Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
07e5e93c by Andreas Tille at 2020-05-21T13:45:01+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,241 +1,242 @@
-Last-Update: Thu, 21 May 2020 01:42:03 +0000
+Last-Update: Thu, 21 May 2020 13:42:04 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
dcmtk | 191 | {covid-19,imaging} |
- orthanc | 100 | {practice,imaging,covid-19} |
+ orthanc | 100 | {covid-19,practice,imaging} |
gdcm | 52 | {imaging-dev} |
- orthanc-wsi | 48 | {imaging,oncology,his,practice,covid-19,laboratory} |
- dicom3tools | 31 | {imaging} |
- htsjdk | 31 | {bio-dev} |
- dicomscope | 30 | {imaging} |
- dcm2niix | 23 | {imaging} |
- gdcm | 19 | {imaging,covid-19} |
- minc-tools | 19 | {imaging} |
- pixelmed | 18 | {imaging} |
- gnumed-server | 17 | {covid-19,practice} |
+ orthanc-wsi | 48 | {his,practice,laboratory,oncology,imaging,covid-19} |
+ htsjdk | 32 | {bio-dev} |
+ dicom3tools | 29 | {imaging} |
+ dicomscope | 28 | {imaging} |
+ dcm2niix | 22 | {imaging} |
+ gdcm | 18 | {covid-19,imaging} |
+ minc-tools | 18 | {imaging} |
+ gnumed-server | 17 | {practice,covid-19} |
+ pixelmed | 17 | {imaging} |
insighttoolkit4 | 16 | {imaging-dev} |
+ adun.app | 15 | {bio} |
invesalius | 15 | {imaging} |
- plastimatch | 15 | {imaging} |
- adun.app | 14 | {bio} |
- openslide | 14 | {imaging} |
- vtk-dicom | 14 | {imaging} |
- king | 13 | {typesetting,imaging} |
- ngs-sdk | 13 | {bio-dev} |
- stacks | 13 | {bio} |
- biosig4c++ | 11 | {physics,imaging} |
- gdcm | 10 | {imaging-dev} |
- librg-utils-perl | 10 | {bio} |
- ngs-sdk | 10 | {bio-dev} |
- biojava-live | 9 | {bio-dev} |
- jebl2 | 9 | {bio-dev} |
- obitools | 9 | {bio} |
- ea-utils | 8 | {bio} |
- fastlink | 8 | {bio,cloud} |
- paml | 8 | {bio} |
- alter-sequence-alignment | 7 | {bio} |
+ ngs-sdk | 14 | {bio-dev} |
+ plastimatch | 14 | {imaging} |
+ stacks | 14 | {bio} |
+ openslide | 13 | {imaging} |
+ vtk-dicom | 13 | {imaging} |
+ king | 12 | {imaging,typesetting} |
+ gdcm | 11 | {imaging-dev} |
+ librg-utils-perl | 11 | {bio} |
+ biojava-live | 10 | {bio-dev} |
+ biosig4c++ | 10 | {imaging,physics} |
+ jebl2 | 10 | {bio-dev} |
+ obitools | 10 | {bio} |
+ ea-utils | 9 | {bio} |
+ fastlink | 9 | {cloud,bio} |
+ ngs-sdk | 9 | {bio-dev} |
+ paml | 9 | {bio} |
+ staden | 9 | {bio} |
+ alter-sequence-alignment | 8 | {bio} |
+ arden | 8 | {cloud,bio} |
+ indelible | 8 | {bio} |
+ maqview | 8 | {bio} |
+ melting | 8 | {cloud,bio} |
+ mipe | 8 | {bio,cloud} |
+ ncbi-seg | 8 | {bio} |
+ norsp | 8 | {bio} |
+ piler | 8 | {bio} |
+ abacas | 7 | {bio,covid-19} |
ampliconnoise | 7 | {bio,cloud} |
