The following commit has been merged in the master branch:
commit fdfc12aa9816949e09259675c95becec350950e3
Author: Andreas Tille <[email protected]>
Date: Tue Dec 20 11:30:45 2016 +0100
Generate json data and automatic changelog entries
diff --git a/debian/changelog b/debian/changelog
index 190ce5c..1f9e866 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,8 +1,29 @@
-debian-med (2.4) UNRELEASED; urgency=medium
+debian-med (2.4) unstable; urgency=medium
* rebuild using blends-dev 0.6.96
- -- Andreas Tille <[email protected]> Mon, 12 Sep 2016 15:00:16 +0200
+ * start of automatic changelog entry *
+
+ * Changes in metapackage dependencies
+ -med-tools
+ added:
+ Depends: nutsqlite
+ -med-bio
+ added:
+ Depends: dascrubber, manta, blobology, bio-eagle, malt, atac, qtltools,
deepnano, contrafold, nanocall, falcon
+ Suggests: biomaj
+ removed:
+ Depends: falconkit, biomaj
+ -med-imaging-dev
+ added:
+ Depends: libcifti-dev, libcamitk-dev
+ removed:
+ Depends: libcamitk4-dev
+ -med-bio-dev
+ added:
+ Depends: libgkarrays-dev, unanimity
+
+ -- Andreas Tille <[email protected]> Tue, 20 Dec 2016 11:27:35 +0100
debian-med (2.3) unstable; urgency=medium
diff --git a/dependency_data/debian-med_2.4.json
b/dependency_data/debian-med_2.4.json
new file mode 100644
index 0000000..1726567
--- /dev/null
+++ b/dependency_data/debian-med_2.4.json
@@ -0,0 +1 @@
+{"oncology": {"ignore": [], "suggests": [], "depends": ["uw-prism", "planunc",
"dicompyler"], "recommends": [], "avoid": []}, "laboratory": {"ignore": [],
"suggests": [], "depends": ["opencfu", "openelis", "openfreezer",
"catissuesuite"], "recommends": [], "avoid": []}, "pharmacy": {"ignore": [],
"suggests": [], "depends": ["chemtool", "raccoon", "r-cran-dosefinding"],
"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-fitbitscraper", "galileo", "nut-nutrition",
"nutsqlite"], "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", "ard
en", "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-multtest", "r-cran-ade4"], "reco
mmends": [], "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": []}, "research": {"ignore": [], "suggests": [],
"depends": ["openclinica"], "recommends": [], "avoid": []}, "typesetting":
{"ignore": [], "suggests": ["kbibtex", "biber", "bibus", "referencer",
"jabref-plugin-oo"], "depends": ["texlive-science", "texlive-latex-extra",
"king"], "recommends": [], "avoid": []}, "dental": {"ignore": [], "suggests":
[], "depends": ["openmolar", "imagetooth", "entangle"], "recommends": [],
"avoid": []}, "bio": {"ignore": ["mozilla-biofox", "riso", "catissuecore",
"trapss"], "suggests": ["emboss-explorer", "adun.app", "melting-gui", "biomaj",
"biomaj-watcher", "cain", "science-workflow", "metastudent-data",
"metastudent-data-2", "metastuden
t-data-3", "mrs", "r-bioc-annotationhub", "r-bioc-aroma.light",
"r-bioc-ensembldb", "r-bioc-go.db", "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", "blast2", "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", "glam2", "raster3d", "phyml", "autodock",
"autogrid", "autodock-vina", "autodocktools", "mgltools-pmv",
"mgltools-vision", "mgltools-cadd", "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", "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", "acacia", "adapterremoval", "aegean", "andi",
"arden", "artfastqgenerator", "art-nextgen-simulation-tools", "augustus",
"beagle", "biceps", "emperor", "fermi-lite", "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", "bitseq", "blat", "
blobology", "bio-rainbow", "cassiopee", "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", "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", "kronatools", "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",
"mugsy", "murasaki", "nanocall", "nanopolish", "ncbi-entrez-direct",
"ncbi-seg", "ngila", "ngsqctoolkit", "nw-align", "oases", "obitools",
"r-other-apmswapp", "pal2nal", "paraclu", "parsinsert", "parsnp",
"partitionfinder", "patman", "patristic", "pbalign", "pbbarcode", "pbdagcon",
