[Blends-commit] [Git][blends-team/med][master] 5 commits: Refresh dependencies and prepare upload to unstable
Andreas Tille
gitlab at salsa.debian.org
Mon Jun 11 12:47:36 BST 2018
Andreas Tille pushed to branch master at Debian Blends Team / med
Commits:
0e44ec5a by Andreas Tille at 2018-06-11T08:22:08+02:00
Refresh dependencies and prepare upload to unstable
- - - - -
fd99251c by Andreas Tille at 2018-06-11T08:23:26+02:00
Update dependency data
- - - - -
f7a6ae3f by Andreas Tille at 2018-06-11T08:42:25+02:00
Standards-Version: 4.1.4, Bumped versioned Build-Depends blends-dev to >= 0.6.103
- - - - -
33bfd274 by Andreas Tille at 2018-06-11T08:45:13+02:00
Priotity: optional (as per policy 4.0.1.0 - see #759260)
- - - - -
2c0069f2 by Andreas Tille at 2018-06-11T09:14:30+02:00
Versioned Depends is rather 0.7 since this is targeting to unstable (0.6.103 was in experimental)
- - - - -
5 changed files:
- debian-med-tasks.desc
- debian/changelog
- debian/control
- debian/control.stub
- dependency_data/debian-med_3.1.json
Changes:
=====================================
debian-med-tasks.desc
=====================================
--- a/debian-med-tasks.desc
+++ b/debian-med-tasks.desc
@@ -162,15 +162,6 @@ Description: Debian Med packages for psychology
Key:
med-psychology
-Task: med-rehabilitation
-Parent: debian-med
-Section: debian-med
-Description: Debian Med packages for rehabilitation technologies
- This metapackage will install tools that are useful for
- rehabilitation and therapy.
-Key:
- med-rehabilitation
-
Task: med-statistics
Parent: debian-med
Section: debian-med
=====================================
debian/changelog
=====================================
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,4 +1,4 @@
-debian-med (3.1) UNRELEASED; urgency=medium
+debian-med (3.1) unstable; urgency=medium
* Versioned Build-Depends bumped to 0.6.99 to enable Recommends in tasks
files
@@ -6,8 +6,11 @@ debian-med (3.1) UNRELEASED; urgency=medium
(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 <tille at debian.org> Wed, 19 Apr 2017 21:09:03 +0200
+ -- Andreas Tille <tille at debian.org> Thu, 26 Apr 2018 22:33:08 +0200
debian-med (3.0.1) unstable; urgency=medium
=====================================
debian/control
=====================================
--- a/debian/control
+++ b/debian/control
@@ -3,9 +3,9 @@ Source: debian-med
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Andreas Tille <tille at debian.org>
Section: misc
-Priority: extra
-Build-Depends-Indep: blends-dev (>= 0.6.99)
-Standards-Version: 3.9.8
+Priority: optional
+Build-Depends-Indep: blends-dev (>= 0.7~)
+Standards-Version: 4.1.4
Vcs-Browser: https://salsa.debian.org/blends-team/med
Vcs-Git: https://salsa.debian.org/blends-team/med.git
@@ -73,7 +73,6 @@ Suggests: med-cloud,
med-physics,
med-practice,
med-psychology,
- med-rehabilitation,
med-tools,
med-typesetting
Description: Default selection of tasks for Debian Med
@@ -104,7 +103,6 @@ Recommends: abacas,
arden,
ariba,
art-nextgen-simulation-tools,
- artemis,
artfastqgenerator,
assemblytics,
