Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
ff26718e by Andreas Tille at 2020-05-05T13:45:26+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,224 +1,217 @@
-Last-Update: Tue, 05 May 2020 01:42:03 +0000
+Last-Update: Tue, 05 May 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk | 171 | {covid-19,imaging} |
- orthanc | 91 | {practice,imaging,covid-19} |
+ dcmtk | 173 | {covid-19,imaging} |
+ orthanc | 89 | {practice,imaging,covid-19} |
gdcm | 44 | {imaging-dev} |
orthanc-wsi | 41 | {practice,covid-19,laboratory,imaging,oncology,his} |
- htsjdk | 34 | {bio-dev} |
+ dicomscope | 33 | {imaging} |
dicom3tools | 32 | {imaging} |
- dicomscope | 32 | {imaging} |
+ htsjdk | 32 | {bio-dev} |
gdcm | 25 | {imaging,covid-19} |
dcm2niix | 24 | {imaging} |
openslide | 19 | {imaging} |
+ king | 18 | {imaging,typesetting} |
pixelmed | 18 | {imaging} |
gnumed-server | 17 | {practice,covid-19} |
invesalius | 17 | {imaging} |
- king | 17 | {imaging,typesetting} |
minc-tools | 17 | {imaging} |
- ngs-sdk | 16 | {bio-dev} |
plastimatch | 16 | {imaging} |
+ ngs-sdk | 15 | {bio-dev} |
+ vtk-dicom | 15 | {imaging} |
biosig4c++ | 14 | {physics,imaging} |
- vtk-dicom | 14 | {imaging} |
- adun.app | 13 | {bio} |
- hunspell-en-med | 13 | {tools} |
+ adun.app | 12 | {bio} |
gdcm | 12 | {imaging-dev} |
+ hunspell-en-med | 12 | {tools} |
insighttoolkit4 | 11 | {imaging-dev} |
- jebl2 | 11 | {bio-dev} |
- biojava-live | 10 | {bio-dev} |
- obitools | 10 | {bio} |
+ obitools | 11 | {bio} |
+ jebl2 | 10 | {bio-dev} |
+ biojava-live | 9 | {bio-dev} |
gasic | 9 | {bio,cloud} |
- ncbi-entrez-direct | 9 | {bio} |
ngs-sdk | 9 | {bio-dev} |
parsnp | 9 | {bio} |
- tree-puzzle | 9 | {bio-phylogeny,cloud,bio} |
- librg-utils-perl | 8 | {bio} |
- melting | 8 | {bio,cloud} |
- mipe | 8 | {cloud,bio} |
- alter-sequence-alignment | 7 | {bio} |
- ampliconnoise | 7 | {cloud,bio} |
+ ncbi-entrez-direct | 8 | {bio} |
+ tree-puzzle | 8 | {bio-phylogeny,cloud,bio} |
cgview | 7 | {bio} |
ea-utils | 7 | {bio} |
- fastlink | 7 | {bio,cloud} |
fitgcp | 7 | {bio,cloud} |
- maqview | 7 | {bio} |
- arden | 6 | {bio,cloud} |
- dazzdb | 6 | {bio} |
- embassy-domainatrix | 6 | {cloud,bio} |
- embassy-domalign | 6 | {cloud,bio} |
- embassy-domsearch | 6 | {cloud,bio} |
- indelible | 6 | {bio} |
- jaligner | 6 | {bio} |
- ncbi-seg | 6 | {bio} |
- neobio | 6 | {bio,cloud} |
- norsp | 6 | {bio} |
+ librg-utils-perl | 7 | {bio} |
+ mipe | 7 | {cloud,bio} |
