-
debian-med (3.8.1) unstable; urgency=medium
* Standards-Version: 4.6.2
* Update dependencies to fit Bookworm release status
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio-dev
added:
Recommends: libwfa2-dev
-- Andreas Tille <email address hidden> Mon, 22 May 2023 14:04:33 +0200
-
debian-med (3.8) unstable; urgency=medium
* nifti2dicom, qnifti2dicom, libsimpleitk1-dev, python3-simpleitk removed
from Debian thus removed from tasks
* Suggests: libgatk-native-bindings-java
* Replace: msxpertsuite by massxpert, minexpert2 (see #1024780)
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: minexpert2, snippy, metaeuk, any2fasta, btllib-tools,
savvy-util, comet-ms, muscle3, pyfastx, seqan-needle,
seqan-raptor, massxpert
removed:
Recommends: sequenceconverter.app, msxpertsuite
-med-bio-dev
added:
Recommends: libbio-db-seqfeature-perl, python3-pyfastx,
libbiojava6-java, python3-bioframe
Suggests: libsavvy-dev, libgatk-native-bindings-java, libbtllib-dev,
python3-cgelib, python3-conda-package-streaming
removed:
Recommends: libbiojava5-java
-med-bio-phylogeny
added:
Recommends: muscle3
-med-cloud
added:
Recommends: muscle3
-med-covid-19
added:
Recommends: muscle3
-med-imaging
removed:
Recommends: qnifti2dicom, nifti2dicom
-med-imaging-dev
added:
Recommends: python3-bioxtasraw
removed:
Recommends: python3-simpleitk, libsimpleitk1-dev
-med-psychology
added:
Recommends: python3-bioxtasraw
-- Andreas Tille <email address hidden> Wed, 08 Feb 2023 11:04:38 +0100
-
debian-med (3.7.3) unstable; urgency=medium
* Build-Depends-Indep: blends-dev (>= 0.7.5~)
Closes: #1012341
* dicompyler removed from Debian thus from oncology task
* zalign removed from Debian
* Standards-Version: 4.6.1
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: ska, genomicsdb-tools, nxtrim, fastq-pair, unikmer,
xpore, abpoa, surpyvor, metaphlan, pullseq, pyensembl,
terraphast
removed:
Recommends: metaphlan2, zalign, falcon
-med-bio-dev
added:
Recommends: python3-pyabpoa, libbiojava5-java, ont-fast5-api,
python3-slow5, python3-gtfparse, libslow5-dev,
python3-propka, python3-pyspoa
Suggests: libgatk-fermilite-java, libgatk-fermilite-jni,
libvbz-hdf-plugin-dev, libterraces-dev,
libcapsule-maven-nextflow-java, libgatk-bwamem-java,
libicb-utils-java, libgatk-bwamem-jni, python3-bioblend,
libgenomicsdb-dev, libgenomicsdb-java, capsule-nextflow,
libbiosoup-dev
-med-cloud
removed:
Recommends: zalign
-med-imaging
added:
Recommends: heudiconv
Suggests: orthanc-neuro
-med-imaging-dev
added:
Recommends: python3-dcmstack
removed:
Suggests: libvtk7-dev
-med-oncology
removed:
Recommends: dicompyler
-med-psychology
added:
Recommends: orthanc-neuro
-med-tools
added:
Recommends: cycle
removed:
Suggests: cycle
-- Andreas Tille <email address hidden> Fri, 28 Oct 2022 10:12:35 +0200
-
debian-med (3.7.2) unstable; urgency=medium
* opensurgsim is removed from Debian
* substitute r-cran-gprofiler by r-cran-gprofiler2 (see #994212)
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: megan-ce, twopaco, lamassemble, ntcard, snpsift, mcaller,
dnarrange, megadepth, r-bioc-megadepth, provean,
libpwiz-tools, rockhopper, diann
Suggests: r-cran-gprofiler2
removed:
Suggests: mcaller, r-cran-gprofiler
-med-bio-dev
added:
Recommends: libpwiz-dev, python3-cogent3, r-cran-gprofiler2
removed:
Recommends: r-cran-gprofiler
Suggests: python3-cogent3, python3-mcaller
-med-covid-19
added:
Recommends: nf-core-artic
removed:
Recommends: artic
-med-epi
added:
Recommends: r-cran-prevalence
-med-imaging
removed:
Recommends: python3-mvpa2
-med-imaging-dev
added:
Recommends: libopencv-dev, python3-torchvision
removed:
Recommends: python3-mvpa2, pytorch-vision, libopensurgsim-dev, libcv-dev
-- Andreas Tille <email address hidden> Fri, 03 Jun 2022 12:04:09 +0200
-
debian-med (3.7.1) unstable; urgency=medium
* Remove libbiod-dev
* Remove r-cran-rsgcc (see #1002794)
* Remove r-other-hms-dbmi-spp since it is r-cran-spp
* Standards-Version: 4.6.0
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: r-bioc-mofa2, igblast, tipp, haploview, cutesv,
python3-cogent3
Suggests: r-bioc-isoformswitchanalyzer, catfishq, nano-snakemake,
tandem-genotypes, illustrate
removed:
Recommends: hinge, r-bioc-pcamethods, python3-cogent,
r-other-hms-dbmi-spp, haploview-cran-amap, compclust,
gassst, ccs, ncbi-igblast
Suggests: r-cran-rsgcc, r-bioc-org.ce.eg.db, r-bioc-org.rn.eg.db
-med-bio-dev
added:
Recommends: goby-java, python3-cigar, python3-pangolearn,
python3-compclust
removed:
Recommends: libgoby-java, r-other-hms-dbmi-spp, pangolearn, libbiod-dev,
python3-hyphy
Suggests: r-cran-rsgcc
-med-bio-ngs
added:
Recommends: q2cli
Suggests: r-bioc-mofa2, r-bioc-isoformswitchanalyzer
-med-covid-19
added:
Recommends: tipp, python3-idseq-dag, r-cran-kernelheaping
removed:
Recommends: idseq-dag
