[Blends-commit] r3633 - in /projects/med/trunk/debian-med: config/config.1 debian-med-tasks.desc debian/changelog debian/control debian/med-bio.lintian-overrides debian/med-epi.lintian-overrides debian/med-imaging.lintian-overrides debian/med-tasks.lintian-overrides
tille at users.alioth.debian.org
tille at users.alioth.debian.org
Mon Nov 5 15:37:01 UTC 2012
Author: tille
Date: Mon Nov 5 15:37:00 2012
New Revision: 3633
URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=3633
Log:
Work towards an upload targeting at Wheezy
Added:
projects/med/trunk/debian-med/debian/med-bio.lintian-overrides
projects/med/trunk/debian-med/debian/med-epi.lintian-overrides
projects/med/trunk/debian-med/debian/med-imaging.lintian-overrides
projects/med/trunk/debian-med/debian/med-tasks.lintian-overrides
Modified:
projects/med/trunk/debian-med/config/config.1
projects/med/trunk/debian-med/debian-med-tasks.desc
projects/med/trunk/debian-med/debian/changelog
projects/med/trunk/debian-med/debian/control
Modified: projects/med/trunk/debian-med/config/config.1
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/config/config.1?rev=3633&op=diff
==============================================================================
--- projects/med/trunk/debian-med/config/config.1 (original)
+++ projects/med/trunk/debian-med/config/config.1 Mon Nov 5 15:37:00 2012
@@ -11,7 +11,7 @@
Print just a simple information page about every med-* package
of the Debian-Med Custom Debian Distribution. Each metapackage has a
.I /usr/bin/med-<meta_package_name>
-file which should print some useful informations and could be serve
+file which should print some useful information and could be serve
as auto-apt helper.
.SH AUTHOR
Modified: projects/med/trunk/debian-med/debian-med-tasks.desc
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian-med-tasks.desc?rev=3633&op=diff
==============================================================================
--- projects/med/trunk/debian-med/debian-med-tasks.desc (original)
+++ projects/med/trunk/debian-med/debian-med-tasks.desc Mon Nov 5 15:37:00 2012
@@ -19,6 +19,7 @@
loki
plink
r-cran-qtl
+ r-cran-genabel
amap-align
boxshade
fastx-toolkit
@@ -32,7 +33,9 @@
bwa
mummer
blast2
+ ncbi-blast+
mafft
+ sra-toolkit
t-coffee
kalign
hmmer
@@ -98,12 +101,12 @@
samtools
bedtools
filo
- gassst
r-bioc-hilbertvis
r-other-mott-happy
mira-assembler
alien-hunter
ncoils
+ gentle
picard-tools
acedb-other-dotter
acedb-other-belvu
@@ -112,6 +115,7 @@
mrbayes
squizz
clonalframe
+ dssp
jellyfish
ballview
pynast
@@ -126,7 +130,8 @@
proftmb
hhsuite
ffindex
- ncbi-blast+
+ neobio
+ fasttree
abacas
profnet-bval
profnet-chop
@@ -164,7 +169,9 @@
python-cogent
ruby-bio
libbiojava-java
+ libbiojava3-java
libgenome-1.3-0-dev
+ libai-fann-perl
libbio-mage-perl
libtfbs-perl
libgo-perl
@@ -190,6 +197,9 @@
librostlab-doc
librostlab-blast0-dev
librostlab-blast-doc
+ librg-blast-parser-perl
+ libsort-key-top-perl
+ libhmsbeagle-dev
Task: med-bio-ngs
Section: debian-med
@@ -264,13 +274,15 @@
Task: med-data
Section: debian-med
Description: Debian Med drug databases
- There is at least one free medical drug database packaged for Debian
- which can be installed using this metapackage. It is supported by the
- GNUmed Electronic Medical Record package.
+ This metapackage will install free drug databases and related
+ applications. The database can be accessed by any EMR using
+ the application.