atac,
@@ -116,14 +114,12 @@ Recommends: abacas,
axe-demultiplexer,
baitfisher,
bali-phy,
- ballview,
bamtools,
barrnap,
bcftools,
beads,
beagle,
beast-mcmc,
- beast2-mcmc,
bedops,
bedtools,
belvu,
@@ -131,9 +127,11 @@ Recommends: abacas,
bio-eagle,
bio-rainbow,
bio-tradis,
+ biosyntax-gedit,
bitseq,
blasr,
blixem,
+ bolt-lmm,
bowtie,
bowtie2,
boxshade,
@@ -148,6 +146,8 @@ Recommends: abacas,
centrifuge,
cgview,
chimeraslayer,
+ chromhmm,
+ chromimpute,
circlator,
circos,
clearcut,
@@ -214,6 +214,7 @@ Recommends: abacas,
gasic,
gbrowse,
gdpc,
+ gemma,
genometools,
gentle,
gff2aplot,
@@ -221,6 +222,7 @@ Recommends: abacas,
ghemical,
giira,
glam2,
+ grabix,
graphlan,
grinder,
gromacs,
@@ -242,7 +244,6 @@ Recommends: abacas,
iqtree,
iva,
jaligner,
- jalview,
jellyfish,
jmodeltest,
jmol,
@@ -261,7 +262,7 @@ Recommends: abacas,
lefse,
librg-utils-perl,
libvcflib-tools,
- logol-bin,
+ logol,
loki,
ltrsift,
macs,
@@ -311,7 +312,7 @@ Recommends: abacas,
njplot,
norsnet,
norsp,
- openms,
+ pal2nal,
paleomix,
paml,
paraclu,
@@ -378,6 +379,8 @@ Recommends: abacas,
progressivemauve,
proteinortho,
prottest,
+ pscan-chip,
+ pscan-tfbs,
psortb,
pycorrfit,
pymol,
@@ -387,11 +390,11 @@ Recommends: abacas,
python-treetime,
python3-biomaj3,
qcumber,
- qiime,
qtltools,
quorum,
r-bioc-annotate,
r-bioc-biostrings,
+ r-bioc-bitseq,
r-bioc-cummerbund,
r-bioc-deseq2,
r-bioc-dnacopy,
@@ -426,7 +429,6 @@ Recommends: abacas,
radiant,
rambo-k,
rapmap,
- rasmol,
raster3d,
rate4site,
raxml,
@@ -436,8 +438,6 @@ Recommends: abacas,
rdp-readseq,
readseq,
reapr,
- relion-bin | relion-bin+mpi,
- relion-bin+gui | relion-bin+mpi+gui,
repeatmasker-recon,
reprof,
rna-star,
@@ -456,6 +456,7 @@ Recommends: abacas,
seaview,
seer,
seqan-apps,
+ seqmagick,
seqprep,
seqsero,
seqtk,
@@ -474,8 +475,10 @@ Recommends: abacas,
sniffles,
snp-sites,
snpomatic,
+ soapaligner,
soapdenovo,
soapdenovo2,
+ soapsnp,
sortmerna,
spaced,
spades,
@@ -505,7 +508,6 @@ Recommends: abacas,
tm-align,
tnseq-transit,
tophat,
- topp,
toppred,
transdecoder,
transrate-tools,
@@ -532,18 +534,20 @@ Suggests: acacia,
apollo,
arachne,
arb,
+ artemis,
asap,
autodocktools,
axparafit,
axpcoords,
bagpipe,
+ ballview,
bambus,
bandage,
bcbio,
+ beast2-mcmc,
biceps,
big-blast,
bigsdb,
- biosyntax-gedit,
blat,
blimps-utils,
blobology,
@@ -555,7 +559,6 @@ Suggests: acacia,
ccs,
cdna-db,
cellprofiler,
- chromhmm,
cinema,
cluster3,
cmap,
@@ -590,7 +593,6 @@ Suggests: acacia,
exabayes,
exalt,
excavator,
- fasta,
fasta3,
ffp,
figaro,
@@ -608,11 +610,12 @@ Suggests: acacia,
genetrack,
genezilla,
genographer,
+ genometester,
getdata,
+ ghmm,
glimmerhmm,
gmap,
gmv,
- grabix,
haploview,
hawkeye,
hexamer,
@@ -620,6 +623,7 @@ Suggests: acacia,
htqc,
igv,
inspect,
+ jalview,
jbrowse,
jigsaw,
jstreeview,
@@ -671,8 +675,8 @@ Suggests: acacia,
obo-edit,
oligoarrayaux,
omegamap,
+ openms,
operondb,
- pal2nal,
partigene,
partitionfinder,
patristic,
@@ -684,26 +688,28 @@ Suggests: acacia,
phylophlan,
phyloviz-core,
phylowin,
+ phyx,
+ pilon,
pipasic,
plato,
porechop,
profit,
prokka,
prot4est,
- pscan-tfbs,
