debian-med 3.0.1ubuntu1 source package in Ubuntu
Changelog
debian-med (3.0.1ubuntu1) artful; urgency=medium * Merge from Debian unstable. Remaining changes: - Regenerate control file for artful. debian-med (3.0.1) unstable; urgency=medium * Re-render before Stretch release debian-med (3.0) unstable; urgency=medium * Bump version for Stretch release * start of automatic changelog entry * * Changes in metapackage dependencies -med-tools added: Depends: r-cran-fitcoach, pesco -med-typesetting added: Suggests: r-cran-qqman -med-bio added: Depends: euler2, nextsv, r-bioc-metagenomeseq, diamond-aligner, bedops, ccs, euler-sr, r-bioc-mergeomics, baitfisher, libvcflib-tools, r-bioc-phyloseq, r-cran-rotl, tvc Suggests: r-cran-qqman, r-bioc-savr, r-cran-rentrez removed: Depends: fermi-lite -med-imaging added: Depends: bart-view, dcm2niix -med-bio-dev added: Depends: python3-gffutils, libjloda-java, libbio-eutilities-perl, libvcflib-dev, python3-pybedtools, python3-fast5 | python-fast5, python3-misopy | python-misopy, libbio-coordinate-perl, python3-skbio, python3-bx | python-bx, libswiss-perl, python3-bd2k | python-bd2k Suggests: r-bioc-biomformat, r-bioc-rbgl, ruby-rgfa, r-cran-rentrez, libpbcopper-dev removed: Depends: libbiojava3-java, libvcflib, python3-skbio | python-skbio, python-miso, unanimity debian-med (2.4) unstable; urgency=medium * rebuild using blends-dev 0.6.96 * 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 debian-med (2.3) unstable; urgency=medium * blends-dev 0.6.93 does not add single packages to tasksel control file but only the metapackage itself * med-bio: Add mgltools-pmv, mgltools-vision, mgltools-cadd Closes: #732069 * start of automatic changelog entry * * Changes in metapackage dependencies -med-tools added: Depends: galileo, r-cran-fitbitscraper Suggests: sleepyhead -med-statistics added: Depends: r-cran-ade4, rstudio, r-bioc-multtest -med-bio-ngs added: Depends: sprai, rna-star, daligner, mhap, dindel, blasr, bcftools -med-bio added: Depends: pbbarcode, spaced, varmatch, cgview, phipack, ffp, snap-aligner, plast, kineticstools, brig, harvest-tools, transrate-tools, meryl, metabit, parsnp, beagle, maffilter, pbhoney, jmodeltest, mgltools-cadd, roadtrips, roary, sim4db, alter-sequence-alignment, graphlan, ncbi-entrez-direct, falconkit, partitionfinder, art-nextgen-simulation-tools, sspace, phybin, fastahack, phylophlan, crux-toolkit, varna, dindel, smithwaterman, r-bioc-geneplotter, dawg, lefse, r-bioc-deseq2, fsm-lite, nanopolish, physamp, minimap, kmc, snpomatic, proteinortho, phast, prottest, qualimap, sprai, fml-asm, circlator, inspect, pipasic, hilive, mgltools-pmv, fastqtl, piler, r-cran-adephylo, r-cran-pscbs, hisat2, ssw-align, garli, pssh2, plink1.9, r-cran-adegenet, velvet | velvet-long, condetri, fastml, mapdamage, rsat, r-cran-distory, segemehl, andi, ncl-tools, sumaclust, sniffles, pbalign, scrm, miniasm, poretools, sparta, pbh5tools, r-cran-bio3d, kronatools, beast2-mcmc, clustalw, dwgsim, pirs, reapr, r-cran-treescape, leaff, seer, surankco, tide, placnet, canu, rambo-k, lofreq, artfastqgenerator, lambda-align, rapmap, metaphlan2, r-bioc-dnacopy, mgltools-vision, indelible, salmon, dazzdb, srst2, king-probe, cutadapt, pbgenomicconsensus, ariba, pbsuite, adapterremoval, kraken, pbjelly, mash, fermi-lite, pbsim, bcftools Suggests: science-workflow, r-bioc-aroma.light, r-cran-pheatmap, mrs, r-bioc-annotationhub, r-bioc-ensembldb, r-bioc-go.db removed: Depends: python-kineticstools, r-other-bio3d, velvet, tigr-assembler, clustalw | clustalw-mpi, python-pbalign, wgsim, wgs-assembler, mrs, act, r8s, fastml2 -med-his added: Depends: openmaxims -med-practice added: Depends: sleepyhead, orthanc removed: Depends: clinica -med-imaging-dev added: Depends: libinsighttoolkit4-dev, octave-bart, libvtk-dicom-dev, libbart-dev, libodil0-dev, libmia-2.4-dev, libcamitk4-dev, libopenigtlink-dev, libvtk6-dev Suggests: libcamp0.7-dev, libfreeimage-dev removed: Depends: libopenigtlink1-dev, libactiviz.net-cil, libvtk5-dev, libinsighttoolkit3-dev | libinsighttoolkit4-dev, libvtk-dicom0.5-dev, libmia-2.2-dev, libcamitk3-dev Suggests: libvtk5.4, insighttoolkit3-examples -med-imaging added: Depends: fw4spl, python-tifffile, bart Suggests: science-workflow, orthanc-postgresql, orthanc-imagej, orthanc-dicomweb removed: Depends: tifffile -med-data added: Suggests: sleepyhead -med-bio-phylogeny added: Depends: iqtree, clustalw removed: Depends: clustalw | clustalw-mpi -med-bio-dev added: Depends: python3-pyvcf | python-pyvcf, libsmithwaterman-dev, mgltools-vision, libbpp-phyl-omics-dev, python3-csb | python-csb, libqcpp-dev, libbio-das-lite-perl, libhtsjdk-java, libqes-dev, python3-biopython | python-biopython, python-kineticstools, libfreecontact-dev, libssw-dev, libminimap-dev, r-cran-rnexml, libssw-java, r-cran-rncl, python3-pymummer, python3-ngs | python-ngs, libpbdata-dev, libbpp-raa-dev, python3-pbconsensuscore | python-pbconsensuscore, libblasr-dev, libbpp-qt-dev, python3-intervaltree-bio | python-intervaltree-bio, libncl-dev, libngs-java, python3-pyfaidx | python-pyfaidx, libbpp-seq-dev, libfast5-dev, r-cran-phylobase, python-pbcommand, libncbi-vdb-dev, libbpp-core-dev, libpbbam-dev, libconsensuscore-dev, libpbihdf-dev, libtabixpp-dev, python3-pyfasta | python-pyfasta, libbpp-phyl-dev, libfml-dev, python3-consensuscore2 | python-consensuscore2, mgltools-networkeditor, libpbseq-dev, libgff-dev, libngs-sdk-dev, octave-bioinfo, libbpp-popgen-dev, mgltools-pybabel, libfastahack-dev, ruby-crb-blast, libbpp-seq-omics-dev Suggests: python3-biopython-sql | python-biopython-sql, libdisorder-dev, libbam-dev removed: Depends: libgbfp-dev, python-biopython | python3-biopython, libtabixpp, libfreecontact0-dev, python-csb | python3-csb, libbio-das-perl Suggests: python-biopython-sql | python3-biopython-sql -med-epi added: Suggests: r-cran-cmprsk debian-med (2.2) unstable; urgency=medium * Moved to Git * start of automatic changelog entry * * Changes in metapackage dependencies -med-tools removed: Depends: python3-fitbitscraper -med-bio added: Depends: sortmerna, r-bioc-limma, r-cran-metamix, iqtree, relion-bin+gui | relion-bin+mpi+gui, berkeley-express, daligner, mhap, sumatra, hyphy-mpi | hyphy-pt, python-pbalign, bio-rainbow, python-kineticstools, ea-utils, suitename, wgsim, r-bioc-annotate, r-bioc-edger, adun-core, r-bioc-genefilter, hyphygui, sumtrees, blasr, repeatmasker-recon, pbdagcon, relion-bin | relion-bin+mpi, axe-demultiplexer, tantan Suggests: adun.app removed: Depends: relion-bin | relion-bin-mpi, express, relion-gui, hyphy, adun.app -med-imaging-dev added: Depends: libvtk-dicom-java, libmaxflow-dev, libvtk-dicom0.5-dev Suggests: liblimereg-dev removed: Depends: libvtk-dicom0.4-dev Suggests: limereg-dev -med-bio-dev added: Depends: libdivsufsort-dev, python3-cutadapt | python-cutadapt, python3-skbio | python-skbio, python3-dendropy | python-dendropy, python3-ruffus | python-ruffus, python3-hyphy | python-hyphy removed: Depends: librdp-readseq-java, librdp-alignment-java -- Bhavani Shankar <email address hidden> Wed, 24 May 2017 17:31:34 +0530
Upload details
- Uploaded by:
- Bhavani Shankar
- Uploaded to:
- Artful
- Original maintainer:
- Ubuntu Developers
- Architectures:
- all
- Section:
- misc
- Urgency:
- Medium Urgency
See full publishing history Publishing
Series | Published | Component | Section | |
---|---|---|---|---|
Bionic | release | universe | misc |
Downloads
File | Size | SHA-256 Checksum |
---|---|---|
debian-med_3.0.1ubuntu1.tar.xz | 104.5 KiB | 195a4aa65533dd2f939e7745c9ef2f4fea02dc2cc3d9acdaa63719e111f6a190 |