-med-epi
added:
Recommends: r-cran-kernelheaping
-med-imaging
added:
Suggests: illustrate
-med-imaging-dev
added:
Recommends: libvtk9-dev, libinsighttoolkit5-dev
Suggests: libvtk7-dev
removed:
Recommends: libvtk7-dev, libinsighttoolkit4-dev
Suggests: libvtk6-dev
-- Andreas Tille <email address hidden> Wed, 12 Jan 2022 20:44:28 +0100
-
debian-med (3.7) unstable; urgency=medium
* Re-render metapackages according the package pool in bullseye
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: bio-vcf, uncalled, covpipe, fastani, bioawk, bamclipper
Suggests: r-bioc-structuralvariantannotation
-med-bio-dev
added:
Recommends: libbio-db-ncbihelper-perl, libbio-variation-perl,
python3-scanpy, libbio-db-biofetch-perl, libbio-db-embl-perl,
python3-wdlparse, pangolearn, libpdb-redo-dev
Suggests: r-bioc-structuralvariantannotation
-med-covid-19
added:
Recommends: uncalled, covpipe, fastani, python3-scanpy, nthash,
bamclipper
-med-epi
added:
Suggests: python3-epimodels
-med-imaging
added:
Recommends: python3-nipype, bart-cuda
removed:
Suggests: python-nipype
-med-imaging-dev
added:
Recommends: python3-nipype, python3-brian, python3-vigra
removed:
Suggests: python-vigra, python-nipype
-- Andreas Tille <email address hidden> Mon, 03 May 2021 21:28:56 +0200
-
debian-med (3.6.2) unstable; urgency=medium
* DEP5 copyright
* Rename debian/NEWS.debian to debian/NEWS
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
removed:
Recommends: pbgenomicconsensus, unanimity, dindel
-med-bio-dev
added:
Suggests: libxxsds-dynamic-dev, r-bioc-affxparser,
r-bioc-oligoclasses, r-bioc-gseabase, r-bioc-arrayexpress,
r-bioc-oligo, r-bioc-gsva
removed:
Recommends: seqan-dev
Suggests: libdynamic-dev
-med-bio-ngs
removed:
Recommends: dindel
-- Andreas Tille <email address hidden> Mon, 01 Mar 2021 11:33:28 +0100
-
debian-med (3.6.1) unstable; urgency=medium
* Recommends: python3-dipy
Closes: #974765
* Migrate to udd-mirror.debian.net hostname
Closes: #976058
* Standards-Version: 4.5.1
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: ggd-utils, cif-tools, phylonium, relion, gsort,
relion-cuda, simkamin, plink2, pangolin,
relion-gui-cuda, simka, r-other-rajewsky-dropbead,
agat, r-bioc-scater, tortoize, shasta, survivor,
density-fitness, relion-gui, svim, r-other-fastbaps,
nanostat, pinfish, salmid
Suggests: r-bioc-genomicranges, r-cran-rcpphnsw, mcaller,
libhnswlib-dev, r-bioc-org.ce.eg.db, r-bioc-genomicalignments,
r-bioc-genomicfiles, nanocomp, r-bioc-biocsingular,
r-bioc-biocneighbors, r-bioc-singlecellexperiment,
r-bioc-beachmat, python3-nanoget, hts-nim-tools, resfinder-db,
r-bioc-org.hs.eg.db, r-bioc-org.mm.eg.db, seqcluster,
r-bioc-org.rn.eg.db
removed:
Recommends: relion-bin | relion-bin+mpi, predictprotein, relion-bin+gui |
relion-bin+mpi+gui, pynast
Suggests: r-bioc-biosingular
-med-bio-dev
added:
Recommends: nim-kexpr-dev, libbio-featureio-perl, python3-pybigwig,
libbio-cluster-perl, libbio-alignio-stockholm-perl,
python3-peptidebuilder, python3-shasta, nim-hts-dev,
nim-lapper-dev, libbio-db-hts-perl,
libbio-tools-run-remoteblast-perl, libcifpp-dev,
python3-bcbio-gff
Suggests: python3-mcaller, q2-cutadapt, q2-metadata, q2-alignment,
q2-deblur, libatomicqueue-dev, r-bioc-cager, q2cwl, q2lint,
r-bioc-titancna, libconcurrentqueue-dev, q2-shogun,
python3-joypy, q2-emperor, r-cran-rcpphnsw, libsuma-dev,
q2-phylogeny, libargs-dev, q2-gneiss, q2cli, q2-longitudinal,
q2-feature-classifier, q2-vsearch, q2-quality-control,
r-bioc-biocneighbors, q2-composition, r-bioc-purecn,
q2-sample-classifier, qiime, q2-quality-filter,
libdynamic-dev, q2templates, r-bioc-s4vectors, q2-diversity,
q2-dada2, q2-fragment-insertion, q2-feature-table, q2-taxa,
q2-types, cwlformat, q2-demux
-med-cloud
added:
Recommends: plink1.9, plink2
removed:
Recommends: pynast
-med-covid-19
added:
Recommends: r-other-fastbaps, pinfish, pangolin, plink2
-med-imaging
added:
Recommends: python3-dipy, nifti2dicom, qnifti2dicom
Suggests: orthanc-gdcm
removed:
Suggests: python-dipy
-med-imaging-dev
added:
Recommends: python3-dipy, libnifti2-dev
removed:
Recommends: libnifti-dev
Suggests: python-dipy
-med-oncology
added:
Recommends: simrisc
Suggests: python3-dicompylercore
-med-psychology
added:
Suggests: python3-bids-validator, python3-bmtk
-- Andreas Tille <email address hidden> Mon, 21 Dec 2020 18:45:13 +0100
-
debian-med (3.6) unstable; urgency=medium
* COVID-19 sprint release
* Drop autodocktools since it depends mgltools-pmv which is about to
be removed
* Drop all mgltools-* packages since these are unmaintained and there
is no Python3 port
* Remove cain from tasks since there is close to no chance to port it
to Python3
* Standards-Version: 4.5.0 (routine-update)
* debhelper-compat 13 (routine-update)
* Trim trailing whitespace.
