "probabel", "theseus", "staden-io-lib-utils",
"samtools", "bedtools", "filo", "datamash", "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", "logol-bin",
"soapdenovo", "soapdenovo2", "microbiomeutil", "chimeraslayer", "nast-ier",
"wigeon", "minia", "trimmomatic", "saint", "rtax",
"rate4site", "rna-star", "topp", "openms", "scythe", "sickle", "kmc",
"king-probe", "ncl-tools", "tvc", "libvcflib-tools", "acacia",
"adapterremoval", "aegean", "andi", "arden", "artfastqgenerator",
"art-nextgen-simulation-tools", "augustus", "baitfisher", "beagle", "bedops",
"biceps", "cnvkit", "diamond-aligner", "emperor", "euler2", "euler-sr",
"fitgcp", "gasic", "giira", "ipig", "aevol", "alter-sequence-alignment",
"amos-assembler", "hawkeye", "anfo", "apollo", "aragorn", "ariba", "atac",
"axe-demultiplexer", "axparafit", "axpcoords", "barrnap", "bamtools",
"bagpipe", "bcftools", "bigsdb", "bio-eagle", "bio-tradis", "bitseq", "blat",
"blobology", "bio-rainbow", "cassiopee", "ccs", "cdbfasta", "cgview", "brig",
"cinema", "circlator", "clearcut", "clonalorigin", "cluster3", "codonw",
"condetri", "contrafold", "crac", "crossbow", "crux-toolkit", "cutadapt",
"cytoscape", "dawg", "dazzdb", "dazzle", "deepnano", "dindel", "dwgsim",
"ea-utils", "ecell", "ecopcr", "edtsurf", "emmax", "e
xaml", "raxml-ng", "exabayes", "berkeley-express", "falcon", "fasta3",
"fasttree", "fastahack", "fastaq", "fastml", "fastqc", "fastqtl", "ffp",
"unc-fish", "fml-asm", "forester", "freecontact", "freebayes", "fsa",
"fsm-lite", "garli", "gatk", "genometools", "grabix", "graphlan", "grogui",
"gwama", "gubbins", "haploview", "harvest-tools", "hilive", "hisat2", "hmmer2",
"htqc", "idba", "indelible", "iqtree", "iva", "jaligner", "jbrowse",
"jmodeltest", "kempbasu", "kineticstools", "kissplice", "kraken", "lagan",
"lambda-align", "leaff", "ltrsift", "lofreq", "logomat-m", "kclust", "khmer",
"kmer", "radiant", "lefse", "mach-haplotyper", "macs", "macsyfinder",
"maffilter", "mage2tab", "malt", "manta", "mapdamage", "martj", "mash",
"progressivemauve", "mauve-aligner", "meme", "meryl", "metabit", "metaphlan2",
"metastudent", "microbegps", "miniasm", "minimap", "molekel", "mosaik-aligner",
"mpsqed", "mptp", "mugsy", "murasaki", "nanocall", "nanopolish",
"ncbi-entrez-direct", "ncbi-seg", "next
sv", "ngila", "ngsqctoolkit", "nw-align", "oases", "obitools",
"r-other-apmswapp", "pal2nal", "paleomix", "paraclu", "parsinsert", "parsnp",
"partitionfinder", "patman", "patristic", "pbalign", "pbbarcode", "pbdagcon",
"pbsuite", "pbgenomicconsensus", "pbjelly", "pbhoney", "pbh5tools", "pbsim",
"pcma", "perm", "pftools", "phast", "phipack", "phybin", "phylophlan",
"phyloviz-core", "phyutility", "piler", "pipasic", "inspect", "tide",
"physamp", "pirs", "placnet", "plato", "plip", "poretools", "prank",
"predictprotein", "proalign", "prodigal", "prokka", "proteinortho", "prottest",
"psortb", "pscan-tfbs", "psipred", "pssh2", "pycorrfit", "pyscanfcs",
"python-reaper", "qcumber", "qtltools", "qualimap", "rambo-k", "rapmap",
"r-bioc-rtracklayer", "r-bioc-gviz", "r-bioc-biostrings", "r-bioc-annotate",
"r-bioc-genefilter", "r-bioc-deseq2", "r-bioc-dnacopy", "r-bioc-geneplotter",
"r-bioc-mergeomics", "r-bioc-metagenomeseq", "r-bioc-phyloseq", "r-bioc-ebseq",
"r-bioc-limma", "r-bioc-edger", "
r-cran-rotl", "r-cran-adegenet", "r-cran-adephylo", "r-cran-distory",
"r-cran-metamix", "r-cran-phangorn", "r-cran-pscbs", "r-cran-seqinr",
"r-cran-vegan", "relion-bin+gui | relion-bin+mpi+gui", "relion-bin |
relion-bin+mpi", "r-other-valdar-bagphenotype.library", "rdp-alignment",
"rdp-readseq", "rdp-classifier", "reapr", "repeatmasker-recon", "repeatmasker",
"roadtrips", "roary", "roguenarok", "rosetta", "rsat", "rsem", "sambamba",
"salmon", "sap", "scrm", "sga", "seer", "segemehl", "seqprep", "seqsero",
"seqtk", "sequenceconverter.app", "situs", "sim4db", "smalt", "smithwaterman",
"ssw-align", "smrtanalysis", "snpeff", "snpomatic", "sortmerna",
"snap-aligner", "sniffles", "spaced", "spades", "sparta", "sprai", "srst2",