Relevance: 10
Key:
med-data
Packages: list
+ freediams
+ freemedforms-freedata
python-hl7
Task: med-dental
@@ -360,6 +372,7 @@
mricron
voxbo
mrtrix
+ ants
itksnap
mriconvert
sigviewer
@@ -367,6 +380,7 @@
openmeeg-tools
plastimatch
biosig-tools
+ king
python-nitime
python-dipy
@@ -383,6 +397,7 @@
cimg-dev
libminc-dev
libmdc2-dev
+ libvtk5-dev
libnifti-dev
libigstk4-dev
libinsighttoolkit3-dev
@@ -397,9 +412,9 @@
odin
libcv-dev
libvxl1-dev
- libteem1-dev
gmic
libgiftiio-dev
+ libactiviz.net-cil
python-dicom
libopenmeeg-dev
python-nibabel
@@ -421,7 +436,7 @@
Packages: list
dicompyler
-Task: med-pharmacy
+Task: med-pharma
Section: debian-med
Description: Debian Med packages for pharmaceutical research
This metapackage contains dependencies for a
@@ -429,7 +444,7 @@
pharmaceutical research.
Relevance: 10
Key:
- med-pharmacy
+ med-pharma
Packages: list
chemtool
@@ -462,6 +477,8 @@
gnumed-server
libchipcard-tools
ginkgocadx
+ freediams
+ freemedforms-emr
r-cran-medadherence
clinica
@@ -490,7 +507,6 @@
Key:
med-rehabilitation
Packages: list
- sitplus
Task: med-statistics
Section: debian-med
@@ -503,7 +519,7 @@
Packages: list
r-bioc-edger
r-bioc-limma
- r-cran-qvalue
+ r-bioc-qvalue
r-cran-randomforest
r-cran-pvclust
@@ -536,4 +552,5 @@
Packages: list
texlive-science
texlive-latex-extra
-
+ king
+
Modified: projects/med/trunk/debian-med/debian/changelog
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian/changelog?rev=3633&op=diff
==============================================================================
--- projects/med/trunk/debian-med/debian/changelog (original)
+++ projects/med/trunk/debian-med/debian/changelog Mon Nov 5 15:37:00 2012
@@ -3,8 +3,21 @@
* debian/control:
Usual changes of dependency based on the resolving of new packages
in Debian as specified in the tasks files
-
- -- Andreas Tille <tille at debian.org> Tue, 17 Apr 2012 11:02:18 +0200
+ * config/control: Enhanced readability and spelling of long description
+ * Added dependencies
+ 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
+ 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 <tille at debian.org> Mon, 05 Nov 2012 15:52:59 +0100
debian-med (1.11) unstable; urgency=low
Modified: projects/med/trunk/debian-med/debian/control
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian/control?rev=3633&op=diff
==============================================================================
--- projects/med/trunk/debian-med/debian/control (original)
+++ projects/med/trunk/debian-med/debian/control Mon Nov 5 15:37:00 2012
@@ -26,42 +26,39 @@
Replaces: med-common
Provides: med-common
Description: Debian Med general config package
- This package provides the basic infrastructure of all med-* packages and is
- needed by them.
- .
- This package provides some files which are common to all med-* packages.
- Moreover it introduces a method to handle system users in a group
- med using debconf.
- .
- Other packages in Debian Med Project are:
- .
- * med-bio biological research
- * med-bio-dev developing applications in biological research
- * med-cloud command line biol. applications for cloud computing
- * med-data drug databases
- * med-dental helping tools for dentists
- * med-epi epidemiology
- * med-imaging image processing
- * med-imaging-dev developing applications for image processing
- * med-pharmacy pharmaceutical research
- * med-physics radiation oncology, diagnostic imaging, related fields
- * med-practice general practitioners
- * med-psychology psychological research
- * med-statistics miscellaneous tools medical for statistics
- * med-tools contains miscellaneous tools
- * med-typesetting depends from useful tools for typesetting
- .
- Note: All these packages are so called metapackages. This means they are not
- executable programs, but only links to other packages. This way you will
- conveniently get all the non-commercial medical software which is available
- for Debian GNU/Linux.
-
+ This package provides the basic infrastructure of all metapackages assembled
+ by the Debian Med team.
+ .