-- Andreas Tille <email address hidden> Fri, 14 Aug 2020 22:37:10 +0200
-
debian-med (3.5.1) unstable; urgency=medium
* Drop fastx-toolkit and libgtextutils since unmaintained and
libgtextutils has issued with gcc9
* Drop mgltools-pmv which is constantly broken for several years
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: r-bioc-geoquery, r-cran-wgcna
removed:
Recommends: mgltools-pmv, r-other-wgcna, fastx-toolkit
-med-bio-dev
added:
Suggests: r-bioc-geoquery
removed:
Suggests: libgtextutils-dev
-med-bio-ngs
removed:
Recommends: fastx-toolkit
-med-cloud
removed:
Recommends: fastx-toolkit
-- Andreas Tille <email address hidden> Fri, 06 Dec 2019 18:24:39 +0100
-
debian-med (3.5) unstable; urgency=medium
* Python2 packages only suggested
Closes: #945659
* Remove tophat since deprecated by upstream
* giira from Recommends to Suggests since it needs tophat
* lintian-override for field-too-long Recommends
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: idefix, resfinder, purple, pufferfish
Suggests: skewer, giira
removed:
Recommends: giira, tophat
Suggests: mobyle-programs, mobyle-tutorials, mobyle
-med-bio-dev
added:
Recommends: python3-dnaio, python3-pyani, biobambam2, libcdk-java
Suggests: r-bioc-dada2, python-pbcommand, python-pbh5tools,
r-cran-dt, r-cran-proc, python-kineticstools, libfast-perl,
python-corepywrap, libmaus2-dev, python-pbcore,
r-cran-pcapp, r-cran-dynamictreecut, python-cogent,
r-cran-kaos
removed:
Recommends: python-pbh5tools, python-pbcommand, python-kineticstools,
python-corepywrap, libmaus2-dev, python-pbcore,
r-cran-dynamictreecut, python-cogent
-med-bio-ngs
removed:
Recommends: tophat
-med-cloud
added:
Recommends: hisat2
Suggests: python-cogent
removed:
Recommends: python-cogent, tophat
-med-imaging
added:
Suggests: python-nipype, python-nitime, python-dipy, python-nipy
removed:
Recommends: python-nipype, python-nitime, python-dipy, python-nipy
Suggests: tifffile
-med-imaging-dev
added:
Suggests: python-vigra, python-nipype, python-cfflib, python-nitime,
python-pyxnat, python-nipy, python-vmtk, python-dipy
removed:
Recommends: python-vigra, python-nipype, python-cfflib, python-nitime,
python-pyxnat, python-nipy, python-vmtk, python-dipy
-med-psychology
added:
Suggests: python-pyepl
removed:
Recommends: python-pypsignifit, python-pyepl
-- Andreas Tille <email address hidden> Thu, 28 Nov 2019 09:25:44 +0100
-
debian-med (3.4) unstable; urgency=medium
* Standards-Version: 4.4.1
* Use debhelper-compat
* Re-render dependencies without Python2 packages
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: python3-deeptoolsintervals, skesa, python3-orange, vg,
mmseqs2, mindthegap, kaptive, r-cran-tsne,
python3-deeptools, r-cran-seurat, python3-cogent,
kleborate, python3-reaper, python3-treetime, pizzly,
trim-galore, pigx-scrnaseq, pigx-rnaseq,
r-bioc-multiassayexperiment, wham-align, r-other-wgcna,
r-bioc-mofa, seqcluster, r-cran-kaos, r-cran-drinsight
Suggests: r-bioc-tximport, r-bioc-qusage, python3-pyflow,
python3-alignlib, r-cran-corrplot, r-cran-fitdistrplus,
r-cran-dynamictreecut, python3-loompy, strelka,
r-cran-gprofiler, python3-py2bit, r-cran-sctransform
removed:
Recommends: python-orange, python-treetime, python-reaper, python-cogent
-med-bio-dev
added:
Recommends: python3-roadrunner, python3-deeptoolsintervals,
r-other-hms-dbmi-spp, python3-loompy, python3-py2bit,
r-cran-rotl, r-cran-seqinr, libseqan2-dev, r-cran-boolnet,
r-other-apmswapp, r-cran-vegan, r-cran-tsne, gffread,
python3-deeptools, r-cran-seurat, r-cran-corrplot,
r-cran-fitdistrplus, r-cran-qqman, r-cran-metamix,
r-cran-pscbs, r-cran-pheatmap, r-cran-sctransform,
r-cran-adephylo, r-cran-phangorn, r-cran-distory,
python3-htseq, libmaus2-dev, python3-rdkit, r-cran-samr,
r-cran-webgestaltr, python3-freecontact, libseqan3-dev,
r-cran-rentrez, r-cran-adegenet, r-cran-dynamictreecut,
r-cran-gprofiler, r-cran-forecast, libgclib,
python3-biom-format, r-cran-drinsight
Suggests: r-cran-rann, r-bioc-biostrings, r-bioc-deseq2,
r-bioc-mergeomics, r-cran-metap, r-bioc-qusage,
python3-pyflow, python3-pycosat, r-bioc-metagenomeseq,
r-bioc-annotate, r-bioc-cner, r-bioc-geneplotter,
r-bioc-ensembldb, r-bioc-rentrez, r-bioc-tximport,
r-bioc-rtracklayer, r-bioc-annotationhub, r-bioc-ebseq,
r-bioc-go.db, r-bioc-limma, r-cran-ica, r-bioc-pcamethods,
r-bioc-savr, r-cran-rsvd, python3-alignlib,
r-cran-future.batchtools, r-bioc-tfbstools, r-bioc-bitseq,