- arden | 7 | {cloud,bio} |
- indelible | 7 | {bio} |
- maqview | 7 | {bio} |
- melting | 7 | {bio,cloud} |
- mipe | 7 | {bio,cloud} |
- ncbi-seg | 7 | {bio} |
- norsp | 7 | {bio} |
+ anfo | 7 | {bio,cloud} |
+ biomaj3-cli | 7 | {cloud} |
+ bio-rainbow | 7 | {bio} |
+ bio-tradis | 7 | {bio-dev,bio} |
+ bppsuite | 7 | {bio} |
+ cgview | 7 | {bio} |
+ dazzdb | 7 | {bio} |
+ edtsurf | 7 | {bio} |
+ embassy-domainatrix | 7 | {cloud,bio} |
+ embassy-domalign | 7 | {cloud,bio} |
orthanc-webviewer | 7 | {imaging} |
- piler | 7 | {bio} |
- staden | 7 | {bio} |
- abacas | 6 | {covid-19,bio} |
- anfo | 6 | {cloud,bio} |
- biomaj3-cli | 6 | {cloud} |
- bio-rainbow | 6 | {bio} |
- bio-tradis | 6 | {bio,bio-dev} |
- bppsuite | 6 | {bio} |
- cgview | 6 | {bio} |
- dazzdb | 6 | {bio} |
- edtsurf | 6 | {bio} |
- embassy-domainatrix | 6 | {cloud,bio} |
- embassy-domalign | 6 | {cloud,bio} |
+ radiant | 7 | {bio} |
+ seer | 7 | {bio} |
+ sibsim4 | 7 | {bio,cloud} |
+ sigma-align | 7 | {cloud,bio-phylogeny,bio} |
+ transrate-tools | 7 | {bio} |
+ transtermhp | 7 | {bio} |
+ beast-mcmc | 6 | {bio,bio-phylogeny} |
+ bitseq | 6 | {bio} |
+ daligner | 6 | {bio,bio-ngs} |
+ ecopcr | 6 | {bio} |
+ embassy-domsearch | 6 | {cloud,bio} |
+ gasic | 6 | {bio,cloud} |
+ gatb-core | 6 | {bio} |
+ ipig | 6 | {bio} |
+ jellyfish1 | 6 | {bio} |
+ king-probe | 6 | {bio} |
libminc | 6 | {imaging-dev} |
+ mapsembler2 | 6 | {cloud,bio} |
+ neobio | 6 | {cloud,bio} |
orthanc-dicomweb | 6 | {imaging,covid-19} |
orthanc-mysql | 6 | {imaging} |
+ paraclu | 6 | {bio,cloud} |
+ phast | 6 | {bio} |
+ phyutility | 6 | {bio,cloud} |
+ predictprotein | 6 | {bio} |
+ probabel | 6 | {bio,cloud} |
psychopy | 6 | {psychology} |
pymia | 6 | {imaging-dev} |
- radiant | 6 | {bio} |
+ repeatmasker-recon | 6 | {bio} |
saint | 6 | {bio} |
- salmon | 6 | {covid-19,bio} |
- seer | 6 | {bio} |
- sibsim4 | 6 | {bio,cloud} |
- sigma-align | 6 | {bio-phylogeny,bio,cloud} |
- transrate-tools | 6 | {bio} |
- transtermhp | 6 | {bio} |
+ salmon | 6 | {bio,covid-19} |
+ seqtools | 6 | {bio} |
+ sickle | 6 | {bio} |
+ squizz | 6 | {cloud,bio} |
+ treeview | 6 | {bio,bio-phylogeny} |
+ zalign | 6 | {cloud,bio} |
+ assemblytics | 5 | {bio} |
+ baitfisher | 5 | {bio} |
+ bandage | 5 | {bio} |
bart-view | 5 | {imaging} |
- beast-mcmc | 5 | {bio,bio-phylogeny} |
- bitseq | 5 | {bio} |
+ beads | 5 | {bio} |
+ biomaj3-daemon | 5 | {bio} |
+ brig | 5 | {bio} |
+ clonalframeml | 5 | {bio,covid-19} |
cluster3 | 5 | {bio} |
- daligner | 5 | {bio,bio-ngs} |
- ecopcr | 5 | {bio} |
- embassy-domsearch | 5 | {cloud,bio} |
- gasic | 5 | {bio,cloud} |