+ alter-sequence-alignment | 6 | {bio} |
+ fastlink | 6 | {bio,cloud} |
+ melting | 6 | {bio,cloud} |
orthanc-webviewer | 6 | {imaging} |
- piler | 6 | {bio} |
+ psychopy | 6 | {psychology} |
pymia | 6 | {imaging-dev} |
- radiant | 6 | {bio} |
rambo-k | 6 | {bio} |
- salmon | 6 | {bio} |
- seer | 6 | {bio} |
- sibsim4 | 6 | {bio,cloud} |
- sigma-align | 6 | {bio-phylogeny,cloud,bio} |
- spread-phy | 6 | {bio,bio-phylogeny} |
- squizz | 6 | {bio,cloud} |
- stacks | 6 | {bio} |
- staden | 6 | {bio} |
- zalign | 6 | {cloud,bio} |
- anfo | 5 | {cloud,bio} |
- beast-mcmc | 5 | {bio,bio-phylogeny} |
- biomaj3-cli | 5 | {cloud} |
- bio-rainbow | 5 | {bio} |
- bio-tradis | 5 | {bio-dev,bio} |
- bppsuite | 5 | {bio} |
+ ampliconnoise | 5 | {cloud,bio} |
+ arden | 5 | {bio,cloud} |
+ bart-view | 5 | {imaging} |
cluster3 | 5 | {bio} |
- codonw | 5 | {bio} |
- ecopcr | 5 | {bio} |
- edtsurf | 5 | {bio} |
- freecontact | 5 | {bio,cloud} |
- jellyfish1 | 5 | {bio} |
+ dazzdb | 5 | {bio} |
+ indelible | 5 | {bio} |
+ jaligner | 5 | {bio} |
king-probe | 5 | {bio} |
libminc | 5 | {imaging-dev} |
libsbml | 5 | {bio-dev} |
- mapsembler2 | 5 | {cloud,bio} |
+ maqview | 5 | {bio} |
mhap | 5 | {bio-ngs,bio} |
- microbegps | 5 | {bio} |
mrs | 5 | {bio} |
+ ncbi-seg | 5 | {bio} |
+ norsp | 5 | {bio} |
orthanc-dicomweb | 5 | {covid-19,imaging} |
orthanc-mysql | 5 | {imaging} |
- paraclu | 5 | {cloud,bio} |
- phast | 5 | {bio} |
- phybin | 5 | {bio} |
- phyutility | 5 | {cloud,bio} |
- predictprotein | 5 | {bio} |
- prime-phylo | 5 | {bio,cloud} |
- probabel | 5 | {cloud,bio} |
+ piler | 5 | {bio} |
pscan-tfbs | 5 | {bio} |
- rdp-alignment | 5 | {bio} |
- rdp-readseq | 5 | {bio} |
- saint | 5 | {bio} |
- scythe | 5 | {bio} |
- sickle | 5 | {bio} |
- transrate-tools | 5 | {bio} |
- transtermhp | 5 | {bio} |
- treeview | 5 | {bio-phylogeny,bio} |
- abacas | 4 | {bio,covid-19} |
- bart-view | 4 | {imaging} |
- beads | 4 | {bio} |
- biomaj3-daemon | 4 | {bio} |
- bitseq | 4 | {bio} |
+ radiant | 5 | {bio} |
+ salmon | 5 | {bio} |
+ seer | 5 | {bio} |
+ sibsim4 | 5 | {bio,cloud} |
+ sigma-align | 5 | {bio-phylogeny,cloud,bio} |
+ spread-phy | 5 | {bio,bio-phylogeny} |
+ stacks | 5 | {bio} |
+ staden | 5 | {bio} |
+ zalign | 5 | {cloud,bio} |
+ anfo | 4 | {cloud,bio} |
+ beast-mcmc | 4 | {bio,bio-phylogeny} |
+ biomaj3-cli | 4 | {cloud} |
+ bio-rainbow | 4 | {bio} |
+ bio-tradis | 4 | {bio-dev,bio} |
+ bppsuite | 4 | {bio} |
brig | 4 | {bio} |
- centrifuge | 4 | {bio} |