psipred,
pssh2,
pyrophosphate-tools,
python-orange,
python-reaper,
+ qiime,
qtlcart,
qualimap,
r-bioc-annotationhub,
r-bioc-aroma.light,
- r-bioc-bitseq,
r-bioc-ensembldb,
r-bioc-go.db,
r-bioc-savr,
+ r-bioc-tfbstools,
r-cran-boolnet,
r-cran-metamix,
r-cran-pheatmap,
@@ -712,8 +718,13 @@ Suggests: acacia,
r-cran-samr,
r-other-apmswapp,
raccoon,
+ racon,
+ rampler,
+ rasmol,
raxml-ng,
rbs-finder,
+ relion-bin | relion-bin+mpi,
+ relion-bin+gui | relion-bin+mpi+gui,
repeatmasker,
rmblast,
roadtrips,
@@ -731,12 +742,11 @@ Suggests: acacia,
sistr,
situs,
snpeff,
- soapaligner,
- soapsnp,
solvate,
sparta,
spice,
splitstree,
+ spoa,
ssaha,
strap,
strap-base,
@@ -749,6 +759,7 @@ Suggests: acacia,
tigr-glimmer-mg,
tn-seqexplorer,
toil,
+ topp,
trace2dbest,
tracetuner,
treebuilder3d,
@@ -760,6 +771,7 @@ Suggests: acacia,
ugene,
umap,
unc-fish,
+ unicycler,
uniprime,
varmatch,
varscan,
@@ -781,6 +793,7 @@ Recommends: bio-tradis,
bioperl,
bioperl-run,
biosquid,
+ cwltool,
libace-perl,
libai-fann-perl,
libbambamc-dev,
@@ -836,7 +849,6 @@ Recommends: bio-tradis,
libngs-java,
libngs-sdk-dev,
libnhgri-blastall-perl,
- libopenms-dev,
libpal-java,
libpbbam-dev,
libpbdata-dev,
@@ -845,7 +857,6 @@ Recommends: bio-tradis,
libqes-dev,
librcsb-core-wrapper0-dev,
librdp-taxonomy-tree-java,
- librelion-dev,
librg-blast-parser-perl,
librg-reprof-bundle-perl,
librostlab-blast0-dev,
@@ -881,7 +892,6 @@ Recommends: bio-tradis,
python-pbcore,
python-pbh5tools,
python-pysam,
- python-rdkit,
python3-biomaj3,
python3-biopython | python-biopython,
python3-biotools | python-biotools,
@@ -904,24 +914,29 @@ Recommends: bio-tradis,
r-cran-phylobase,
r-cran-rncl,
r-cran-rnexml,
- ruby-bio,
sbmltoolbox,
seqan-dev
Suggests: bioclipse,
libbam-dev,
+ libbioparser-dev,
libdisorder-dev,
+ libedlib-dev,
libforester-java,
libfreecontact-doc,
libgatbcore-dev,
libgff-perl,
libgoby-java,
libgtextutils-dev,
+ libopenms-dev,
libpbcopper-dev,
libqcpp-dev,
+ librelion-dev,
libroadrunner-dev,
librostlab-blast-doc,
librostlab-doc,
+ libspoa-dev,
libswarm2-dev,
+ libthread-pool-dev,
mgltools-networkeditor,
mgltools-pybabel,
mgltools-vision,
@@ -931,6 +946,7 @@ Suggests: bioclipse,
python-biopython-doc,
python-mmtk,
python-pyflow,
+ python-rdkit,
python-roadrunner,
python-screed,
python3-biopython-sql | python-biopython-sql,
@@ -969,6 +985,7 @@ Suggests: bioclipse,
r-cran-natserv,
r-cran-rentrez,
r-cran-rocr,
+ ruby-bio,
ruby-crb-blast,
ruby-rgfa
Description: Debian Med packages for development of bioinformatics applications
@@ -1091,7 +1108,6 @@ Recommends: abyss,
python-cogent,
python3-biomaj3-cli,
python3-biopython,
- qiime,
r-bioc-hilbertvis,
r-cran-pvclust,
r-cran-qtl,
@@ -1127,7 +1143,8 @@ Recommends: abyss,
Suggests: bagpipe,
cufflinks,
embassy-phylip,
- gmap
+ gmap,
+ qiime
Description: Debian Med bioinformatics applications usable in cloud computing
This metapackage will install Debian packages related to molecular biology,
structural biology and bioinformatics for use in life sciences, that do not
@@ -1169,8 +1186,7 @@ Architecture: all
Depends: ${misc:Depends},