r-bioc-cummerbund, r-bioc-multiassayexperiment, r-bioc-gviz,
r-bioc-genefilter, r-bioc-phyloseq, r-bioc-impute,
r-bioc-aroma.light, r-cran-future.apply, r-bioc-mofa,
r-bioc-dnacopy
removed:
Recommends: python-htseq, python-mmtk, python-rdkit, python-screed,
python-biom-format, python-roadrunner, python-freecontact
Suggests: python-pyflow, r-cran-rentrez
-med-bio-ngs
added:
Recommends: wham-align
-med-cloud
removed:
Recommends: python-biopython
-med-data
added:
Recommends: python3-hl7
Suggests: oscar
removed:
Recommends: python-hl7
-med-epi
added:
Recommends: python3-treetime
removed:
Recommends: python-treetime
-med-imaging
added:
Recommends: python3-nibabel, python3-mvpa2, python3-dicom,
python3-surfer, tifffile
removed:
Recommends: python-surfer, python-mvpa2, python-dicom,
python-nibabel, python-tifffile
-med-imaging-dev
added:
Recommends: python3-mia, python3-mvpa2, python3-dicom,
python3-openslide, python3-gdcm, python3-imageio,
python3-mne, python3-nibabel
Suggests: tifffile
removed:
Recommends: python-mia | python3-mia, python-gdcm, python-mne,
python-mvpa2, python-dicom, python-nibabel,
python-imageio, python-openslide
Suggests: python-libavg, python-tifffile
-med-physics
added:
Suggests: python3-multipletau
removed:
Suggests: python-multipletau
-med-practice
added:
Recommends: oscar
-med-psychology
removed:
Suggests: python-visionegg
-med-tools
added:
Recommends: python3-fitbit
Suggests: oscar
removed:
Recommends: python-clips, python-fitbit
-- Andreas Tille <email address hidden> Sat, 05 Oct 2019 12:02:38 +0200
-
debian-med (3.3) unstable; urgency=medium
* Re-render tasks with Buster release state
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: pilercr, mosdepth, quast, r-cran-webgestaltr, ragout,
kraken2, gffread, filtlong, umis, sailfish, sibelia,
atropos, braker, virulencefinder, vcfanno, biobambam2,
python3-pybel, kmerresistance, optitype, spaln, kma,
stringtie, oncofuse, optimir, kallisto, sina, dendroscope,
multiqc, python3-geneimpacts, bismark
Suggests: r-cran-forecast
removed:
Recommends: pybel
Suggests: melting-gui
-med-bio-dev
added:
Recommends: libbio-samtools-perl, libbio-asn1-entrezgene-perl,
libnexml-java, libbio-tools-run-alignment-clustalw-perl,
libbigwig-dev, libbio-tools-phylo-paml-perl,
libbio-chado-schema-perl, python3-cgecore, libbio-scf-perl,
python3-mirtop, libbio-tools-run-alignment-tcoffee-perl,
python3-pybel
Ignore: golang-github-biogo-hts-dev
-med-bio-ngs
added:
Recommends: kraken2, stringtie
-med-cms
added:
Recommends: xnat
removed:
Suggests: xnat
-med-imaging
added:
Recommends: xnat
removed:
Suggests: xnat
-med-imaging-dev
added:
Recommends: libvtk7-dev
Suggests: libvtk6-dev
removed:
Recommends: libvtk6-dev
-med-psychology
added:
Recommends: r-cran-psychometric, r-cran-psych, r-cran-psyphy,
r-cran-psychotree
removed:
Recommends: psychotree, psychometric, miscpsycho, psyphy, psych
-- Andreas Tille <email address hidden> Fri, 25 Jan 2019 14:49:50 +0100
-
debian-med (3.2) unstable; urgency=medium
* Fix broken reference to alioth
* Standards-Version: 4.3.0
* debhelper 12
* Versioned Build-Depends: blends-dev (>= 0.7.2~)
* Add missing ${misc:Depends}
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-bio
added:
Recommends: r-cran-sdmtools, delly, python3-pybedtools, r-cran-tcr,
qutemol, r-cran-tigger, bax2bam, python3-gffutils,
vdjtools, r-cran-shazam, r-cran-alakazam, gramalign,
igor, deepbinner, python3-sqt, minimap2, sourmash,
samblaster, murasaki | murasaki-mpi, biosyntax, paipline,
pyvcf, r-bioc-cner, igdiscover, fastp, ncbi-igblast,
pybel, jellyfish1, minimac4, lambda-align2, sweed,
viewmol, seq-seq-pan, yaha, python3-biomaj3-daemon,
changeo, mirtop, python3-presto, cct, unanimity,
plasmidseeker
removed:
Recommends: hilbertvisgui, decipher, hyphygui, jstreeview,
biosyntax-gedit, python3-biomaj3, spice, rosetta,
hexamer, murasaki, gbioseq, finex, das-proserver, est-db
-med-bio-dev
added:
Recommends: python3-screed, python3-misopy, python3-pyvcf,
python3-biomaj3, python3-ngs, toil, python3-cutadapt,
python3-ruffus, python3-biotools, python3-sqt,
libmems-dev, python3-hyphy, libstatgen-dev, python3-cobra,
python3-biopython, python3-pysam, python3-airr,
python3-dendropy, libgenome-dev, python3-fast5,
python3-cyvcf2, libpll-dev, python3-bx, libmuscle-dev,
python3-treetime, python3-presto, python3-pbconsensuscore,
