Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
1696bfe4 by Andreas Tille at 2020-05-28T13:47:06+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,219 +1,219 @@
-Last-Update: Thu, 28 May 2020 01:42:04 +0000
+Last-Update: Thu, 28 May 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk | 191 | {covid-19,imaging} |
- orthanc | 96 | {covid-19,practice,imaging} |
- gdcm | 58 | {imaging-dev} |
- orthanc-wsi | 46 | {practice,covid-19,his,imaging,laboratory,oncology} |
- htsjdk | 33 | {bio-dev} |
- dicom3tools | 30 | {imaging} |
+ dcmtk | 189 | {imaging,covid-19} |
+ orthanc | 94 | {covid-19,practice,imaging} |
+ gdcm | 56 | {imaging-dev} |
+ orthanc-wsi | 45 | {laboratory,covid-19,his,practice,imaging,oncology} |
+ htsjdk | 35 | {bio-dev} |
+ dicom3tools | 29 | {imaging} |
dicomscope | 28 | {imaging} |
- dcm2niix | 26 | {imaging} |
- gdcm | 18 | {imaging,covid-19} |
- minc-tools | 18 | {imaging} |
+ dcm2niix | 25 | {imaging} |
+ gdcm | 17 | {imaging,covid-19} |
gnumed-server | 17 | {covid-19,practice} |
insighttoolkit4 | 17 | {imaging-dev} |
- invesalius | 16 | {imaging} |
- vtk-dicom | 16 | {imaging} |
- pixelmed | 15 | {imaging} |
+ minc-tools | 17 | {imaging} |
+ invesalius | 15 | {imaging} |
+ vtk-dicom | 15 | {imaging} |
adun.app | 14 | {bio} |
- king | 13 | {imaging,typesetting} |
- openslide | 13 | {imaging} |
- plastimatch | 13 | {imaging} |
- stacks | 13 | {bio} |
+ ngs-sdk | 14 | {bio-dev} |
+ pixelmed | 14 | {imaging} |
+ stacks | 14 | {bio} |
gdcm | 12 | {imaging-dev} |
- ngs-sdk | 12 | {bio-dev} |
+ king | 12 | {typesetting,imaging} |
obitools | 12 | {bio} |
- biojava-live | 10 | {bio-dev} |
- biosig4c++ | 10 | {imaging,physics} |
- jebl2 | 10 | {bio-dev} |
- librg-utils-perl | 10 | {bio} |
- ngs-sdk | 9 | {bio-dev} |
- paml | 9 | {bio} |
+ openslide | 12 | {imaging} |
+ plastimatch | 12 | {imaging} |
+ biojava-live | 11 | {bio-dev} |
+ jebl2 | 11 | {bio-dev} |
+ librg-utils-perl | 11 | {bio} |
+ paml | 10 | {bio} |
+ alter-sequence-alignment | 9 | {bio} |
+ arden | 9 | {bio,cloud} |
+ biosig4c++ | 9 | {imaging,physics} |
+ cgview | 9 | {bio} |
+ fastlink | 9 | {cloud,bio} |
+ maqview | 9 | {bio} |
+ mipe | 9 | {cloud,bio} |
psychopy | 9 | {psychology} |
- alter-sequence-alignment | 8 | {bio} |
- arden | 8 | {cloud,bio} |
- cgview | 8 | {bio} |
- fastlink | 8 | {cloud,bio} |
- maqview | 8 | {bio} |
- mipe | 8 | {cloud,bio} |
- radiant | 8 | {bio} |
- abacas | 7 | {covid-19,bio} |
- anfo | 7 | {bio,cloud} |
- biomaj3-cli | 7 | {cloud} |
- bio-rainbow | 7 | {bio} |
- bio-tradis | 7 | {bio,bio-dev} |
- bppsuite | 7 | {bio} |
- dazzdb | 7 | {bio} |
- ea-utils | 7 | {bio} |
- embassy-domainatrix | 7 | {bio,cloud} |