- clonalorigin | 4 | {bio} |
- daligner | 4 | {bio,bio-ngs} |
- delly | 4 | {bio,covid-19} |
- freebayes | 4 | {bio} |
- gatb-core | 4 | {bio} |
- harvest-tools | 4 | {bio} |
- ipig | 4 | {bio} |
- jmodeltest | 4 | {bio,bio-phylogeny} |
- lagan | 4 | {bio} |
- libncl | 4 | {bio} |
- libpal-java | 4 | {bio-dev} |
- librdp-taxonomy-tree-java | 4 | {bio-dev} |
- libsmithwaterman | 4 | {bio} |
- mauve-aligner | 4 | {bio} |
+ codonw | 4 | {bio} |
+ ecopcr | 4 | {bio} |
+ edtsurf | 4 | {bio} |
+ embassy-domainatrix | 4 | {cloud,bio} |
+ embassy-domalign | 4 | {cloud,bio} |
+ embassy-domsearch | 4 | {cloud,bio} |
+ freecontact | 4 | {bio,cloud} |
+ jellyfish1 | 4 | {bio} |
+ mapsembler2 | 4 | {cloud,bio} |
+ microbegps | 4 | {bio} |
+ neobio | 4 | {bio,cloud} |
nutsqlite | 4 | {tools} |
- paml | 4 | {bio} |
- perm | 4 | {cloud,bio} |
- placnet | 4 | {bio} |
+ paraclu | 4 | {cloud,bio} |
+ phast | 4 | {bio} |
+ phybin | 4 | {bio} |
+ phyutility | 4 | {cloud,bio} |
poretools | 4 | {bio} |
- proalign | 4 | {bio,bio-phylogeny} |
- prottest | 4 | {bio-phylogeny,bio} |
- psychopy | 4 | {psychology} |
- rdp-classifier | 4 | {bio} |
- relion | 4 | {bio} |
- repeatmasker-recon | 4 | {bio} |
- roguenarok | 4 | {bio} |
- seqsero | 4 | {bio} |
- seqtools | 4 | {bio} |
- sga | 4 | {bio} |
- soapaligner | 4 | {bio} |
- soapsnp | 4 | {bio} |
- tnseq-transit | 4 | {covid-19,bio} |
- assemblytics | 3 | {bio} |
- baitfisher | 3 | {bio} |
- bandage | 3 | {bio} |
- beast2-mcmc | 3 | {bio} |
- canu | 3 | {bio} |
- clonalframeml | 3 | {covid-19,bio} |
- dascrubber | 3 | {bio} |
+ predictprotein | 4 | {bio} |
+ prime-phylo | 4 | {bio,cloud} |
+ probabel | 4 | {cloud,bio} |
+ rdp-alignment | 4 | {bio} |
+ rdp-readseq | 4 | {bio} |
+ saint | 4 | {bio} |
+ scythe | 4 | {bio} |
+ sickle | 4 | {bio} |
+ squizz | 4 | {bio,cloud} |
+ transrate-tools | 4 | {bio} |
+ transtermhp | 4 | {bio} |
+ treeview | 4 | {bio-phylogeny,bio} |
+ abacas | 3 | {bio,covid-19} |
+ beads | 3 | {bio} |
+ biomaj3-daemon | 3 | {bio} |
+ bitseq | 3 | {bio} |
+ centrifuge | 3 | {bio} |
+ clonalorigin | 3 | {bio} |
+ daligner | 3 | {bio,bio-ngs} |
+ delly | 3 | {bio,covid-19} |
dicompyler | 3 | {oncology} |
- dindel | 3 | {bio} |
- dwgsim | 3 | {bio} |
elastix | 3 | {imaging} |
- estscan | 3 | {bio} |
- fastml | 3 | {bio} |
- fsm-lite | 3 | {bio} |
- kma | 3 | {bio} |
- kmerresistance | 3 | {bio} |
- lamarc | 3 | {bio} |
+ freebayes | 3 | {bio} |
+ gatb-core | 3 | {bio} |