python3-csb, python3-intervaltree-bio, python3-seqcluster,
python3-ete3, python3-bcbio, python3-pyfaidx, galaxy-lib,
python3-consensuscore2, snakemake
Suggests: ctdconverter, libmodhmm-dev, libsvmloc-dev, vdjtools,
python3-ctdopts, python3-biopython-sql, libmilib-java
removed:
Recommends: python3-biotools | python-biotools, octave-bioinfo,
python3-pyvcf | python-pyvcf,
python3-biomaj3 | python-biomaj3,
python3-pbconsensuscore | python-pbconsensuscore,
libmuscle-3.7-dev, python3-pyfaidx | python-pyfaidx,
python3-consensuscore2 | python-consensuscore2,
python-bd2k, python3-bx | python-bx,
python3-ete3 | python-ete3, python3-ruffus | python-ruffus,
python3-fast5 | python-fast5,
python3-dendropy | python-dendropy, python-pysam,
python3-cutadapt | python-cutadapt, libgff-perl,
python3-ngs | python-ngs, python3-pyfasta | python-pyfasta,
python3-csb | python-csb, libgenome-1.3-dev,
python3-biopython | python-biopython,
python3-hyphy | python-hyphy, python-cobra,
libmems-1.6-dev,
python3-intervaltree-bio | python-intervaltree-bio,
python3-misopy | python-misopy
Suggests: python3-biopython-sql | python-biopython-sql
-med-bio-ngs
added:
Recommends: python3-presto, changeo, bcbio, igor, python3-pybedtools,
igdiscover, python3-airr, r-cran-tcr, r-cran-tigger,
python3-sqt, python3-gffutils, fastp, vdjtools,
samblaster, r-cran-shazam, r-cran-alakazam
-med-bio-phylogeny
added:
Suggests: python3-treetime
-med-epi
added:
Recommends: epifire
-med-imaging
added:
Recommends: mrtrix3, odil
Suggests: orthanc-mysql, tifffile
-med-imaging-dev
added:
Recommends: libsimpleitk1-dev, python3-biosig, libodil-dev,
python3-simpleitk, libxdf-dev
removed:
Recommends: libodil0-dev
-med-pharmacy
added:
Recommends: r-cran-rpact
-med-physics
added:
Suggests: python3-biosig
removed:
Suggests: python-biosig
-med-research
added:
Recommends: r-cran-rpact
-med-typesetting
removed:
Suggests: referencer
-- Andreas Tille <email address hidden> Thu, 24 Jan 2019 15:07:55 +0100
-
debian-med (3.1) unstable; urgency=medium
* Versioned Build-Depends bumped to 0.6.99 to enable Recommends in tasks
files
* s/Depends/Recommends/
(leave out list of changed metapackage dependencies which is messed up
due to this change)
* Moved to Salsa
* Standards-Version: 4.1.4
* Bumped versioned Build-Depends blends-dev to >= 0.7~
* Priotity: optional (as per policy 4.0.1.0 - see #759260)
-- Andreas Tille <email address hidden> Thu, 26 Apr 2018 22:33:08 +0200
-
debian-med (3.0.1) unstable; urgency=medium
* Re-render before Stretch release
-- Andreas Tille <email address hidden> Wed, 19 Apr 2017 15:29:37 +0200
-
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
-- Andreas Tille <email address hidden> Tue, 24 Jan 2017 10:51:13 +0100
-
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
-- Andreas Tille <email address hidden> Tue, 20 Dec 2016 11:27:35 +0100
-
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
-- Andreas Tille <email address hidden> Mon, 12 Sep 2016 10:03:11 +0200
-
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
-- Andreas Tille <email address hidden> Tue, 01 Sep 2015 17:40:57 +0200
-
debian-med (2.1) unstable; urgency=medium
* Build-Depends: blends-dev (>= 0.6.92.3) to enable respecting user PATH
/usr/lib/debian-med/bin
* Fix bashism issue since fixed in blends-dev
Closes: #772308
* Rebuild in Jessie
* Updated descriptions for his and laboratory
* Introduce /usr/lib/debian-med/bin as PATH for Debian Med users
-- Andreas Tille <email address hidden> Thu, 02 Jul 2015 17:55:39 +0200
-
debian-med (2.0) unstable; urgency=medium
* Fixed syntax of med-cloud and rerender dependencies
* Versioned Build-Depends: blends-dev (>= 0.6.92.2) to ensure no packages
from non-free or unstable will be included by accident
* Since last metapackage creation (and before freeze) the following
packages made it into testing:
fastaq,
relion-bin + librelion-dev
These were adde to the list of Recommends
* After the freeze the package
psychopy
was removed from testing and thus it is removed from Recommends
-- Andreas Tille <email address hidden> Sun, 29 Mar 2015 13:47:07 +0200
-
debian-med (1.99) unstable; urgency=low
* debian/control.stub:
- Build-Depends: blends-dev (>= 0.6.92) to get Section: metapackage entries
- cme fix dpkg-control
- debhelper 9
* d/source/format: 3.0 (native)
* start of automatic changelog entry *
* Changes in metapackage dependencies
-med-pharmacy
added:
Depends: r-cran-dosefinding