"ssaha", "sspace", "staden", "stacks", "strap", "strap-base", "subread",
"suitename", "sumatra", "sumaclust", "sumtrees", "surankco", "swarm", "tacg",
"tantan", "toppred", "transdecoder", "tnseq-transit", "transrate-tools",
"treeview", "trinityrnaseq", "uc-echo", "v
arna", "varmatch", "varscan", "vienna-rna", "vmd", "vsearch", "canu",
"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",
"gmv", "pyrophosphate-tools", "figaro", "mirbase", "elph", "uniprime",
"genetrack", "operondb", "trnascan-se", "cdna-db", "das-proserver", "spice",
"decipher", "est-db", "finex", "hexamer", "coot", "r-cran-ape",
"r-cran-treescape", "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", "taver
na", "taxinspector", "tetra", "trace2dbest", "profit", "obo-edit",
"jstreeview", "phagefinder", "compclust", "treebuilder3d", "excavator",
"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", "runcircos-gui", "populations",
"raccoon", "librg-utils-perl", "snap", "vcftools", "hilbertvisgui", "beads",
"x-tandem-pipeline", "forge", "metarep", "arachne", "maker2", "rmblast",
"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",
"orthanc-wsi", "tryton-modules-health", "openmaxims", "world-vista", "ipath",
"patientos", "openmrs", "hkma-cms", "oscar-mcmaster", "openeyes"],
"recommends": [], "avoid": []}, "dental": {"ignore": [], "sugges
ts": [], "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", "entangle",
"sleepyhead", "orthanc", "orthanc-wsi", "medintux", "mirth", "tinyheb",
"mirrormed", "elexis", "freeb", "freemed", "elementalclinic", "openemr",
"clearhealth", "proteus", "thera-pi", "freeshim", "remitt", "qrisk2"],
"recommends": [], "avoid": []}, "imaging-dev": {"ignore": [], "suggests":
["libvtkedge-dev", "igstk-examples", "libnifti-doc", "libfreeimage-dev",
"libics-dev", "liblimereg-dev", "python-libavg", "emokit", "libeegdev-dev",
"libxdffileio-dev", "python-tifffile", "libcamp-dev"], "depends": ["ctn-dev",
"cimg-dev", "libminc-dev", "libmdc2-dev", "libvtk6-dev", "libnifti-dev",
"libigstk4-dev", "libinsighttoolkit4-dev", "
libvolpack1-dev", "python-gdcm", "libopensurgsim-dev", "libmaxflow-dev",
"python-mvpa2", "python-nipy", "python-nipype", "python-nitime",
"python-casmoothing", "libvia-dev", "odin", "libcv-dev", "libvxl1-dev",
"libteem-dev", "gmic", "libgiftiio-dev", "libvistaio-dev", "libmia-2.4-dev",
"libmiaviewit-dev", "libmialm-dev", "python-mia | python3-mia",
"libopenigtlink-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", "libcamitk-dev", "libpapyrus3-dev",
"python-mne", "python-vmtk", "libvmtk-dev", "libvigraimpex-dev",
"python-vigra", "libvtk-dicom-dev", "libvtk-dicom-java", "libedf-dev",
"python-imageio", "libismrmrd-dev", "libodil0-dev", "libbart-dev",
"octave-bart", "libcifti-dev"], "recommends": [], "avoid": []}, "imaging":
{"igno
re": [], "suggests": ["imagemagick", "pngquant", "imview", "trimage",
"conquest-dbase", "conquest-mysql", "conquest-postgres", "conquest-sqlite",
"paraview", "orthanc-webviewer", "orthanc-dicomweb", "orthanc-imagej",
"orthanc-postgresql", "visit", "mrisim", "connectomeviewer", "eeglab",
"elastix", "python-pyxid", "dtitk", "openwalnut-qt4", "miview", "cmtk",
"freesurfer", "xnat", "isis", "pymeg", "stabilitycalc", "hid",
"incf-nidash-oneclick-clients", "science-workflow"], "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", "bioimagesu
ite", "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", "ismrmrd-tools", "sigviewer", "python-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-dicom-tools",
"gdf-tools", "fw4spl", "bart", "bart-view", "dcm2niix", "orthanc-wsi"],
"recommends": ["python-nitime", "python-dipy"], "avoid": []}, "data":
{"ignore": [], "suggests": ["sleepyhead"], "depends": ["freediams",
"freemedforms-freedata", "python-hl7", "drug
ref.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", "mustang", "phyml", "beast-mcmc", "tm-align",
"mrbayes", "figtree", "populations", "proalign", "prottest", "treeview",