+ harvest-tools | 3 | {bio} |
+ ipig | 3 | {bio} |
+ jmodeltest | 3 | {bio,bio-phylogeny} |
+ lagan | 3 | {bio} |
libdivsufsort | 3 | {bio-dev} |
libgff | 3 | {bio-dev} |
- maffilter | 3 | {bio} |
- metaphlan2 | 3 | {bio} |
- mlv-smile | 3 | {bio,cloud} |
- mptp | 3 | {bio} |
- murasaki | 3 | {bio} |
+ libncl | 3 | {bio} |
+ libpal-java | 3 | {bio-dev} |
+ librdp-taxonomy-tree-java | 3 | {bio-dev} |
+ libsmithwaterman | 3 | {bio} |
+ mauve-aligner | 3 | {bio} |
orthanc-postgresql | 3 | {imaging} |
- patman | 3 | {bio} |
- pilon | 3 | {bio} |
- pscan-chip | 3 | {bio} |
- qcumber | 3 | {bio} |
+ paml | 3 | {bio} |
+ perm | 3 | {cloud,bio} |
+ placnet | 3 | {bio} |
+ proalign | 3 | {bio,bio-phylogeny} |
+ prottest | 3 | {bio-phylogeny,bio} |
qrisk2 | 3 | {practice} |
- quorum | 3 | {bio} |
- rtax | 3 | {cloud,bio} |
- runcircos-gui | 3 | {bio} |
- scrm | 3 | {bio} |
- segemehl | 3 | {bio} |
- seqmagick | 3 | {bio,covid-19} |
- snap-aligner | 3 | {bio} |
- spaced | 3 | {bio} |
- sprai | 3 | {bio} |
+ rdp-classifier | 3 | {bio} |
+ relion | 3 | {bio} |
+ repeatmasker-recon | 3 | {bio} |
+ roguenarok | 3 | {bio} |
+ seqsero | 3 | {bio} |
+ seqtools | 3 | {bio} |
+ sga | 3 | {bio} |
+ soapaligner | 3 | {bio} |
+ soapsnp | 3 | {bio} |
srf | 3 | {bio-dev} |
- suitename | 3 | {bio} |
- surankco | 3 | {bio} |
- tracetuner | 3 | {bio} |
- velvetoptimiser | 3 | {bio} |
- vsearch | 3 | {bio} |
- yaha | 3 | {bio} |
+ tnseq-transit | 3 | {covid-19,bio} |
+ assemblytics | 2 | {bio} |
+ baitfisher | 2 | {bio} |
+ bandage | 2 | {bio} |
+ beast2-mcmc | 2 | {bio} |
biosig4c++ | 2 | {physics,imaging-dev} |
+ canu | 2 | {bio} |
+ clonalframeml | 2 | {covid-19,bio} |
ctn | 2 | {imaging-dev} |
- cufflinks | 2 | {cloud,bio} |
- elph | 2 | {bio} |
+ dascrubber | 2 | {bio} |
+ dindel | 2 | {bio} |
+ dwgsim | 2 | {bio} |
+ estscan | 2 | {bio} |
+ fastml | 2 | {bio} |
+ fsm-lite | 2 | {bio} |
getdata | 2 | {bio} |
- ghmm | 2 | {bio} |
- hinge | 2 | {bio} |
+ kma | 2 | {bio} |
+ kmerresistance | 2 | {bio} |
+ lamarc | 2 | {bio} |
+ libctapimkt | 2 | {practice} |
libvistaio | 2 | {imaging-dev} |
logol | 2 | {bio} |
+ maffilter | 2 | {bio} |
mencal | 2 | {tools} |
+ metaphlan2 | 2 | {bio} |
+ mlv-smile | 2 | {bio,cloud} |
+ mptp | 2 | {bio} |
+ murasaki | 2 | {bio} |
nanook | 2 | {bio} |
ngs-sdk | 2 | {bio-dev} |
+ patman | 2 | {bio} |
phipack | 2 | {bio} |
+ pilon | 2 | {bio} |
+ pscan-chip | 2 | {bio} |
python-scitrack | 2 | {covid-19} |
- rampler | 2 | {bio} |