-med-tools
added:
Depends: cronometer, python-fitbit, python3-fitbitscraper, nut-nutrition
Suggests: goldencheetah
removed:
Suggests: cl-pubmed
-med-cloud
added:
Depends: bagpipe, fitgcp, fastqc, biomaj, sibsim4, biosquid, pdb2pqr,
soapdenovo, clonalframe, kissplice, conservation-code, mummer,
gasic, datamash, t-coffee, ampliconnoise, cassiopee, snap,
tabix, flexbar, zalign, parsinsert, smalt, melting,
r-cran-vegan, autodock-vina, cufflinks, mafft, dialign, glam2,
freecontact, probabel, mustang, amap-align, gromacs, anfo,
sigma-align, giira, blast2, bowtie, phyutility, poa, dialign-tx,
arden, qiime, squizz, theseus, gmap, autogrid, r-bioc-edger,
cd-hit, dnaclust, idba, probcons, discosnp, prodigal, cain,
sra-toolkit, clearcut, gff2ps, genometools, neobio, mrbayes,
pynast, sim4, bioperl, prank, perm, prime-phylo,
mira-assembler, bowtie2, vcftools, mapsembler2, r-cran-pvclust,
hmmer, cdbfasta, clustalw, wise, kalign, soapdenovo2, boxshade,
clustalo, python3-biopython, proda, abyss, primer3, grinder,
fastx-toolkit, rtax, minia, mlv-smile, concavity,
r-other-mott-happy.hbrem, ncbi-epcr, gff2aplot, macs, mothur,
hhsuite, fasttree, mipe, bamtools, aragorn, bioperl-run,
exonerate, jellyfish, aevol, circos, paraclu, python-biopython,
muscle, dssp
removed:
Depends: clustalw | clustalw-mpi, r-other-mott-happy, bagphenotype
-med-psychology
added:
Depends: python-pypsignifit
Suggests: python-visionegg
removed:
Depends: psignifit3
Suggests: visionegg
-med-bio
added:
Depends: bagpipe, minia, emmax, clearcut, metastudent, cassiopee,
freebayes, relion-gui, r-cran-vegan, uc-echo, spades, pdb2pqr,
probabel, relion-bin | relion-bin-mpi, mrs, acacia, staden,
snp-sites, r-bioc-rtracklayer, kissplice, giira, aragorn, rtax,
gasic, fitgcp, chimeraslayer, perm, prime-phylo,
velvetoptimiser, saint, crac, grabix, phyutility, r-bioc-gviz,
ray, spread-phy, r-other-mott-happy.hbrem, pycorrfit,
rate4site, varscan, mapsembler2, flexbar, trimmomatic,
blimps-utils, nast-ier, blat, bitseq, mach-haplotyper,
ngsqctoolkit, discosnp, emperor, dnaclust, unc-fish, idba,
r-cran-ape, openms, topp, parsinsert, aevol, fsa, biceps,
ipig, kclust, circos, strap-base, freecontact, wigeon, fastaq,
soapdenovo2, r-bioc-biostrings, seqan-apps, eigensoft,
prodigal, modeller, arden, paraclu, situs, pyscanfcs
Suggests: biomaj-watcher, mobyle-tutorials, r-cran-boolnet,
mobyle-programs
Ignore: mozilla-biofox
removed:
Depends: r-ape, sra-sdk, ray-denovoassembler, phy-spread | spread-phy,
fas, vegan, dotur, r-other-mott-happy, bagphenotype
Suggests: circos, pdb2pqr, seqan-apps, eigensoft, blimps-utils,
python-rdkit, mozilla-biofox
-med-his
added:
Depends: vista-foia
removed:
Depends: vista
-med-bio-ngs
added:
Depends: kissplice
removed:
Depends: ssaha2
-med-practice
added:
Suggests: libctapimkt1
removed:
Depends: freeicd
Suggests: libctapimkt0
-med-imaging-dev
added:
Depends: libedf-dev, libpapyrus3-dev, libmialm-dev, r-cran-rniftilib,
libvmtk-dev, libvtk-dicom0.4-dev,
libinsighttoolkit3-dev | libinsighttoolkit4-dev,
python-mia | python3-mia, octave-gdf, python-vmtk,
python-mvpa2, libvigraimpex-dev, libteem-dev, python-vigra,
libmia-2.2-dev, libmiaviewit-dev, python-mne
Suggests: libics-dev, python-tifffile, libvtkedge-dev
removed:
Depends: libmia-2.0-dev, python-mvpa, libteem1-dev,
libinsighttoolkit3-dev
-med-imaging
added:
Depends: mia-viewit, vtk-dicom-tools, pixelmed-apps, conquest-common,
teem-apps, gdf-tools, python-surfer, python-mvpa2,
python-dicom, python-nibabel
Suggests: conquest-mysql, trimage, conquest-dbase, openwalnut-qt4,
conquest-sqlite, python-pyxid, conquest-postgres
removed:
Depends: conquest-dicom-server, python-mvpa, pixelmed-java, python-nifti
Suggests: pysurfer, pyxid, openwalnut
-med-bio-phylogeny
added:
Depends: spread-phy
removed:
Depends: phy-spread | spread-phy
-med-bio-dev
added:
Depends: python-rdkit, libbambamc-dev, libgenome-1.3-dev,
libfreecontact-perl, libhts-dev,
libgenome-model-tools-music-perl, python-corepywrap, pyfai,
libsnp-sites1-dev, libgenome-perl, libfreecontact0-dev,
libssm-dev, python-biopython | python3-biopython, sbmltoolbox,
python-csb | python3-csb, python-htseq, python-freecontact,
libopenms-dev, librelion-dev
Suggests: r-bioc-iranges, r-bioc-variantannotation, r-bioc-bsgenome,
r-bioc-preprocesscore, r-bioc-shortread, r-bioc-affy,
python-biopython-sql | python3-biopython-sql,