+ This metapackage provides common features shared between the different
+ metapackages of the project. Moreover it introduces a method to handle a
+ 'med' system users group using debconf.
+ .
+ The Debian Med Project include metapackages for different tasks, which are:
+ * applications for microbiological research and support for development of
+ biological applications
+ * cloud computing in microbiological research
+ * drug databases
+ * dental surgery practice
+ * epidemiology and medical statistics
+ * image processing and support for imaging application development
+ * pharmacological research
+ * radiation oncology, diagnostic imaging and related fields
+ * medical practice
+ * psychological research and practice
+ * rehabilitation
+ * typesetting and publishing
+ * miscellaneous tools
+ .
+ Each task is represented by a metapackage. Metapackages do not contain
+ executable programs, but rather dependencies from other packages. This way
+ you will conveniently get all free medical software which is available for
+ Debian by simply installing the relevant metapackage
Package: med-bio
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: abacas, acedb-other, acedb-other-belvu, acedb-other-dotter, adun.app, alien-hunter, altree, amap-align, ampliconnoise, autodock, autodock-vina, autogrid, ballview, bedtools, biomaj, blast2, bowtie, bowtie2, boxshade, bwa, cd-hit, clonalframe, clustalo, clustalw, clustalx, dialign, dialign-tx, disulfinder, dotur, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fastx-toolkit, ffindex, figtree, filo, gamgi, garlic, gassst, gbrowse, gdpc, gff2aplot, gff2ps, ghemical, glam2, grinder, gromacs, hhsuite, hmmer, infernal, jalview, jellyfish, jmol, kalign, last-align, librg-utils-perl, loki, mafft, maq, maqview, massxpert, melting, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-blast+, ncbi-epcr, ncbi-tools-bin, ncbi-tools-x11, ncoils, njplot, perlprimer, phyml, picard-tools, plasmidomics, plink, poa, populations, primer3, probalign, probcons, proda, profnet-bval, profnet-chop, profnet-con, profnet-isis, profnet-md, profnet-norsnet, profnet-prof, profnet-snapfun, profphd, profphd-net, profphd-utils, proftmb, pymol, pynast, python-cogent, qiime, r-bioc-cummerbund, r-bioc-hilbertvis, r-cran-qtl, r-other-bio3d, r-other-mott-happy, rasmol, raster3d, raxml, readseq, reprof, rnahybrid, samtools, sibsim4, sigma-align, sim4, squizz, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tm-align, transtermhp, tree-puzzle | tree-ppuzzle, treeviewx, vcftools, velvet, wise
-Suggests: abyss, act, agdbnet, amos-assembler, amoscmp, anfo, apollo, arachne, arb, artemis, asap, augustus, autodocktools, axparafit, axpcoords, bagphenotype, bambus, beads, beast-mcmc, big-blast, bio-mauve, blimps-utils, blixem, btk-core, cactus, caftools, cain, cap3, cdna-db, chado, cinema, circos, clonalorigin, clustalw-mpi, cluster3, cmap, coalesce, codonw, compclust, contralign, coot, copycat, crossbow, cufflinks, cytoscape, das-proserver, dazzle, decipher, e-hive, ecell, eigensoft, elph, embassy-phylip, emboss-explorer, emboss-kaptain, ensembl, est-db, estferret, estscan, exalt, excavator, fas, fasta, fasttree, figaro, finex, fluctuate, forester, forge, galaxy, gbioseq, gbrowse-syn, genemark, genesplicer, genetrack, genezilla, genographer, gentle, glimmerhmm, gmap, gmv, grogui, haploview, hawkeye, hexamer, hilbertvisgui, igv, jbrowse, jigsaw, jstreeview, jtreeview, kempbasu, lagan, lamarc, logomat-m, lucy, mage2tab, maker2, martj, maude, mauvealigner, maxd, melting-gui, meme, mesquite, metarep, microbiomeutil, migrate, minimus, mirbase, mobyle, molekel, molphy, mozilla-biofox, msatfinder, mugsy, mummergpu, murasaki, mview, neobio, ngila, obo-edit, oligoarrayaux, omegamap, operondb, pal2nal, paml, partigene, patman, pcma, pdb2pqr, pfaat, pftools, phagefinder, phpphylotree, phy-spread, phylip, phylographer, phylowin, plato, prank, proalign, profit, prot4est, pyrophosphate-tools, python-orange, python-rdkit, python-reaper, qtlcart, r-ape, r-other-genabel, r-other-valdar-bagphenotype.library, raccoon, ray-denovoassembler, rbs-finder, rdp-classifier, recombine, repeatfinder, repeatmasker, reputer, rmblast, roche454ace2caf, rose, rosetta, sap, seaview, seq-gen, seqan-apps, sequenceconverter.app, sift, smalt, snap, soapdenovo, spice, splitstree, sra-sdk, ssaha, strap, tacg, taverna, taxinspector, tetra, tigr-assembler, tophat, trace2dbest, tracetuner, treebuilder3d, treeplot, treetime, treevolve, trf, tripal, trnascan-se, twain, ugene, uniprime, vegan, vienna-rna, vmd, wgs-assembler, x-tandem-pipeline, zodiac
+Recommends: abacas, acedb-other, acedb-other-belvu, acedb-other-dotter, adun.app, alien-hunter, altree, amap-align, ampliconnoise, autodock, autodock-vina, autogrid, ballview, bedtools, biomaj, blast2, bowtie, bowtie2, boxshade, bwa, cd-hit, clonalframe, clustalo, clustalw, clustalx, dialign, dialign-tx, disulfinder, dotur, dssp, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fasttree, fastx-toolkit, ffindex, figtree, filo, gamgi, garlic, gbrowse, gdpc, gentle, gff2aplot, gff2ps, ghemical, glam2, grinder, gromacs, hhsuite, hmmer, infernal, jalview, jellyfish, jmol, kalign, last-align, librg-utils-perl, loki, mafft, maq, maqview, massxpert, melting, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-blast+, ncbi-epcr, ncbi-tools-bin, ncbi-tools-x11, ncoils, neobio, njplot, perlprimer, phyml, picard-tools, plasmidomics, plink, poa, populations, primer3, probalign, probcons, proda, profnet-bval, profnet-chop, profnet-con, profnet-isis, profnet-md, profnet-norsnet, profnet-prof, profnet-snapfun, profphd, profphd-net, profphd-utils, proftmb, pymol, pynast, python-cogent, qiime, r-bioc-cummerbund, r-bioc-hilbertvis, r-cran-genabel, r-cran-qtl, r-other-bio3d, r-other-mott-happy, rasmol, raster3d, raxml, readseq, reprof, rnahybrid, samtools, sibsim4, sigma-align, sim4, squizz, sra-toolkit, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tm-align, transtermhp, tree-puzzle | tree-ppuzzle, treeviewx, vcftools, velvet, wise
+Suggests: abyss, act, agdbnet, amos-assembler, amoscmp, anfo, apollo, arachne, arb, artemis, asap, augustus, autodocktools, axparafit, axpcoords, bagphenotype, bambus, beads, beast-mcmc, big-blast, blimps-utils, blixem, btk-core, cactus, caftools, cain, cap3, cdna-db, cinema, circos, clonalorigin, clustalw-mpi, cluster3, cmap, coalesce, codonw, compclust, concavity, conservation-code, contralign, coot, copycat, crossbow, cufflinks, cytoscape, das-proserver, dazzle, decipher, e-hive, ecell, edtsurf, eigensoft, elph, embassy-phylip, emboss-explorer, ensembl, est-db, estferret, estscan, exalt, excavator, fas, fasta, figaro, finex, fluctuate, forester, forge, galaxy, gassst, gbioseq, gbrowse-syn, genemark, genesplicer, genetrack, genezilla, genographer, genometools, glimmerhmm, gmap, gmv, grogui, haploview, hawkeye, hexamer, hilbertvisgui, hmmer2, igv, jbrowse, jigsaw, jstreeview, kempbasu, lagan, lamarc, logol-bin, logomat-m, ltrsift, lucy, mage2tab, maker2, martj, maude, mauvealigner, maxd, melting-gui, meme, mesquite, metarep, microbiomeutil, migrate, minimus, mirbase, mobyle, molekel, mosaik-aligner, mozilla-biofox, mpsqed, msatfinder, mugsy, mummergpu, murasaki, mview, ncbi-seg, ngila, norsnet, norsp, nw-align, obo-edit, oligoarrayaux, omegamap, operondb, pal2nal, paml, partigene, patman, patristic, pcma, pdb2pqr, pfaat, pftools, phagefinder, phpphylotree, phy-spread, phylip, phylographer, phylowin, plato, prank, predictnls, predictprotein, proalign, profbval, profisis, profit, prot4est, pscan-tfbs, pyrophosphate-tools, python-orange, python-rdkit, python-reaper, qtlcart, r-ape, r-other-valdar-bagphenotype.library, raccoon, ray-denovoassembler, rbs-finder, rdp-classifier, recombine, repeatmasker, rmblast, roche454ace2caf, rose, rosetta, sap, seaview, seq-gen, seqan-apps, sequenceconverter.app, sift, smalt, snap, soapdenovo, spice, splitstree, sra-sdk, ssaha, strap, tacg, taverna, taxinspector, tetra, tigr-assembler, tigr-glimmer-mg, tophat, trace2dbest, tracetuner, treebuilder3d, treetime, treeview, tripal, trnascan-se, twain, ugene, uniprime, vegan, vienna-rna, vmd, wgs-assembler, x-tandem-pipeline, zalign, zodiac-zeden
Description: Debian Med micro-biology packages
This metapackage will install Debian packages related to molecular biology,
structural biology and bioinformatics for use in life sciences.
@@ -69,8 +66,8 @@
Package: med-bio-dev
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: bioperl, bioperl-run, biosquid, libace-perl, libbio-graphics-perl, libbio-mage-perl, libbio-mage-utils-perl, libbio-primerdesigner-perl, libbiococoa-dev, libbiojava-java, libchado-perl, libffindex0-dev, libgenome-1.3-0-dev, libgo-perl, libjebl2-java, libncbi6-dev, libpal-java, librg-reprof-bundle-perl, librostlab-blast-doc, librostlab-blast0-dev, librostlab-doc, librostlab3-dev, libsrf-dev, libstaden-read-dev, libtfbs-perl, libvibrant6-dev, libzerg-perl, libzerg0-dev, mcl, python-biopython, python-cogent, r-bioc-biobase, r-cran-genetics, r-cran-haplo.stats, ruby-bio, seqan-dev
-Suggests: bioclipse, biostrings, iranges, libajax6-dev, libbio-das-perl, libgbfp-dev, libgff-perl, libmems-1.5-1, libnucleus6-dev, libqsearch-dev, librg-blast-parser-perl, libsbml5-dev, octave-bioinfo, pysam, python-mmtk, r-cran-rocr
+Recommends: bioperl, bioperl-run, biosquid, libace-perl, libai-fann-perl, libbio-graphics-perl, libbio-mage-perl, libbio-mage-utils-perl, libbio-primerdesigner-perl, libbiococoa-dev, libbiojava-java, libbiojava3-java, libchado-perl, libffindex0-dev, libgenome-1.3-0-dev, libgo-perl, libhmsbeagle-dev, libjebl2-java, libncbi6-dev, libpal-java, librg-blast-parser-perl, librg-reprof-bundle-perl, librostlab-blast-doc, librostlab-blast0-dev, librostlab-doc, librostlab3-dev, libsort-key-top-perl, libsrf-dev, libstaden-read-dev, libtfbs-perl, libvibrant6-dev, libzerg-perl, libzerg0-dev, mcl, python-biopython, python-cogent, r-bioc-biobase, r-cran-genetics, r-cran-haplo.stats, ruby-bio, seqan-dev
+Suggests: bioclipse, biostrings, iranges, libbio-das-perl, libforester-java, libgbfp-dev, libgenometools0-dev, libgff-perl, libmems-1.5-1, libnhgri-blastall-perl, libopenmm4-dev, libqsearch-dev, librcsb-core-wrapper0-dev, libsbml5-dev, octace-bioinfo, octave-bioinfo, pysam, python-biom-format, python-librcsb-core-wrapper, python-mmtk, r-bioc-biocgenerics, r-cran-rocr
Description: Debian Med packages for development of micro-biology applications
This metapackage will install Debian packages which might be helpful
for development of applications for micro-biological research.
