Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
cb95b019 by Andreas Tille at 2020-06-09T13:45:12+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,220 +1,217 @@
-Last-Update: Tue, 09 Jun 2020 01:42:04 +0000
+Last-Update: Tue, 09 Jun 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk | 184 | {covid-19,imaging} |
- orthanc | 90 | {covid-19,practice,imaging} |
+ dcmtk | 177 | {covid-19,imaging} |
+ orthanc | 89 | {imaging,practice,covid-19} |
gdcm | 52 | {imaging-dev} |
- orthanc-wsi | 42 | {his,oncology,practice,imaging,covid-19,laboratory} |
- htsjdk | 30 | {bio-dev} |
- dcm2niix | 29 | {imaging} |
- dicomscope | 29 | {imaging} |
- dicom3tools | 28 | {imaging} |
- gnumed-server | 19 | {covid-19,practice} |
+ orthanc-wsi | 40 | {laboratory,practice,imaging,oncology,covid-19,his} |
+ htsjdk | 32 | {bio-dev} |
+ dcm2niix | 28 | {imaging} |
+ dicomscope | 28 | {imaging} |
+ dicom3tools | 27 | {imaging} |
+ gnumed-server | 19 | {practice,covid-19} |
gdcm | 18 | {imaging,covid-19} |
- minc-tools | 17 | {imaging} |
invesalius | 16 | {imaging} |
+ minc-tools | 16 | {imaging} |
ngs-sdk | 16 | {bio-dev} |
insighttoolkit4 | 15 | {imaging-dev} |
- adun.app | 13 | {bio} |
plastimatch | 13 | {imaging} |
- king | 12 | {typesetting,imaging} |
+ adun.app | 12 | {bio} |
+ king | 12 | {imaging,typesetting} |
vtk-dicom | 12 | {imaging} |
gdcm | 11 | {imaging-dev} |
openslide | 11 | {imaging} |
pixelmed | 11 | {imaging} |
- biosig4c++ | 10 | {physics,imaging} |
- obitools | 10 | {bio} |
+ biosig4c++ | 10 | {imaging,physics} |
+ jebl2 | 9 | {bio-dev} |
biojava-live | 8 | {bio-dev} |
- jebl2 | 8 | {bio-dev} |
+ obitools | 8 | {bio} |
psychopy | 8 | {psychology} |
- radiant | 8 | {bio} |
- stacks | 8 | {bio} |
- biomaj3-cli | 7 | {cloud} |
cluster3 | 7 | {bio} |
- ecopcr | 7 | {bio} |
- fastlink | 7 | {cloud,bio} |
- indelible | 7 | {bio} |
- librg-utils-perl | 7 | {bio} |
- mipe | 7 | {bio,cloud} |
- ncbi-seg | 7 | {bio} |
- ngs-sdk | 7 | {bio-dev} |
- sibsim4 | 7 | {bio,cloud} |
+ radiant | 7 | {bio} |
+ stacks | 7 | {bio} |
alter-sequence-alignment | 6 | {bio} |
- ampliconnoise | 6 | {bio,cloud} |
- arden | 6 | {cloud,bio} |
- bio-tradis | 6 | {bio-dev,bio} |
- bppsuite | 6 | {bio} |
- ea-utils | 6 | {bio} |
- elastix | 6 | {imaging} |
- embassy-domainatrix | 6 | {bio,cloud} |
- embassy-domsearch | 6 | {bio,cloud} |
+ biomaj3-cli | 6 | {cloud} |
+ ecopcr | 6 | {bio} |
+ fastlink | 6 | {cloud,bio} |
+ indelible | 6 | {bio} |
libminc | 6 | {imaging-dev} |
- maqview | 6 | {bio} |
+ librg-utils-perl | 6 | {bio} |
melting | 6 | {bio,cloud} |
+ mipe | 6 | {cloud,bio} |
+ ncbi-seg | 6 | {bio} |
+ ngs-sdk | 6 | {bio-dev} |
orthanc-webviewer | 6 | {imaging} |
- phyutility | 6 | {cloud,bio} |
- piler | 6 | {bio} |
- sickle | 6 | {bio} |
- sigma-align | 6 | {cloud,bio-phylogeny,bio} |
- treeview | 6 | {bio-phylogeny,bio} |
+ sibsim4 | 6 | {cloud,bio} |
+ treeview | 6 | {bio,bio-phylogeny} |
vsearch | 6 | {bio,covid-19} |
- abacas | 5 | {covid-19,bio} |
- anfo | 5 | {cloud,bio} |