python-biopython-doc, r-bioc-makecdfenv, libfreecontact-doc,
libgtextutils-dev, r-bioc-affyio, librostlab-doc,
r-bioc-hypergraph, r-bioc-biovizbase, r-bioc-genomeinfodb,
librostlab-blast-doc, r-bioc-graph, r-bioc-xvector,
r-bioc-genomicfeatures, r-bioc-annotationdbi, r-bioc-snpstats,
r-bioc-rsamtools, r-bioc-altcdfenvs, r-bioc-genomicranges,
r-bioc-genomicalignments, r-bioc-biomart
removed:
Depends: libqsearch-dev, iranges, libopenmm4-dev, librostlab-blast-doc,
libgenome-1.3-0-dev, biostrings, librostlab-doc,
python-biopython, python-librcsb-core-wrapper, octave-bioinfo
-med-epi
added:
Depends: ushahidi
-med-physics
added:
Depends: gdf-tools, biosig-tools
Suggests: python-biosig, octave-biosig, python-multipletau, libbiosig-dev
removed:
Depends: biosig
-- Andreas Tille <email address hidden> Thu, 23 Oct 2014 23:42:18 +0200
-
debian-med (1.13.2) unstable; urgency=low
* Build-Depends: blends-dev (>= 0.6.16.2)
* Added dependency in imaging-dev: libopenigtlink1-dev
-- Andreas Tille <email address hidden> Thu, 20 Dec 2012 09:13:33 +0100
-
debian-med (1.13.1) unstable; urgency=low
* Revert name change from med-pharmacy -> med-pharma
Closes: #694424
-- Andreas Tille <email address hidden> Tue, 27 Nov 2012 17:37:26 +0100
-
debian-med (1.13) unstable; urgency=low
* med-rehabilitation: sitplus is back to testing - regenerate dependencies
* Some new prospective packages in tasks
-- Andreas Tille <email address hidden> Wed, 07 Nov 2012 11:39:29 +0100
-
debian-med (1.12) unstable; urgency=low
* debian/control:
Usual changes of dependency based on the resolving of new packages
in Debian as specified in the tasks files
* config/control: Enhanced readability and spelling of long description
* Added dependencies due to packages progressing to testing after last upload
Bio: r-cran-genabel, gentle, dssp, neobio, fasttree
Bio-dev: libbiojava3-java, libai-fann-perl, librg-blast-parser-perl,
libsort-key-top-perl, libhmsbeagle-dev
Imaging: ants, king
Practice: freediams, freemedforms-freedata, freemedforms-emr
* Removed dependencies due to packages removed from testing
Bio: gassst (removed in #689957)
Rehabilitation: sitplus (lacking build-depends in testing, see #680798)
* Renamed metapackages: med-pharmacy -> med-pharma
* Add debian/med-*.lintian-overrides to prevent false positives about
homepage links
-- Andreas Tille <email address hidden> Mon, 05 Nov 2012 15:52:59 +0100
-
debian-med (1.11) unstable; urgency=low
* debian/control(.stub):
Standards-Version: 3.9.3 (no changes needed)
* debian/control:
Usual changes of dependency based on the resolving of new packages
in Debian as specified in the tasks files
* tasks/physics: s/octave3.2/octave/
Closes: #667588
-- Andreas Tille <email address hidden> Thu, 05 Apr 2012 08:30:44 +0200
-
debian-med (1.10) unstable; urgency=low
* tasks/oncology: Fix typo
Closes: #647987
* tasks/dental: Fullfilled dependency imagetooth results in new
metapackage med-dental
-- Andreas Tille <email address hidden> Fri, 16 Dec 2011 13:25:18 +0100
-
debian-med (1.9) unstable; urgency=low
* Standards-Version: 3.9.2 (no changes needed)
* Do not create med-cms metapackage any more because the only
Dependency is dropped from testing / unstable
* New tasks bio-ngs + bio-phylogeny which are actual subsets
of med-bio created but not turned into metapackages for this
release
* New task oncology - packaging dependencies is in preparation
* Several new Dependencies created by Blends tools
* Fixed Vcs fields
-- Andreas Tille <email address hidden> Mon, 18 Jul 2011 10:32:39 +0200
-
debian-med (1.8) unstable; urgency=low
[Steffen Möller]
* Added task cloud: Cloud computing image for Debian Med
[Andreas Tille]
* config/control: Depends: blends-common (>= 0.6.15)
* debian/control.stub: Build-Depends-Indep: blends-dev (>= 0.6.15)
which provides postrm / preinst scripts for each metapackage to
enable handling failed-upgrade
Closes: ##603853
-- Andreas Tille <email address hidden> Thu, 18 Nov 2010 08:16:45 +0100
-
debian-med (1.7) unstable; urgency=low
* Rebuild against blends-dev >= 0.6.14 to prevent
accessint internet at package build time
* Standards-Version: 3.9.1 (no changes needed)
* tasks/imaging-dev: Revcent version of vtk to make
sure vtk migration will be not blocked by Debian Med
* config/control:
- Do not mention mention med-cms any more because the package
will not be created any more. The only dependency in Debian
zope-zms was removed.