- samblaster | 2 | {covid-19,bio} |
- skesa | 2 | {bio} |
- stringtie | 2 | {bio,covid-19} |
- sweed | 2 | {bio} |
- tvc | 2 | {bio} |
- varscan | 2 | {bio,covid-19} |
+ qcumber | 2 | {bio} |
+ quorum | 2 | {bio} |
+ rtax | 2 | {cloud,bio} |
+ runcircos-gui | 2 | {bio} |
+ scrm | 2 | {bio} |
+ segemehl | 2 | {bio} |
+ seqmagick | 2 | {bio,covid-19} |
+ snap-aligner | 2 | {bio} |
+ spaced | 2 | {bio} |
+ sprai | 2 | {bio} |
+ suitename | 2 | {bio} |
+ surankco | 2 | {bio} |
+ tracetuner | 2 | {bio} |
+ velvetoptimiser | 2 | {bio} |
+ vsearch | 2 | {bio} |
+ yaha | 2 | {bio} |
atropos | 1 | {bio} |
biobambam2 | 1 | {covid-19,bio-dev,bio} |
blasr | 1 | {bio-ngs,bio} |
blimps | 1 | {bio} |
+ cufflinks | 1 | {cloud,bio} |
+ elph | 1 | {bio} |
embassy-phylip | 1 | {cloud,bio} |
emboss-explorer | 1 | {bio} |
+ ghmm | 1 | {bio} |
+ hinge | 1 | {bio} |
libbio-mage-utils-perl | 1 | {bio-dev} |
libchado-perl | 1 | {bio-dev} |
- libctapimkt | 1 | {practice} |
libmialm | 1 | {imaging-dev} |
libsmithwaterman | 1 | {bio-dev} |
libxdf | 1 | {imaging-dev} |
@@ -227,17 +220,23 @@ Last-Update: Tue, 05 May 2020 01:42:03 +0000
oscar | 1 | {data,tools,practice} |
pal2nal | 1 | {bio} |
papyrus | 1 | {imaging-dev} |
- pilercr | 1 | {bio} |
plasmidseeker | 1 | {bio} |
python-py2bit | 1 | {bio,bio-dev} |
+ rampler | 1 | {bio} |
relion | 1 | {bio} |
+ samblaster | 1 | {covid-19,bio} |
samtools-legacy | 1 | {bio-dev} |
seqan | 1 | {bio-dev} |
sift | 1 | {bio} |
simpleitk | 1 | {imaging-dev} |
+ skesa | 1 | {bio} |
spaln | 1 | {covid-19,bio} |
+ stringtie | 1 | {bio,covid-19} |
+ sweed | 1 | {bio} |
trace2dbest | 1 | {bio} |
tree-puzzle | 1 | {cloud,bio,bio-phylogeny} |
+ tvc | 1 | {bio} |
+ varscan | 1 | {bio,covid-19} |
volpack | 1 | {imaging-dev} |
acedb | 0 | {bio,cloud} |
augur | 0 | {covid-19,bio} |
@@ -290,9 +289,10 @@ Last-Update: Tue, 05 May 2020 01:42:03 +0000
pbcopper | 0 | {bio-dev} |
pbdagcon | 0 | {bio} |
pbseqlib | 0 | {bio-dev} |
+ pilercr | 0 | {bio} |
pycoqc | 0 | {covid-19,bio} |
- relion | 0 | {bio} |
relion | 0 | {bio-dev} |
+ relion | 0 | {bio} |
sambamba | 0 | {bio} |
sbmltoolbox | 0 | {bio-dev} |
seq-gen | 0 | {bio} |
=====================================
outdated_med-packages.txt
=====================================
The diff for this file was not included because it is too large.
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/ff26718e32537bdc08431642158c7b23dbd52a9e
--
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