- bandage | 5 | {bio} |
- beads | 5 | {bio} |
- biomaj3-daemon | 5 | {bio} |
- bitseq | 5 | {bio} |
+ ampliconnoise | 5 | {bio,cloud} |
+ arden | 5 | {bio,cloud} |
+ beast-mcmc | 5 | {bio-phylogeny,bio} |
+ bio-tradis | 5 | {bio,bio-dev} |
+ bppsuite | 5 | {bio} |
brig | 5 | {bio} |
- daligner | 5 | {bio,bio-ngs} |
- dazzdb | 5 | {bio} |
- delly | 5 | {bio,covid-19} |
- edtsurf | 5 | {bio} |
- embassy-domalign | 5 | {bio,cloud} |
- estscan | 5 | {bio} |
- gatb-core | 5 | {bio} |
- king-probe | 5 | {bio} |
- lagan | 5 | {bio} |
- mapsembler2 | 5 | {cloud,bio} |
- mrs | 5 | {bio} |
- neobio | 5 | {bio,cloud} |
+ ea-utils | 5 | {bio} |
+ elastix | 5 | {imaging} |
+ embassy-domainatrix | 5 | {cloud,bio} |
+ embassy-domsearch | 5 | {bio,cloud} |
+ maqview | 5 | {bio} |
nutsqlite | 5 | {tools} |
orthanc-dicomweb | 5 | {covid-19,imaging} |
orthanc-mysql | 5 | {imaging} |
- paraclu | 5 | {bio,cloud} |
- phast | 5 | {bio} |
- prime-phylo | 5 | {bio,cloud} |
- probabel | 5 | {bio,cloud} |
- pscan-tfbs | 5 | {bio} |
- pymia | 5 | {imaging-dev} |
- rtax | 5 | {bio,cloud} |
- saint | 5 | {bio} |
- seqtools | 5 | {bio} |
+ phyutility | 5 | {bio,cloud} |
+ piler | 5 | {bio} |
+ sickle | 5 | {bio} |
+ sigma-align | 5 | {cloud,bio-phylogeny,bio} |
snap-aligner | 5 | {bio} |
- soapsnp | 5 | {bio} |
- spread-phy | 5 | {bio-phylogeny,bio} |
- squizz | 5 | {cloud,bio} |
- staden | 5 | {bio} |
- tracetuner | 5 | {bio} |
- transtermhp | 5 | {bio} |
- zalign | 5 | {cloud,bio} |
- assemblytics | 4 | {bio} |
- baitfisher | 4 | {bio} |
+ spread-phy | 5 | {bio,bio-phylogeny} |
+ abacas | 4 | {covid-19,bio} |
+ anfo | 4 | {bio,cloud} |
+ bandage | 4 | {bio} |
bart-view | 4 | {imaging} |
- beast-mcmc | 4 | {bio,bio-phylogeny} |
- bio-rainbow | 4 | {bio} |
- centrifuge | 4 | {covid-19,bio} |
- clonalframeml | 4 | {bio,covid-19} |
- clonalorigin | 4 | {bio} |
- dascrubber | 4 | {bio} |
+ beads | 4 | {bio} |
+ biomaj3-daemon | 4 | {bio} |
+ bitseq | 4 | {bio} |
+ daligner | 4 | {bio-ngs,bio} |
+ dazzdb | 4 | {bio} |
+ delly | 4 | {covid-19,bio} |
dicompyler | 4 | {oncology} |
- dindel | 4 | {bio} |
- gasic | 4 | {cloud,bio} |
+ edtsurf | 4 | {bio} |
+ embassy-domalign | 4 | {bio,cloud} |
+ estscan | 4 | {bio} |
+ gatb-core | 4 | {bio} |
getdata | 4 | {bio} |
- ghmm | 4 | {bio} |
- harvest-tools | 4 | {bio} |
- ipig | 4 | {bio} |
- jellyfish1 | 4 | {bio} |
+ king-probe | 4 | {bio} |
+ lagan | 4 | {bio} |
libdivsufsort | 4 | {bio-dev} |
- libncl | 4 | {bio} |
- microbegps | 4 | {bio} |
- mlv-smile | 4 | {bio,cloud} |
- murasaki | 4 | {bio} |
+ mapsembler2 | 4 | {bio,cloud} |
+ neobio | 4 | {cloud,bio} |
orthanc-postgresql | 4 | {imaging} |
- perm | 4 | {cloud,bio} |
- phybin | 4 | {bio} |
- placnet | 4 | {bio} |
+ paraclu | 4 | {bio,cloud} |
+ phast | 4 | {bio} |
predictprotein | 4 | {bio} |
- pscan-chip | 4 | {bio} |
+ prime-phylo | 4 | {bio,cloud} |
+ probabel | 4 | {cloud,bio} |
+ pscan-tfbs | 4 | {bio} |
+ pymia | 4 | {imaging-dev} |
qrisk2 | 4 | {practice} |
- quorum | 4 | {bio} |
rdp-alignment | 4 | {bio} |