- embassy-domalign | 7 | {bio,cloud} |
- indelible | 7 | {bio} |
+ radiant | 9 | {bio} |
+ abacas | 8 | {bio,covid-19} |
+ anfo | 8 | {cloud,bio} |
+ biomaj3-cli | 8 | {cloud} |
+ bio-rainbow | 8 | {bio} |
+ bio-tradis | 8 | {bio-dev,bio} |
+ bppsuite | 8 | {bio} |
+ dazzdb | 8 | {bio} |
+ ea-utils | 8 | {bio} |
+ embassy-domainatrix | 8 | {cloud,bio} |
+ embassy-domalign | 8 | {cloud,bio} |
+ indelible | 8 | {bio} |
+ ncbi-seg | 8 | {bio} |
+ norsp | 8 | {bio} |
+ piler | 8 | {bio} |
+ seer | 8 | {bio} |
+ sibsim4 | 8 | {cloud,bio} |
+ transtermhp | 8 | {bio} |
+ ampliconnoise | 7 | {cloud,bio} |
+ beast-mcmc | 7 | {bio,bio-phylogeny} |
+ bitseq | 7 | {bio} |
+ daligner | 7 | {bio,bio-ngs} |
+ ecopcr | 7 | {bio} |
+ edtsurf | 7 | {bio} |
+ embassy-domsearch | 7 | {cloud,bio} |
+ gatb-core | 7 | {bio} |
libminc | 7 | {imaging-dev} |
- ncbi-seg | 7 | {bio} |
- norsp | 7 | {bio} |
+ melting | 7 | {cloud,bio} |
+ ngs-sdk | 7 | {bio-dev} |
orthanc-webviewer | 7 | {imaging} |
- piler | 7 | {bio} |
- seer | 7 | {bio} |
- sibsim4 | 7 | {cloud,bio} |
+ phast | 7 | {bio} |
+ seqtools | 7 | {bio} |
+ sickle | 7 | {bio} |
+ sigma-align | 7 | {bio-phylogeny,cloud,bio} |
staden | 7 | {bio} |
- transtermhp | 7 | {bio} |
- ampliconnoise | 6 | {bio,cloud} |
- beast-mcmc | 6 | {bio-phylogeny,bio} |
- bitseq | 6 | {bio} |
+ zalign | 7 | {bio,cloud} |
+ assemblytics | 6 | {bio} |
+ baitfisher | 6 | {bio} |
+ bandage | 6 | {bio} |
+ beads | 6 | {bio} |
+ biomaj3-daemon | 6 | {bio} |
+ brig | 6 | {bio} |
+ clonalframeml | 6 | {bio,covid-19} |
cluster3 | 6 | {bio} |
- daligner | 6 | {bio,bio-ngs} |
- ecopcr | 6 | {bio} |
- edtsurf | 6 | {bio} |
- embassy-domsearch | 6 | {cloud,bio} |
- gatb-core | 6 | {bio} |
- melting | 6 | {cloud,bio} |
+ dascrubber | 6 | {bio} |
+ dindel | 6 | {bio} |
+ estscan | 6 | {bio} |
+ freebayes | 6 | {bio,covid-19} |
+ harvest-tools | 6 | {bio} |
+ ipig | 6 | {bio} |
+ jellyfish1 | 6 | {bio} |
+ king-probe | 6 | {bio} |
+ lagan | 6 | {bio} |
+ libncl | 6 | {bio} |
+ mapsembler2 | 6 | {cloud,bio} |
mrs | 6 | {bio} |
+ murasaki | 6 | {bio} |
+ neobio | 6 | {cloud,bio} |
nutsqlite | 6 | {tools} |
orthanc-dicomweb | 6 | {covid-19,imaging} |
orthanc-mysql | 6 | {imaging} |
- phast | 6 | {bio} |
+ paraclu | 6 | {bio,cloud} |
+ phyutility | 6 | {cloud,bio} |
+ predictprotein | 6 | {bio} |
+ prime-phylo | 6 | {cloud,bio} |
+ probabel | 6 | {bio,cloud} |
+ pscan-tfbs | 6 | {bio} |
pymia | 6 | {imaging-dev} |
+ repeatmasker-recon | 6 | {bio} |
+ rtax | 6 | {bio,cloud} |
+ saint | 6 | {bio} |
+ salmon | 6 | {covid-19,bio} |
seqtools | 6 | {bio} |
- sickle | 6 | {bio} |
- sigma-align | 6 | {bio,cloud,bio-phylogeny} |
- zalign | 6 | {bio,cloud} |