@@ -89,18 +86,18 @@
Package: med-data
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: python-hl7
-Suggests: drugref.org, freediams
+Recommends: freediams, freemedforms-freedata, python-hl7
+Suggests: drugref.org
Description: Debian Med drug databases
- There is at least one free medical drug database packaged for Debian
- which can be installed using this metapackage. It is supported by the
- GNUmed Electronic Medical Record package.
+ This metapackage will install free drug databases and related
+ applications. The database can be accessed by any EMR using
+ the application.
Package: med-dental
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
Recommends: imagetooth
-Suggests: openmolar
+Suggests: entangle, openmolar
Description: Debian Med packages related to dental practice
This metapackage contains dependencies for a collection of software
which might be helpful for dentists to manage their practice.
@@ -120,8 +117,8 @@
Package: med-imaging
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: aeskulap, amide, biosig-tools, caret, ctn, ctsim, dcmtk, dicom3tools, dicomnifti, dicomscope, ginkgocadx, gofigure2, gwyddion, imagej, imagevis3d, itksnap, libgdcm-tools, medcon, minc-tools, mriconvert, mricron, mrtrix, nifti-bin, odin, openmeeg-tools, openslide-tools, pixelmed-java, plastimatch, python-dipy, python-mvpa, python-nifti, python-nipy, python-nipype, python-nitime, sigviewer, sofa-apps, tifffile, via-bin, volview, voxbo, xmedcon
-Suggests: afni, ants, bioimagesuite, bioimagexd, blox, brainvisa, cdmedicpacs, cellprofiler, cmtk, connectomeviewer, conquest-dicom-server, dcm4che, dcm4chee, devide, dicom4j, dicoogle, drjekyll, dti-query, dtitk, ecg2png, eeglab, elastix, fiji, freesurfer, fsl, fslview, gimias, hid, imagemagick, imview, insightapplications, invesalius, isis, jemris, jist, kradview, libvista2, lipsia, maris, mayam, medisnap, mesa-test-tools, micromanager, mipav, miview, mni-autoreg, mni-colin27-nifti, mni-icbm152-nlin-2009, mni-n3, mrisim, omero, opendicom.net, openelectrophy, opensourcepacs, openwalnut, piano, pngquant, pymeg, pysurfer, pyxid, slicer, stabilitycalc, stir, tempo, visit, vmtk, xnat
+Recommends: aeskulap, amide, ants, biosig-tools, caret, ctn, ctsim, dcmtk, dicom3tools, dicomnifti, dicomscope, ginkgocadx, gofigure2, gwyddion, imagej, imagevis3d, itksnap, king, libgdcm-tools, medcon, minc-tools, mriconvert, mricron, mrtrix, nifti-bin, odin, openmeeg-tools, openslide-tools, pixelmed-java, plastimatch, python-dipy, python-mvpa, python-nifti, python-nipy, python-nipype, python-nitime, sigviewer, sofa-apps, tifffile, via-bin, volview, voxbo, xmedcon
+Suggests: afni, bioimagesuite, bioimagexd, blox, brainvisa, camitk-imp, cdmedicpacs, cellprofiler, cmtk, connectomeviewer, conquest-dicom-server, crea, dcm4chee, devide, dicom4j, dicoogle, drjekyll, dti-query, dtitk, ecg2png, eeglab, elastix, fiji, freesurfer, fsl, fslview, gimias, hid, imagemagick, imview, incf-nidash-oneclick-clients, insightapplications, invesalius, isis, jemris, jist, kradview, libdcm4che-java, libvista2, lipsia, maris, mayam, medisnap, mesa-test-tools, micromanager, mipav, miview, mni-autoreg, mni-colin27-nifti, mni-icbm152-nlin-2009, mni-n3, mrisim, omero, opendicom.net, openelectrophy, opensourcepacs, openwalnut, orthanc, paraview, piano, pngquant, pymeg, pysurfer, pyxid, slicer, stabilitycalc, stir, tempo, visit, vmtk, xnat
Description: Debian Med imaging packages
This metapackage will install Debian packages which might be useful in
medical image processing.