med-config (= ${source:Version}),
med-tasks (= ${source:Version})
-Recommends: epigrass,
- python-treetime,
+Recommends: python-treetime,
r-cran-diagnosismed,
r-cran-epi,
r-cran-epibasix,
@@ -1180,10 +1196,13 @@ Recommends: epigrass,
r-cran-lexrankr,
r-cran-seroincidence,
r-cran-surveillance
-Suggests: netepi-analysis,
+Suggests: epigrass,
+ netepi-analysis,
netepi-collection,
r-cran-cmprsk,
r-cran-msm,
+ r-cran-sf,
+ r-cran-sjplot,
repast,
shiny-server,
ushahidi
@@ -1229,7 +1248,6 @@ Depends: ${misc:Depends},
med-tasks (= ${source:Version})
Recommends: aeskulap,
amide,
- ants,
bart,
bart-view,
biosig-tools,
@@ -1241,7 +1259,6 @@ Recommends: aeskulap,
dicom3tools,
dicomnifti,
dicomscope,
- fw4spl,
gdf-tools,
ginkgocadx,
gwyddion,
@@ -1261,28 +1278,22 @@ Recommends: aeskulap,
mricron,
mrtrix,
nifti-bin,
- odin,
openslide-tools,
orthanc,
orthanc-wsi,
- pixelmed-apps,
plastimatch,
python-dicom,
- python-dipy,
- python-mvpa2,
python-nibabel,
python-nipy,
python-nipype,
python-nitime,
- python-surfer,
python-tifffile,
sigviewer,
sofa-apps,
- teem-apps,
- voxbo,
vtk-dicom-tools,
xmedcon
Suggests: afni,
+ ants,
bioimagesuite,
bioimagexd,
blox,
@@ -1312,6 +1323,7 @@ Suggests: afni,
freesurfer,
fsl,
fslview,
+ fw4spl,
gimias,
hid,
imagemagick,
@@ -1336,6 +1348,7 @@ Suggests: afni,
mni-icbm152-nlin-2009,
mni-n3,
mrisim,
+ odin,
omero,
opendicom.net,
openelectrophy,
@@ -1348,18 +1361,24 @@ Suggests: afni,
orthanc-webviewer,
paraview,
piano,
+ pixelmed-apps,
pngquant,
pymeg,
+ python-dipy,
+ python-mvpa2,
python-pyxid,
+ python-surfer,
science-workflow,
slicer,
stabilitycalc,
stir,
+ teem-apps,
tempo,
trimage,
via-bin,
visit,
vmtk,
+ voxbo,
xnat
Description: Debian Med image processing and visualization packages
This metapackage will install Debian packages which might be useful in
@@ -1402,9 +1421,7 @@ Recommends: cimg-dev,
libodil0-dev,
libopenigtlink-dev,
libopenslide-dev,
- libopensurgsim-dev,
libpapyrus3-dev,
- libteem-dev,
libvigraimpex-dev,
libvistaio-dev,
libvolpack1-dev,
@@ -1412,16 +1429,10 @@ Recommends: cimg-dev,
libvtk6-dev,
octave-bart,
octave-gdf,
- odin,
- python-casmoothing,
- python-cfflib,
python-dicom,
- python-dipy,
python-gdcm,
python-imageio,
python-mia | python3-mia,
- python-mne,
- python-mvpa2,
python-nibabel,
python-nipy,
python-nipype,
@@ -1443,11 +1454,18 @@ Suggests: emokit,
libnifti-doc,
libopenmeeg-dev,
libopenslide-java,
+ libopensurgsim-dev,
+ libteem-dev,
libvia-dev,
libvmtk-dev,
libxdffileio-dev,
octave-dicom,
+ odin,
+ python-cfflib,
+ python-dipy,
python-libavg,
+ python-mne,
+ python-mvpa2,
python-tifffile,
python-vmtk
Description: Debian Med image processing and visualization packages development
@@ -1572,15 +1590,15 @@ Depends: ${misc:Depends},
med-tasks (= ${source:Version})
Recommends: praat,
psignifit,
- psychopy,
- python-pyepl,
r-cran-foreign,
r-cran-psy
Suggests: miscpsycho,
psych,
psychometric,
+ psychopy,
psychotree,
psyphy,
+ python-pyepl,
python-pypsignifit,
python-visionegg,
science-psychophysics
@@ -1588,18 +1606,6 @@ Description: Debian Med packages for psychology