- assemblytics | 5 | {bio} |
- baitfisher | 5 | {bio} |
- bandage | 5 | {bio} |
- beads | 5 | {bio} |
- biomaj3-daemon | 5 | {bio} |
- brig | 5 | {bio} |
- clonalframeml | 5 | {bio,covid-19} |
- dascrubber | 5 | {bio} |
+ snap-aligner | 6 | {bio} |
+ soapsnp | 6 | {bio} |
+ squizz | 6 | {bio,cloud} |
+ treeview | 6 | {bio-phylogeny,bio} |
+ beast2-mcmc | 5 | {bio} |
+ blasr | 5 | {bio,bio-ngs} |
+ canu | 5 | {bio} |
+ centrifuge | 5 | {covid-19,bio} |
+ clonalorigin | 5 | {bio} |
+ delly | 5 | {covid-19,bio} |
dicompyler | 5 | {oncology} |
- dindel | 5 | {bio} |
- estscan | 5 | {bio} |
- freebayes | 5 | {bio,covid-19} |
- harvest-tools | 5 | {bio} |
- ipig | 5 | {bio} |
- jellyfish1 | 5 | {bio} |
- king-probe | 5 | {bio} |
- lagan | 5 | {bio} |
+ fastml | 5 | {bio} |
+ fsm-lite | 5 | {bio} |
+ gasic | 5 | {cloud,bio} |
+ jmodeltest | 5 | {bio,bio-phylogeny} |
libdivsufsort | 5 | {bio-dev} |
- libncl | 5 | {bio} |
- mapsembler2 | 5 | {cloud,bio} |
- murasaki | 5 | {bio} |
- neobio | 5 | {bio,cloud} |
+ libpal-java | 5 | {bio-dev} |
+ microbegps | 5 | {bio} |
orthanc-postgresql | 5 | {imaging} |
- paraclu | 5 | {cloud,bio} |
- phyutility | 5 | {cloud,bio} |
- predictprotein | 5 | {bio} |
- prime-phylo | 5 | {bio,cloud} |
- probabel | 5 | {bio,cloud} |
- pscan-tfbs | 5 | {bio} |
- repeatmasker-recon | 5 | {bio} |
- rtax | 5 | {bio,cloud} |
- saint | 5 | {bio} |
- salmon | 5 | {bio,covid-19} |
- seqtools | 5 | {bio} |
- snap-aligner | 5 | {bio} |
- soapsnp | 5 | {bio} |
- squizz | 5 | {bio,cloud} |
- treeview | 5 | {bio-phylogeny,bio} |
+ perm | 5 | {cloud,bio} |
+ phybin | 5 | {bio} |
+ placnet | 5 | {bio} |
+ proalign | 5 | {bio,bio-phylogeny} |
+ pscan-chip | 5 | {bio} |
+ quorum | 5 | {bio} |
+ rdp-alignment | 5 | {bio} |
+ rdp-readseq | 5 | {bio} |
+ roguenarok | 5 | {bio} |
+ runcircos-gui | 5 | {bio} |
+ scythe | 5 | {bio} |
+ segemehl | 5 | {bio} |
+ sga | 5 | {bio} |
+ sprai | 5 | {bio} |
+ spread-phy | 5 | {bio,bio-phylogeny} |
+ tracetuner | 5 | {bio} |
+ yaha | 5 | {bio} |
bart-view | 4 | {imaging} |
- beast2-mcmc | 4 | {bio} |
- blasr | 4 | {bio,bio-ngs} |
- canu | 4 | {bio} |
- centrifuge | 4 | {covid-19,bio} |
- clonalorigin | 4 | {bio} |
- delly | 4 | {bio,covid-19} |
+ dwgsim | 4 | {bio} |
elastix | 4 | {imaging} |
- fastml | 4 | {bio} |
- fsm-lite | 4 | {bio} |
- gasic | 4 | {bio,cloud} |
- jmodeltest | 4 | {bio,bio-phylogeny} |
- libpal-java | 4 | {bio-dev} |
- microbegps | 4 | {bio} |
- perm | 4 | {bio,cloud} |
- phybin | 4 | {bio} |
- placnet | 4 | {bio} |
- proalign | 4 | {bio,bio-phylogeny} |
- pscan-chip | 4 | {bio} |
- quorum | 4 | {bio} |
- rdp-alignment | 4 | {bio} |
- rdp-readseq | 4 | {bio} |
- roguenarok | 4 | {bio} |