- gatb-core | 5 | {bio} |
- ipig | 5 | {bio} |
- jellyfish1 | 5 | {bio} |
- king-probe | 5 | {bio} |
+ dascrubber | 5 | {bio} |
+ dindel | 5 | {bio} |
+ estscan | 5 | {bio} |
+ fastml | 5 | {bio} |
+ freebayes | 5 | {covid-19,bio} |
+ fsm-lite | 5 | {bio} |
+ harvest-tools | 5 | {bio} |
+ jmodeltest | 5 | {bio,bio-phylogeny} |
lagan | 5 | {bio} |
- mapsembler2 | 5 | {bio,cloud} |
+ libncl | 5 | {bio} |
+ libpal-java | 5 | {bio-dev} |
+ microbegps | 5 | {bio} |
mrs | 5 | {bio} |
- neobio | 5 | {cloud,bio} |
+ murasaki | 5 | {bio} |
nutsqlite | 5 | {tools} |
orthanc-postgresql | 5 | {imaging} |
- paraclu | 5 | {bio,cloud} |
- phast | 5 | {bio} |
- phyutility | 5 | {bio,cloud} |
- predictprotein | 5 | {bio} |
- probabel | 5 | {cloud,bio} |
+ perm | 5 | {bio,cloud} |
+ phybin | 5 | {bio} |
+ placnet | 5 | {bio} |
+ poretools | 5 | {bio} |
+ prime-phylo | 5 | {cloud,bio} |
+ proalign | 5 | {bio-phylogeny,bio} |
pscan-tfbs | 5 | {bio} |
- repeatmasker-recon | 5 | {bio} |
+ rambo-k | 5 | {bio} |
+ rdp-alignment | 5 | {bio} |
+ rdp-readseq | 5 | {bio} |
+ roguenarok | 5 | {bio} |
+ runcircos-gui | 5 | {bio} |
+ scythe | 5 | {bio} |
+ segemehl | 5 | {bio} |
seqtools | 5 | {bio} |
- sickle | 5 | {bio} |
- squizz | 5 | {cloud,bio} |
- treeview | 5 | {bio-phylogeny,bio} |
- zalign | 5 | {cloud,bio} |
- assemblytics | 4 | {bio} |
- baitfisher | 4 | {bio} |
- bandage | 4 | {bio} |
- beads | 4 | {bio} |
- biomaj3-daemon | 4 | {bio} |
- brig | 4 | {bio} |
- clonalframeml | 4 | {bio,covid-19} |
+ sga | 5 | {bio} |
+ snap-aligner | 5 | {bio} |
+ soapaligner | 5 | {bio} |
+ soapsnp | 5 | {bio} |
+ sprai | 5 | {bio} |
+ spread-phy | 5 | {bio,bio-phylogeny} |
+ beast2-mcmc | 4 | {bio} |
+ blasr | 4 | {bio-ngs,bio} |
+ canu | 4 | {bio} |
+ centrifuge | 4 | {bio,covid-19} |
clonalorigin | 4 | {bio} |
- dascrubber | 4 | {bio} |
+ delly | 4 | {bio,covid-19} |
dicompyler | 4 | {oncology} |
- dindel | 4 | {bio} |
+ dwgsim | 4 | {bio} |
elastix | 4 | {imaging} |
- estscan | 4 | {bio} |
- fastml | 4 | {bio} |
- freebayes | 4 | {covid-19,bio} |
- fsm-lite | 4 | {bio} |
- harvest-tools | 4 | {bio} |
+ elph | 4 | {bio} |
+ ghmm | 4 | {bio} |
+ hinge | 4 | {bio} |
jaligner | 4 | {bio} |
- jmodeltest | 4 | {bio,bio-phylogeny} |
+ lamarc | 4 | {bio} |
libdivsufsort | 4 | {bio-dev} |
libgff | 4 | {bio-dev} |
- libncl | 4 | {bio} |
- libpal-java | 4 | {bio-dev} |
+ librdp-taxonomy-tree-java | 4 | {bio-dev} |
libsbml | 4 | {bio-dev} |
- microbegps | 4 | {bio} |
- murasaki | 4 | {bio} |
- perm | 4 | {bio,cloud} |
- phybin | 4 | {bio} |
- placnet | 4 | {bio} |
- poretools | 4 | {bio} |
- prime-phylo | 4 | {bio,cloud} |
- proalign | 4 | {bio,bio-phylogeny} |
- rambo-k | 4 | {bio} |
- rdp-alignment | 4 | {bio} |
- rdp-readseq | 4 | {bio} |
- roguenarok | 4 | {bio} |
- runcircos-gui | 4 | {bio} |
- scythe | 4 | {bio} |
- segemehl | 4 | {bio} |
- seqtools | 4 | {bio} |
- sga | 4 | {bio} |
- snap-aligner | 4 | {bio} |
- soapaligner | 4 | {bio} |
- soapsnp | 4 | {bio} |
- sprai | 4 | {bio} |
- spread-phy | 4 | {bio,bio-phylogeny} |
- beast2-mcmc | 3 | {bio} |
- blasr | 3 | {bio-ngs,bio} |
- canu | 3 | {bio} |
- centrifuge | 3 | {bio,covid-19} |
- cufflinks | 3 | {bio,cloud} |
- delly | 3 | {covid-19,bio} |
- dwgsim | 3 | {bio} |
- elph | 3 | {bio} |
- ghmm | 3 | {bio} |
- hinge | 3 | {bio} |
- kma | 3 | {bio} |
- lamarc | 3 | {bio} |
- librdp-taxonomy-tree-java | 3 | {bio-dev} |
- libsmithwaterman | 3 | {bio} |
- maffilter | 3 | {bio} |
- mauve-aligner | 3 | {bio} |
+ libsmithwaterman | 4 | {bio} |
+ maffilter | 4 | {bio} |
+ mauve-aligner | 4 | {bio} |
+ mlv-smile | 4 | {bio,cloud} |
+ mptp | 4 | {bio} |
+ patman | 4 | {bio} |
+ phipack | 4 | {bio} |
+ prottest | 4 | {bio-phylogeny,bio} |
+ pscan-chip | 4 | {bio} |
+ qcumber | 4 | {bio} |
+ quorum | 4 | {bio} |
+ rdp-classifier | 4 | {bio} |
+ rtax | 4 | {cloud,bio} |
+ scrm | 4 | {bio} |
+ seqmagick | 4 | {bio,covid-19} |
+ seqsero | 4 | {bio} |
+ spaced | 4 | {bio} |
+ suitename | 4 | {bio} |
+ surankco | 4 | {bio} |
+ tnseq-transit | 4 | {covid-19,bio} |
+ tracetuner | 4 | {bio} |
+ velvetoptimiser | 4 | {bio} |
+ vsearch | 4 | {bio,covid-19} |
+ yaha | 4 | {bio} |
+ cufflinks | 3 | {cloud,bio} |
+ logol | 3 | {bio} |
+ metaphlan2 | 3 | {bio} |
mhap | 3 | {bio,bio-ngs} |
- mlv-smile | 3 | {cloud,bio} |
- mptp | 3 | {bio} |
- patman | 3 | {bio} |
- phipack | 3 | {bio} |
- prottest | 3 | {bio-phylogeny,bio} |
- pscan-chip | 3 | {bio} |
- qcumber | 3 | {bio} |
+ nanook | 3 | {bio} |
+ pal2nal | 3 | {bio} |
+ pbdagcon | 3 | {bio} |
+ pilon | 3 | {bio} |
+ plasmidseeker | 3 | {bio} |
qrisk2 | 3 | {practice} |
- quorum | 3 | {bio} |
- rdp-classifier | 3 | {bio} |
- rtax | 3 | {cloud,bio} |
- scrm | 3 | {bio} |
- seqmagick | 3 | {covid-19,bio} |
- seqsero | 3 | {bio} |
- spaced | 3 | {bio} |
+ rampler | 3 | {bio} |
+ relion | 3 | {bio} |
+ samblaster | 3 | {bio,covid-19} |
srf | 3 | {bio-dev} |
- suitename | 3 | {bio} |
- surankco | 3 | {bio} |
- tnseq-transit | 3 | {covid-19,bio} |
- tracetuner | 3 | {bio} |
- velvetoptimiser | 3 | {bio} |
- vsearch | 3 | {covid-19,bio} |
- yaha | 3 | {bio} |
+ sweed | 3 | {bio} |
+ trace2dbest | 3 | {bio} |
+ tvc | 3 | {bio} |
atropos | 2 | {bio} |
- biosig4c++ | 2 | {physics,imaging-dev} |