"pbsuite", "pbgenomicconsensus", "pbjelly", "pbhoney", "pbh5tools", "pbsim",
"pcma", "perm", "phast", "phipack", "phybin", "phylophlan", "phyloviz-core",
"phyutility", "piler", "pipasic", "inspect", "tide", "physamp", "pirs",
"placnet", "plato", "plip", "poretools", "prank", "predictprotein", "proalign",
"prodigal", "prokka", "proteinortho", "prottest", "pscan-tfbs", "psipred",
"pssh2", "pycorrfit", "pyscanfcs", "python-reaper", "qtltools", "qualimap",
"rambo-k", "rapmap", "r-bioc-rtracklay
er", "r-bioc-gviz", "r-bioc-biostrings", "r-bioc-annotate",
"r-bioc-genefilter", "r-bioc-deseq2", "r-bioc-dnacopy", "r-bioc-geneplotter",
"r-bioc-ebseq", "r-bioc-limma", "r-bioc-edger", "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", "rosetta", "rsat", "rsem", "salmon", "sap", "scrm", "sga", "seer",
"segemehl", "seqprep", "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", "transrate-tools",
"treeview", "trinityrnaseq", "uc-echo", "varna", "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", "ol
igoarrayaux", "omegamap", "partigene", "pfaat", "prot4est", "qtlcart",
"rbs-finder", "recombine", "splitstree", "taverna", "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", "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",
"tryton-modules-health", "openmaxims", "world-vista", "ipath", "patientos",
"openmrs", "hkma-cms", "oscar-mc
master", "openeyes"], "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",
"dindel", "mosaik-aligner", "forge", "uc-echo", "annovar"], "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", "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", "libcamp0.7-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-cffl
ib", "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":
{"ignore": [], "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-nib
abel", "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",
"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"], "recommends":
["python-nitime", "python-dipy"], "avoid": []}, "data": {"ignore": [],
"suggests": ["sleepyhead"], "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", "mustang", "phyml", "beast-mcmc", "tm-align",
"mrbayes", "figtree", "populations", "proalign", "prottest", "treeview",
"phylowin", "gbi
oseq", "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-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",
"libbam-dev", "libdisorder-dev"], "depends": ["bioperl", "bioperl-run",
"libncbi6-dev", "mcl", "biosquid", "libvibrant6-dev", "python3-biopython |
python-biopy
thon", "python-cogent", "python-screed", "python3-cutadapt | python-cutadapt",
"ruby-bio", "libbiojava-java", "libbiojava3-java", "libbiojava4-java",
"libgenome-1.3-dev", "libmuscle-3.7-dev", "libmems-1.6-dev", "libhtsjdk-java",
"libai-fann-perl", "libbio-mage-perl", "libnhgri-blastall-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-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", "python-miso", "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",
"libvcflib", "libtabixpp-dev", "python3-ruffus | python-ruffus", "python3-hyphy
| python-hyphy", "python3-dendropy | python-dendropy", "python3-skbio |
python-skbio", "python3-pbconsensuscore | python-pbconsensuscore",
"python3-consensuscore2 | python-consensuscore2", "libconsensuscore-dev",
"unanimity", "python-pbcommand", "python3-pyvcf | python-pyvcf", "
python3-pyfaidx | python-pyfaidx", "python3-intervaltree-bio |
python-intervaltree-bio", "python-kineticstools", "python3-pyfasta |
python-pyfasta", "libqes-dev", "libfast5-dev", "libpbseq-dev", "libpbdata-dev",
"libpbihdf-dev", "libblasr-dev", "libbio-das-lite-perl", "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"], "recommends": [], "avoid":
[]}, "epi": {"ignore": [], "suggests": ["r-cran-msm", "r-cran-cmprsk",
"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",
"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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