- runcircos-gui | 4 | {bio} |
- scythe | 4 | {bio} |
- segemehl | 4 | {bio} |
- sga | 4 | {bio} |
- sprai | 4 | {bio} |
- spread-phy | 4 | {bio,bio-phylogeny} |
- tracetuner | 4 | {bio} |
- yaha | 4 | {bio} |
- dwgsim | 3 | {bio} |
- elph | 3 | {bio} |
- ghmm | 3 | {bio} |
- hinge | 3 | {bio} |
- jaligner | 3 | {bio} |
- lamarc | 3 | {bio} |
+ elph | 4 | {bio} |
+ ghmm | 4 | {bio} |
+ hinge | 4 | {bio} |
+ jaligner | 4 | {bio} |
+ lamarc | 4 | {bio} |
+ librdp-taxonomy-tree-java | 4 | {bio-dev} |
+ maffilter | 4 | {bio} |
+ mauve-aligner | 4 | {bio} |
+ mlv-smile | 4 | {cloud,bio} |
+ mptp | 4 | {bio} |
+ patman | 4 | {bio} |
+ pbdagcon | 4 | {bio} |
+ phipack | 4 | {bio} |
+ poretools | 4 | {bio} |
+ prottest | 4 | {bio,bio-phylogeny} |
+ qcumber | 4 | {bio} |
+ rambo-k | 4 | {bio} |
+ rdp-classifier | 4 | {bio} |
+ relion | 4 | {bio} |
+ scrm | 4 | {bio} |
+ seqmagick | 4 | {covid-19,bio} |
+ seqsero | 4 | {bio} |
+ soapaligner | 4 | {bio} |
+ spaced | 4 | {bio} |
+ suitename | 4 | {bio} |
+ surankco | 4 | {bio} |
+ tnseq-transit | 4 | {covid-19,bio} |
+ velvetoptimiser | 4 | {bio} |
+ vsearch | 4 | {covid-19,bio} |
libgff | 3 | {bio-dev} |
- librdp-taxonomy-tree-java | 3 | {bio-dev} |
- maffilter | 3 | {bio} |
- mauve-aligner | 3 | {bio} |
- mlv-smile | 3 | {cloud,bio} |
- mptp | 3 | {bio} |
- patman | 3 | {bio} |
- pbdagcon | 3 | {bio} |
- phipack | 3 | {bio} |
- poretools | 3 | {bio} |
- prottest | 3 | {bio-phylogeny,bio} |
- qcumber | 3 | {bio} |
+ logol | 3 | {bio} |
+ metaphlan2 | 3 | {bio} |
+ mhap | 3 | {bio,bio-ngs} |
+ nanook | 3 | {bio} |
+ pal2nal | 3 | {bio} |
+ pilon | 3 | {bio} |
+ plasmidseeker | 3 | {bio} |
qrisk2 | 3 | {practice} |
- rambo-k | 3 | {bio} |
- rdp-classifier | 3 | {bio} |
- relion | 3 | {bio} |
- scrm | 3 | {bio} |
- seqmagick | 3 | {bio,covid-19} |
- seqsero | 3 | {bio} |
- soapaligner | 3 | {bio} |
- spaced | 3 | {bio} |
- suitename | 3 | {bio} |
- surankco | 3 | {bio} |
- tnseq-transit | 3 | {bio,covid-19} |
- velvetoptimiser | 3 | {bio} |
- vsearch | 3 | {covid-19,bio} |
+ rampler | 3 | {bio} |
+ samblaster | 3 | {bio,covid-19} |
+ sweed | 3 | {bio} |
+ trace2dbest | 3 | {bio} |
+ tvc | 3 | {bio} |
atropos | 2 | {bio} |
biosig4c++ | 2 | {physics,imaging-dev} |
biosig4c++ | 2 | {imaging-dev,physics} |
blimps | 2 | {bio} |
busco | 2 | {bio,covid-19} |
- cufflinks | 2 | {cloud,bio} |
+ cufflinks | 2 | {bio,cloud} |
getdata | 2 | {bio} |
kma | 2 | {bio} |
libbio-mage-utils-perl | 2 | {bio-dev} |
libctapimkt | 2 | {practice} |
libsbml | 2 | {bio-dev} |
libvistaio | 2 | {imaging-dev} |
- logol | 2 | {bio} |
mencal | 2 | {tools} |
- metaphlan2 | 2 | {bio} |
- mhap | 2 | {bio,bio-ngs} |
- nanook | 2 | {bio} |