biosig4c++ | 2 | {imaging-dev,physics} |
+ biosig4c++ | 2 | {physics,imaging-dev} |
getdata | 2 | {bio} |
- kmerresistance | 2 | {bio} |
+ kma | 2 | {bio} |
libbio-mage-utils-perl | 2 | {bio-dev} |
libctapimkt | 2 | {practice} |
libvistaio | 2 | {imaging-dev} |
- logol | 2 | {bio} |
mencal | 2 | {tools} |
- metaphlan2 | 2 | {bio} |
- nanook | 2 | {bio} |
openslide | 2 | {imaging-dev} |
- oscar | 2 | {tools,data,practice} |
- pal2nal | 2 | {bio} |
- pbdagcon | 2 | {bio} |
- pilon | 2 | {bio} |
- plasmidseeker | 2 | {bio} |
- rampler | 2 | {bio} |
- relion | 2 | {bio} |
- samblaster | 2 | {bio,covid-19} |
+ oscar | 2 | {practice,data,tools} |
samtools-legacy | 2 | {bio-dev} |
- stringtie | 2 | {bio,covid-19} |
- sweed | 2 | {bio} |
- trace2dbest | 2 | {bio} |
- tvc | 2 | {bio} |
- acedb | 1 | {bio,cloud} |
+ seqan | 2 | {bio-dev} |
+ stringtie | 2 | {covid-19,bio} |
+ acedb | 1 | {cloud,bio} |
biobambam2 | 1 | {bio,covid-19,bio-dev} |
blimps | 1 | {bio} |
busco | 1 | {bio,covid-19} |
- embassy-phylip | 1 | {bio,cloud} |
+ embassy-phylip | 1 | {cloud,bio} |
emboss-explorer | 1 | {bio} |
emmax | 1 | {bio} |
gatb-core | 1 | {bio-dev} |
+ kmerresistance | 1 | {bio} |
libchado-perl | 1 | {bio-dev} |
libmaus2 | 1 | {covid-19,bio-dev} |
libmialm | 1 | {imaging-dev} |
libsmithwaterman | 1 | {bio-dev} |
libxdf | 1 | {imaging-dev} |
ncbi-vdb | 1 | {bio-dev} |
+ ngs-sdk | 1 | {bio-dev} |
opensurgsim | 1 | {imaging-dev} |
papyrus | 1 | {imaging-dev} |
python-py2bit | 1 | {bio-dev,bio} |
python-scitrack | 1 | {covid-19} |
relion | 1 | {bio} |
- seqan | 1 | {bio-dev} |
sift | 1 | {bio} |
simpleitk | 1 | {imaging-dev} |
skesa | 1 | {bio} |
spaln | 1 | {bio,covid-19} |
- varscan | 1 | {bio,covid-19} |
+ varscan | 1 | {covid-19,bio} |
volpack | 1 | {imaging-dev} |
augur | 0 | {bio,covid-19} |
bambamc | 0 | {bio-dev} |
@@ -276,18 +277,17 @@ Last-Update: Thu, 21 May 2020 01:42:03 +0000
miaviewit | 0 | {imaging-dev} |
milib | 0 | {covid-19,bio-dev} |
mssstest | 0 | {tools} |
- multiqc | 0 | {covid-19,bio} |
+ multiqc | 0 | {bio,covid-19} |
murasaki | 0 | {bio} |
- ngs-sdk | 0 | {bio-dev} |
opencfu | 0 | {laboratory} |
orthanc-imagej | 0 | {imaging} |
parallel-fastq-dump | 0 | {covid-19} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
pilercr | 0 | {bio} |
- pycoqc | 0 | {covid-19,bio} |
- relion | 0 | {bio} |
+ pycoqc | 0 | {bio,covid-19} |
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/07e5e93cd6905b0947726f237e3b2e0ce5875360
--
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/07e5e93cd6905b0947726f237e3b2e0ce5875360
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