"phylowin", "gbioseq", "phpphylotree", "jstreeview", "treetime", "jmodeltest",
"forester", "patristic", "spread-phy", "iqtree"], "recommends": [], "avoid":
[]}, "bio-dev": {"ignore": [], "suggests": ["python3-biopython-sql |
python-biopython-sql", "python-biopython-doc", "libfreecontact-doc",
"r-cran-rocr", "r-bioc-affy", "r-bioc-affyio", "r-bioc-altcdfenvs",
"r-bioc-annotationdbi", "r-bioc-biocgen
erics", "r-bioc-biomart", "r-bioc-biomformat", "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-rbgl", "r-bioc-rsamtools", "r-bioc-shortread",
"r-bioc-snpstats", "r-bioc-variantannotation", "r-bioc-xvector",
"r-cran-rentrez", "ruby-rgfa", "librostlab-doc", "librostlab-blast-doc",
"libswarm2-dev", "libgtextutils-dev", "libbam-dev", "libpbcopper-dev",
"libdisorder-dev", "python-pyflow", "r-cran-natserv"], "depends": ["bioperl",
"bioperl-run", "libncbi6-dev", "mcl", "biosquid", "libvibrant6-dev",
"python3-biopython | python-biopython", "python-cogent", "python-screed",
"python3-cutadapt | python-cutadapt", "ruby-bio", "libbiojava-java",
"libbiojava4-java", "libgenome-1.3-dev", "libmuscle-3.7-dev",
"libmems-1.6-dev", "libhtsjdk-java", "libai-fann-perl", "libbio-mage-perl",
"libnhgri-blasta
ll-perl", "libtfbs-perl", "libfreecontact-dev", "libfreecontact-perl",
"libgo-perl", "r-cran-genetics", "r-cran-haplo.stats", "r-cran-phylobase",
"r-cran-rncl", "r-cran-rnexml", "octave-bioinfo", "libbio-graphics-perl",
"libbio-coordinate-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",
"libpbbam-dev", "libbio-das-lite-perl", "python-mmtk", "libopenms-dev",
"libgenometools0-dev", "librdp-taxonomy-tree-java", "python-biom-format",
"python-rdkit", "libgenome-perl", "libgenome-model-tools-music-perl
", "pyfai", "libhts-dev", "python-htseq", "python3-intervaltree-bio |
python-intervaltree-bio", "python3-csb | python-csb", "python3-misopy |
python-misopy", "python-freecontact", "python3-pymummer", "libkmer-dev",
"libsnp-sites1-dev", "libssm-dev", "librelion-dev", "libdivsufsort-dev",
"bioclipse", "libgff-dev", "libgff-perl", "python-pysam", "python-pbcore",
"python-pbh5tools", "python-cobra", "libtabixpp-dev", "python3-ruffus |
python-ruffus", "python3-hyphy | python-hyphy", "python3-dendropy |
python-dendropy", "python3-skbio", "python3-pbconsensuscore |
python-pbconsensuscore", "python3-consensuscore2 | python-consensuscore2",
"libconsensuscore-dev", "python-pbcommand", "python3-pyvcf | python-pyvcf",
"python3-pyfaidx | python-pyfaidx", "python-kineticstools", "python3-pyfasta |
python-pyfasta", "libqes-dev", "libfast5-dev", "python3-fast5 | python-fast5",
"libpbseq-dev", "libpbdata-dev", "libpbihdf-dev", "libblasr-dev",
"libminimap-dev", "libncl-dev", "libngs-sdk-dev", "libngs
-java", "python3-ngs | python-ngs", "libncbi-vdb-dev", "libqcpp-dev",
"libbpp-core-dev", "libbpp-phyl-dev", "libbpp-phyl-omics-dev",
"libbpp-popgen-dev", "libbpp-qt-dev", "libbpp-raa-dev", "libbpp-seq-dev",
"libbpp-seq-omics-dev", "octace-bioinfo", "ruby-crb-blast",
"libsmithwaterman-dev", "libfastahack-dev", "mgltools-networkeditor",
"mgltools-vision", "mgltools-pybabel", "libssw-dev", "libssw-java",
"libfml-dev", "libgkarrays-dev", "libjloda-java", "libvcflib-dev",
"libswiss-perl", "python3-pybedtools", "python3-gffutils", "python3-bx |
python-bx", "python3-bd2k | python-bd2k", "libbio-eutilities-perl",
"libseqlib-dev", "libroadrunner-dev", "python-roadrunner", "python3-biotools |
python-biotools", "bio-tradis", "python3-biomaj3 | python-biomaj3",
"libbiod-dev"], "recommends": [], "avoid": []}, "epi": {"ignore": [],
"suggests": ["r-cran-msm", "r-cran-cmprsk", "shiny-server", "repast"],
"depends": ["epigrass", "r-cran-epibasix", "r-cran-epitools",
"r-cran-surveillance", "r-cran-epi
", "r-cran-diagnosismed", "r-cran-epicalc", "r-cran-epir",
"r-cran-seroincidence", "ushahidi", "r-cran-lexrankr", "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": []}}
\ No newline at end of file
--
Debian Med metapackages
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