@@ -144,8 +141,8 @@
Package: med-imaging-dev
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: cimg-dev, ctn-dev, gmic, libbiosig-dev, libcv-dev, libgdcm2-dev, libgdf-dev, libgiftiio-dev, libigstk4-dev, libinsighttoolkit3-dev, libmdc2-dev, libminc-dev, libnifti-dev, libopenmeeg-dev, libopenslide-dev, libteem1-dev, libvia-dev, libvolpack1-dev, libvxl1-dev, odin, python-cfflib, python-dicom, python-dipy, python-gdcm, python-mvpa, python-nibabel, python-nipy, python-nipype, python-nitime, python-pyxnat
-Suggests: emokit, igstk-examples, insighttoolkit3-examples, libactiviz.net5.6-cil, libbio-formats-java, libctkcore0-dev, libeegdev-dev, libmni-perllib-perl, libnifti-doc, libopenslide-java, libvista2-dev, libvtk5.4, libxdffileio-dev, python-libavg, python-openslide
+Recommends: cimg-dev, ctn-dev, gmic, libactiviz.net-cil, libbiosig-dev, libcv-dev, libgdcm2-dev, libgdf-dev, libgiftiio-dev, libigstk4-dev, libinsighttoolkit3-dev, libmdc2-dev, libminc-dev, libnifti-dev, libopenmeeg-dev, libopenslide-dev, libvia-dev, libvolpack1-dev, libvtk5-dev, libvxl1-dev, odin, python-cfflib, python-dicom, python-dipy, python-gdcm, python-mvpa, python-nibabel, python-nipy, python-nipype, python-nitime, python-pyxnat
+Suggests: emokit, igstk-examples, insighttoolkit3-examples, libbio-formats-java, libcamitk3-dev, libctkcore0-dev, libeegdev-dev, libmni-perllib-perl, libnifti-doc, libopenslide-java, libteem1-dev, libvista2-dev, libvtk5.4, libxdffileio-dev, octave-dicom, python-libavg, python-openslide
Description: Debian Med packages for medical image development
This metapackage will install Debian packages which might be useful
for developing applications for medical image processing.
@@ -159,7 +156,7 @@
This metapackage will install tools that are useful for radiation
oncology.
-Package: med-pharmacy
+Package: med-pharma
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
Recommends: chemtool
@@ -183,8 +180,8 @@
Package: med-practice
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: clinica, ginkgocadx, gnumed-client, gnumed-server, libchipcard-tools, r-cran-medadherence
-Suggests: clearhealth, elementalclinic, elexis, freeb, freediams, freeicd, freemed, freemedforms, freeshim, libctapimkt0, medintux, mirrormed, mirth, openemr, openpms, openrep, proteus, qrisk2, remitt, resmedicinae, sqlclinic, thera-pi, tinyheb
+Recommends: clinica, freediams, freemedforms-emr, ginkgocadx, gnumed-client, gnumed-server, libchipcard-tools, r-cran-medadherence
+Suggests: clearhealth, elementalclinic, elexis, entangle, freeb, freeicd, freemed, freeshim, libctapimkt0, medintux, mirrormed, mirth, openemr, openpms, openrep, proteus, qrisk2, remitt, resmedicinae, sqlclinic, thera-pi, tinyheb
Description: Debian Med packages for practice management
This metapackage contains dependencies for a collection of software
which might be helpful for practitioners to manage their practice.
@@ -201,8 +198,8 @@
Package: med-rehabilitation
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: sitplus
-Suggests: aghermann
+Recommends:
+Suggests: aghermann, sitplus
Description: Debian Med packages for rehabilitation technologies
This metapackage will install tools that are useful for
rehabilitation and therapy.