- Add med-psychology and med-statistics
-- Andreas Tille <email address hidden> Wed, 04 Aug 2010 12:43:09 +0200
-
debian-med (1.6) unstable; urgency=low
* Rebuild against blends-dev >= 0.6.12. This results in
using a prerm script instead of postrm which ensures that
blends-common is installed while this script is running
* Standards-Version: 3.8.4 (no changes needed)
* debian/oldchangelogs: removed old stuff
-- Andreas Tille <email address hidden> Thu, 18 Mar 2010 10:07:26 +0100
-
debian-med (1.5) unstable; urgency=low
* Depend from blends-common >= 0.6.9 and explain in
NEWS.Debian that no attempt to take over any CDD
related configuration
Closes: #562553
-- Andreas Tille <email address hidden> Mon, 18 Jan 2010 22:22:05 +0100
-
debian-med (1.4) unstable; urgency=low
* Several new dependencies in Metapackages
* Depend from blends-common >= 0.6.8
Closes: #562553
* No need to Build-Depends from debhelper because blends-dev
does depend from it
* Several new package
-- Andreas Tille <email address hidden> Mon, 28 Dec 2009 08:58:27 +0100
-
debian-med (1.3) unstable; urgency=low
* tasks/physics: Enhanced information about biosig
* tasks/*: Several changes and additional information for a
lot of prospective packages; a certain amount of packages
is now available as official packages
* debian/control.stub:
- Fixed Vcs-Svn (missing svn/)
* Replaced some remaining "cdd" strings in the docs by "blends"
* Standards-Version: 3.8.3 (no changes needed)
* config/control: Depends: blends-common (>= 0.6.6)
Closes: #542656
-- Andreas Tille <email address hidden> Fri, 21 Aug 2009 14:09:18 +0200
-
debian-med (1.2) unstable; urgency=low
[ Andreas Tille ]
* Bumped policy to 3.8.1 and make use of the new feature that
debian/control allows comment lines starting with # with no
preceding whitespace. [Policy paragraph 5.2]
* debhelper (>=7)
* Added med-statistics
* tasks/bio: Replaced biococoa.app by sequenceconverter.app
* tasks/bio-dev: Added libbiococoa-dev
* Build-Depends: blends-dev (0.6.3) to make sure no useless
metapackages with no dependency available in Debian will be
created
* tasks.ctl: Added missing tasks; tasks data, his, laboratory
which do not yet feature an existing depenency in Debian
were set to priority-none.
[ Michael Hanke ]
* Added ODIN to imaging task.
* Added VIA to the imaging task.
* Updated LIPSIA item to ppoint to the packaging VCS and note ITP.
-- Andreas Tille <email address hidden> Mon, 30 Mar 2009 07:56:56 +0200
-
debian-med (1.0) unstable; urgency=low
* tasks/bio-dev
- Added libgenome
- Added libmems as prospective package
- Moved bioconductor from bio to bio-dev
- Added prospective projects where Steffen Möller started some
packaging work
- libqsearch -> libqsearch-dev
* tasks/bio
- Added prospective projects where Steffen Möller started some
packaging work
- Suggests: texlive-latex-extra (because of TeXShade)
- Removed line breaks in Dependencies, because cdd-gen-control
is not compliant to RFC 822 and requires '\' at the end of
lines to continue parsing the tasks files. To simply circumvent
this problem the relevant lines were concatenated to not miss
the dependencies in the resulting control file
- Renamed dialign-t to dialign-tx
* tasks/tools
- Added mssstest
- Added wgerman-medical, hunspell-de-med (remark: these are not
really tools but we have no better section, typesetting might be
an option but does also fit not really good)
* tasks/imaging
- Added prospective packages from static page
* tasks/imaging-dev
- Removed libgtkimreg
- Added libvtk5
- Added prospective packages from static page
- libminc0-dev | libminc-dev -> libminc-dev
- insighttoolkit -> insighttoolkit3
* tasks/physics
- octave | octave2.1 -> octave3.0
* debian/control.stub: XS-DM-Upload-Allowed -> DM-Upload-Allowed
* Standards-Version: 3.8.0 (no changes needed)
* Fixed typing of Debian Med: sed -i 's/Debian-Med/Debian Med/' *
-- Andreas Tille <email address hidden> Mon, 30 Jun 2008 09:59:37 +0200