This metapackage contains dependencies for a collection of software
which might be helpful for psychological research.
-Package: med-rehabilitation
-Section: metapackages
-Architecture: all
-Depends: ${misc:Depends},
- med-config (= ${source:Version}),
- med-tasks (= ${source:Version})
-Recommends: sitplus
-Suggests: aghermann
-Description: Debian Med packages for rehabilitation technologies
- This metapackage will install tools that are useful for
- rehabilitation and therapy.
-
Package: med-statistics
Section: metapackages
Architecture: all
=====================================
debian/control.stub
=====================================
--- a/debian/control.stub
+++ b/debian/control.stub
@@ -2,9 +2,9 @@ Source: debian-med
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Andreas Tille <tille at debian.org>
Section: misc
-Priority: extra
-Build-Depends-Indep: blends-dev (>= 0.6.99)
-Standards-Version: 3.9.8
+Priority: optional
+Build-Depends-Indep: blends-dev (>= 0.7~)
+Standards-Version: 4.1.4
Vcs-Browser: https://salsa.debian.org/blends-team/med
Vcs-Git: https://salsa.debian.org/blends-team/med.git
=====================================
dependency_data/debian-med_3.1.json
=====================================
--- a/dependency_data/debian-med_3.1.json
+++ b/dependency_data/debian-med_3.1.json
@@ -1 +1 @@
-{"cms": {"depends": [], "suggests": ["zope-zms", "xnat", "hid"], "recommends": [], "ignore": [], "avoid": []}, "bio": {"depends": [], "suggests": ["dascrubber", "emboss-explorer", "adun.app", "melting-gui", "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"], "recommends": ["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", "mhap", "bwa", "mummer", "e-mem", "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", "scoary", "umap", "infernal", "rnahybrid", "adun-core", "avogadro", "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", "autodock-vina", "autodocktools", "mgltools-pmv", "mgltools-vision", "mgltools-cadd", "mustang", "probabel", "theseus", "staden-io-lib-utils", "samtools", "bedtools", "filo", "datamash", "gassst", "hinge", "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", "blixem", "dotter", "belvu", "python-cogent", "paml", "velvetoptimiser", "ensembl", "mrbayes", "pdb2pqr", "squizz", "clonalframe", "clonalframeml", "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", "soapsnp", "soapaligner", "microbiomeutil", "chimeraslayer", "nast-ier", "wigeon", "minia", "trimmomatic", "saint", "rtax", "rate4site", "rna-star", "topp", "openms", "scythe", "sickle", "smalr", "kmc", 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"ignore": [], "avoid": []}}
\ No newline at end of file
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"treetime", "jmodeltest", "forester", "patristic", "spread-phy", "iqtree"], "ignore": [], "avoid": []}, "physics": {"depends": [], "suggests": ["paw-demos", "libbiosig-dev", "python-biosig", "octave-biosig", "openvibe", "python-multipletau"], "recommends": ["paw++", "paw", "octave", "r-base", "biosig-tools", "gdf-tools", "gate"], "ignore": [], "avoid": []}, "dental": {"depends": [], "suggests": [], "recommends": ["openmolar", "imagetooth", "entangle"], "ignore": [], "avoid": []}, "psychology": {"depends": [], "suggests": ["science-psychophysics", "python-visionegg"], "recommends": ["python-pyepl", "praat", "r-cran-foreign", "psignifit", "python-pypsignifit", "r-cran-psy", "psychopy", "miscpsycho", "psych", "psychometric", "psychotree", "psyphy"], "ignore": [], "avoid": []}, "rehabilitation": {"depends": [], "suggests": ["aghermann"], "recommends": ["sitplus"], "ignore": [], "avoid": []}, "oncology": {"depends": [], "suggests": [], "recommends": ["uw-prism", "orthanc-wsi", "planunc", "dicompyler"], "ignore": [], "avoid": []}, "bio-dev": {"depends": [], "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-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"], "recommends": ["bioperl", "bioperl-run", "libncbi6-dev", "mcl", "biosquid", "cwltool", "libvibrant6-dev", 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"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", "python-bd2k", "libbio-eutilities-perl", "libseqlib-dev", "libroadrunner-dev", "python-roadrunner", "python3-biotools | python-biotools", "bio-tradis", "python3-biomaj3 | python-biomaj3", "libbiod-dev", "python3-ete3 | python-ete3", "python3-gfapy", "libgoby-java", "libgatbcore-dev"], "ignore": [], "avoid": []}, "statistics": {"depends": [], "suggests": ["science-statistics"], "recommends": ["r-bioc-limma", "r-bioc-qvalue", "r-cran-randomforest", "r-cran-beeswarm", "r-cran-pvclust", "rstudio", "r-bioc-multtest", "r-cran-ade4", "r-cran-rwave", "r-cran-snowfall", "r-cran-wavethresh", "r-cran-waveslim"], "ignore": [], "avoid": []}, "tools": {"depends": [], "suggests": ["cycle", "mencal", "entangle", "goldencheetah", "sleepyhead"], "recommends": ["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"], "ignore": [], "avoid": []}, "imaging-dev": {"depends": [], "suggests": ["libnifti-doc", "libfreeimage-dev", "libics-dev", "liblimereg-dev", "python-libavg", "emokit", "libeegdev-dev", "libxdffileio-dev", "python-tifffile", "libcamp-dev"], "recommends": ["ctn-dev", "cimg-dev", "libminc-dev", "libmdc2-dev", "libvtk6-dev", "libnifti-dev", "libinsighttoolkit4-dev", "libvolpack1-dev", "libgdcm2-dev", "python-gdcm", "libopensurgsim-dev", "libmaxflow-dev", "python-mvpa2", "python-nipy", "python-nipype", "python-nitime", "libvia-dev", "odin", "libcv-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", "libedf-dev", "python-imageio", "libismrmrd-dev", "libodil0-dev", "libbart-dev", "octave-bart", "libcifti-dev"], "ignore": [], "avoid": []}}
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View it on GitLab: https://salsa.debian.org/blends-team/med/compare/f1104f0638e73c1af7bd5b62e5808e5b92dc0f88...2c0069f218f60e5982dfe4342f49f744f7685263
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View it on GitLab: https://salsa.debian.org/blends-team/med/compare/f1104f0638e73c1af7bd5b62e5808e5b92dc0f88...2c0069f218f60e5982dfe4342f49f744f7685263
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