openslide | 2 | {imaging-dev} |
oscar | 2 | {data,tools,practice} |
- pal2nal | 2 | {bio} |
- pilon | 2 | {bio} |
- plasmidseeker | 2 | {bio} |
- rampler | 2 | {bio} |
- samblaster | 2 | {covid-19,bio} |
samtools-legacy | 2 | {bio-dev} |
seqan | 2 | {bio-dev} |
sift | 2 | {bio} |
srf | 2 | {bio-dev} |
stringtie | 2 | {bio,covid-19} |
- sweed | 2 | {bio} |
- trace2dbest | 2 | {bio} |
- tvc | 2 | {bio} |
acedb | 1 | {bio,cloud} |
- biobambam2 | 1 | {bio-dev,bio,covid-19} |
+ biobambam2 | 1 | {bio,bio-dev,covid-19} |
embassy-phylip | 1 | {cloud,bio} |
emboss-explorer | 1 | {bio} |
emmax | 1 | {bio} |
@@ -223,20 +223,19 @@ Last-Update: Thu, 28 May 2020 01:42:04 +0000
libmaus2 | 1 | {bio-dev,covid-19} |
libmialm | 1 | {imaging-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-py2bit | 1 | {bio,bio-dev} |
python-scitrack | 1 | {covid-19} |
relion | 1 | {bio} |
simpleitk | 1 | {imaging-dev} |
skesa | 1 | {bio} |
- spaln | 1 | {covid-19,bio} |
+ spaln | 1 | {bio,covid-19} |
varscan | 1 | {bio,covid-19} |
volpack | 1 | {imaging-dev} |
wtdbg2 | 1 | {covid-19} |
- augur | 0 | {bio,covid-19} |
+ augur | 0 | {covid-19,bio} |
bambamc | 0 | {bio-dev} |
bbmap | 0 | {covid-19} |
biojava4-live | 0 | {bio-dev} |
@@ -246,6 +245,7 @@ Last-Update: Thu, 28 May 2020 01:42:04 +0000
ctn | 0 | {imaging-dev} |
fis-gtm | 0 | {his} |
htscodecs | 0 | {bio-dev,covid-19} |
+ ivar | 0 | {covid-19} |
libbigwig | 0 | {bio-dev} |
libbiod | 0 | {bio-dev} |
libbioparser-dev | 0 | {bio-dev} |
@@ -260,7 +260,7 @@ Last-Update: Thu, 28 May 2020 01:42:04 +0000
libgenome | 0 | {bio-dev} |
libgkarrays | 0 | {bio-dev} |
libhmsbeagle | 0 | {bio-dev} |
- libics | 0 | {covid-19,imaging-dev} |
+ libics | 0 | {imaging-dev,covid-19} |
libjloda-java | 0 | {bio-dev} |
libmems | 0 | {bio-dev} |
libmuscle | 0 | {bio-dev} |
@@ -275,8 +275,9 @@ Last-Update: Thu, 28 May 2020 01:42:04 +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} |
+ ncbi-vdb | 0 | {bio-dev} |
opencfu | 0 | {laboratory} |
orthanc-imagej | 0 | {imaging} |
parallel-fastq-dump | 0 | {covid-19} |
@@ -292,10 +293,12 @@ Last-Update: Thu, 28 May 2020 01:42:04 +0000
skewer | 0 | {bio} |
smrtanalysis | 0 | {covid-19,bio} |
solvate | 0 | {bio} |
- thesias | 0 | {bio,covid-19} |
+ thesias | 0 | {covid-19,bio} |
varna | 0 | {bio} |
vtk-dicom | 0 | {imaging-dev} |
- bustools | -1 | {bio,covid-19} |
+ bustools | -1 | {covid-19,bio} |
+ cat-bat | -1 | {covid-19,bio} |
drop-seq | -1 | {bio,covid-19} |
-(324 rows)
+ flash | -1 | {bio,covid-19} |
+(327 rows)
=====================================
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/1696bfe4a5ca9dd26734dc1c6a373b5ee99156b3
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