@@ -210,7 +207,7 @@
Package: med-statistics
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: r-bioc-edger, r-bioc-limma, r-cran-pvclust, r-cran-qvalue, r-cran-randomforest
+Recommends: r-bioc-edger, r-bioc-limma, r-bioc-qvalue, r-cran-pvclust, r-cran-randomforest
Suggests: r-cran-beeswarm, science-statistics
Description: Debian Med statistics
This metapackage will install packages which are helpful to do statistics
@@ -220,7 +217,7 @@
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
Recommends: edfbrowser, hunspell-de-med, pcalendar, pondus, quitcount, wgerman-medical, workrave
-Suggests: cl-pubmed, cycle, hunspell-en-med, mencal, mssstest, python-clips
+Suggests: cl-pubmed, cycle, entangle, hunspell-en-med, mencal, mssstest, python-clips
Description: Debian Med several tools
This metapackage will install tools for several purposes in health care.
Currently it contains some simple programs for Personal Health.
@@ -228,8 +225,8 @@
Package: med-typesetting
Architecture: all
Depends: med-tasks (= ${binary:Version}), med-config (= ${binary:Version})
-Recommends: texlive-latex-extra, texlive-science
-Suggests: bibus, jabref-plugin-oo, kbibtex, referencer
+Recommends: king, texlive-latex-extra, texlive-science
+Suggests: biber, bibus, jabref-plugin-oo, kbibtex, referencer
Description: Debian Med support for typesetting and publishing
This metapackage will install Debian packages that might be helpful
for typesetting and publishing in medical care and structural
Added: projects/med/trunk/debian-med/debian/med-bio.lintian-overrides
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian/med-bio.lintian-overrides?rev=3633&op=file
==============================================================================
--- projects/med/trunk/debian-med/debian/med-bio.lintian-overrides (added)
+++ projects/med/trunk/debian-med/debian/med-bio.lintian-overrides Mon Nov 5 15:37:00 2012
@@ -1,0 +1,3 @@
+# The *.html files are just simple helpers for the user menu entries and
+# should not be used in doc-base-registration
+med-bio: possible-documentation-but-no-doc-base-registration
Added: projects/med/trunk/debian-med/debian/med-epi.lintian-overrides
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian/med-epi.lintian-overrides?rev=3633&op=file
==============================================================================
--- projects/med/trunk/debian-med/debian/med-epi.lintian-overrides (added)
+++ projects/med/trunk/debian-med/debian/med-epi.lintian-overrides Mon Nov 5 15:37:00 2012
@@ -1,0 +1,3 @@
+# The link inside the description is no homepage replacement but rather a reference
+# for more detailed information about the topic
+med-epi: description-possibly-contains-homepage http://staff.pubhealth.ku.dk/%7Ebxc/Epi/R-intro.pdf
Added: projects/med/trunk/debian-med/debian/med-imaging.lintian-overrides
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian/med-imaging.lintian-overrides?rev=3633&op=file
==============================================================================
--- projects/med/trunk/debian-med/debian/med-imaging.lintian-overrides (added)
+++ projects/med/trunk/debian-med/debian/med-imaging.lintian-overrides Mon Nov 5 15:37:00 2012
@@ -1,0 +1,3 @@
+# The link inside the description is no homepage replacement but rather a reference
+# for more detailed information about the topic
+med-imaging: description-possibly-contains-homepage http://medical.nema.org/
Added: projects/med/trunk/debian-med/debian/med-tasks.lintian-overrides
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/debian/med-tasks.lintian-overrides?rev=3633&op=file
==============================================================================
--- projects/med/trunk/debian-med/debian/med-tasks.lintian-overrides (added)
+++ projects/med/trunk/debian-med/debian/med-tasks.lintian-overrides Mon Nov 5 15:37:00 2012
@@ -1,0 +1,3 @@
+# The link inside the description is no homepage replacement but rather a reference
+# for more detailed information about the topic
+med-tasks: description-possibly-contains-homepage http://debian-med.alioth.debian.org/tasks/
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