debian-med_3.0.1ubuntu1.dsc | 2.5 KiB | 0ec1e5a7df048a6759cafe4deee5419792e866788885571409520b0b1cc45b48 |
Available diffs
- diff from 2.1ubuntu6 to 3.0.1ubuntu1 (38.7 KiB)
Binary packages built by this source
- med-all: Default selection of tasks for Debian Med
This package is part of the Debian Med Pure Blend and installs all
tasks for a default installation of this blend.
- med-bio: No summary available for med-bio in ubuntu artful.
No description available for med-bio in ubuntu artful.
- med-bio-dev: Debian Med packages for development of bioinformatics applications
This metapackage will install Debian packages which might be helpful
for development of applications for biological research.
- med-cloud: No summary available for med-cloud in ubuntu artful.
No description available for med-cloud in ubuntu artful.
- med-config: No summary available for med-config in ubuntu artful.
No description available for med-config in ubuntu artful.
- med-data: No summary available for med-data in ubuntu artful.
No description available for med-data in ubuntu artful.
- med-dental: No summary available for med-dental in ubuntu artful.
No description available for med-dental in ubuntu artful.
- med-epi: No summary available for med-epi in ubuntu artful.
No description available for med-epi in ubuntu artful.
- med-his: No summary available for med-his in ubuntu cosmic.
No description available for med-his in ubuntu cosmic.
- med-imaging: Debian Med image processing and visualization packages
This metapackage will install Debian packages which might be useful in
medical image processing and visualization.
.
On one hand, it installs several packages supporting various image file
formats and image management, like DICOM (Digital Imaging and
Communications in Medicine) which is the de-facto standard for medical
image management, and NIFTI. On the other hand, it provides a variety of
software packages that can be used for visualization and for image processing
- either from a graphical user interface, the command line, or implemented in
workflows.
- med-imaging-dev: No summary available for med-imaging-dev in ubuntu artful.
No description available for med-imaging-dev in ubuntu artful.
- med-laboratory: No summary available for med-laboratory in ubuntu artful.
No description available for med-laboratory in ubuntu artful.
- med-oncology: Debian Med packages for oncology
This metapackage will install tools that are useful for radiation
oncology.
- med-pharmacy: No summary available for med-pharmacy in ubuntu artful.
No description available for med-pharmacy in ubuntu artful.
- med-physics: No summary available for med-physics in ubuntu artful.
No description available for med-physics in ubuntu artful.
- med-practice: No summary available for med-practice in ubuntu artful.
No description available for med-practice in ubuntu artful.
- med-psychology: Debian Med packages for psychology
This metapackage contains dependencies for a collection of software
which might be helpful for psychological research.
- med-rehabilitation: Debian Med packages for rehabilitation technologies
This metapackage will install tools that are useful for
rehabilitation and therapy.
- med-statistics: No summary available for med-statistics in ubuntu artful.
No description available for med-statistics in ubuntu artful.
- med-tasks: No summary available for med-tasks in ubuntu artful.
No description available for med-tasks in ubuntu artful.
- med-tools: No summary available for med-tools in ubuntu artful.
No description available for med-tools in ubuntu artful.
- med-typesetting: No summary available for med-typesetting in ubuntu artful.
No description available for med-typesetting in ubuntu artful.