rdp-readseq | 4 | {bio} |
- repeatmasker-recon | 4 | {bio} |
- roguenarok | 4 | {bio} |
- runcircos-gui | 4 | {bio} |
- salmon | 4 | {bio,covid-19} |
- scythe | 4 | {bio} |
- segemehl | 4 | {bio} |
- seqsero | 4 | {bio} |
- sga | 4 | {bio} |
- tnseq-transit | 4 | {covid-19,bio} |
- yaha | 4 | {bio} |
+ rtax | 4 | {cloud,bio} |
+ saint | 4 | {bio} |
+ seqtools | 4 | {bio} |
+ soapsnp | 4 | {bio} |
+ squizz | 4 | {bio,cloud} |
+ staden | 4 | {bio} |
+ tracetuner | 4 | {bio} |
+ transtermhp | 4 | {bio} |
+ zalign | 4 | {cloud,bio} |
+ assemblytics | 3 | {bio} |
+ baitfisher | 3 | {bio} |
beast2-mcmc | 3 | {bio} |
- blasr | 3 | {bio,bio-ngs} |
+ bio-rainbow | 3 | {bio} |
canu | 3 | {bio} |
- dwgsim | 3 | {bio} |
- elph | 3 | {bio} |
- fastml | 3 | {bio} |
- fsm-lite | 3 | {bio} |
- hinge | 3 | {bio} |
+ centrifuge | 3 | {covid-19,bio} |
+ clonalframeml | 3 | {covid-19,bio} |
+ clonalorigin | 3 | {bio} |
+ dascrubber | 3 | {bio} |
+ dindel | 3 | {bio} |
+ gasic | 3 | {bio,cloud} |
+ ghmm | 3 | {bio} |
+ harvest-tools | 3 | {bio} |
+ ipig | 3 | {bio} |
jaligner | 3 | {bio} |
+ jellyfish1 | 3 | {bio} |
jmodeltest | 3 | {bio,bio-phylogeny} |
- lamarc | 3 | {bio} |
+ libncl | 3 | {bio} |
libpal-java | 3 | {bio-dev} |
librdp-taxonomy-tree-java | 3 | {bio-dev} |
- libsbml | 3 | {bio-dev} |
- maffilter | 3 | {bio} |
mauve-aligner | 3 | {bio} |
mhap | 3 | {bio-ngs,bio} |
- mptp | 3 | {bio} |
+ microbegps | 3 | {bio} |
+ mlv-smile | 3 | {bio,cloud} |
+ mrs | 3 | {bio} |
+ murasaki | 3 | {bio} |
openslide | 3 | {imaging-dev} |
- pal2nal | 3 | {bio} |
- patman | 3 | {bio} |
- pbdagcon | 3 | {bio} |
- phipack | 3 | {bio} |
+ perm | 3 | {cloud,bio} |
+ phybin | 3 | {bio} |
pilon | 3 | {bio} |
- plasmidseeker | 3 | {bio} |
+ placnet | 3 | {bio} |
proalign | 3 | {bio,bio-phylogeny} |
- prottest | 3 | {bio-phylogeny,bio} |
- qcumber | 3 | {bio} |
- rambo-k | 3 | {bio} |
- rampler | 3 | {bio} |
+ prottest | 3 | {bio,bio-phylogeny} |
+ pscan-chip | 3 | {bio} |
+ quorum | 3 | {bio} |
rdp-classifier | 3 | {bio} |
relion | 3 | {bio} |
- samblaster | 3 | {bio,covid-19} |
- scrm | 3 | {bio} |
- seqmagick | 3 | {covid-19,bio} |
- seqtools | 3 | {bio} |
- soapaligner | 3 | {bio} |
- spaced | 3 | {bio} |
- sprai | 3 | {bio} |
- suitename | 3 | {bio} |
+ repeatmasker-recon | 3 | {bio} |
+ roguenarok | 3 | {bio} |
+ runcircos-gui | 3 | {bio} |
+ salmon | 3 | {bio,covid-19} |
+ scythe | 3 | {bio} |
+ segemehl | 3 | {bio} |
+ seqsero | 3 | {bio} |
+ sga | 3 | {bio} |
surankco | 3 | {bio} |
- sweed | 3 | {bio} |
- trace2dbest | 3 | {bio} |
- tvc | 3 | {bio} |
- velvetoptimiser | 3 | {bio} |
+ tnseq-transit | 3 | {bio,covid-19} |
+ yaha | 3 | {bio} |
biosig4c++ | 2 | {imaging-dev,physics} |
biosig4c++ | 2 | {physics,imaging-dev} |
+ blasr | 2 | {bio-ngs,bio} |
blimps | 2 | {bio} |
- busco | 2 | {bio,covid-19} |
- libbio-mage-utils-perl | 2 | {bio-dev} |
+ busco | 2 | {covid-19,bio} |
+ dwgsim | 2 | {bio} |
+ elph | 2 | {bio} |
+ fastml | 2 | {bio} |
+ fsm-lite | 2 | {bio} |
+ hinge | 2 | {bio} |
+ lamarc | 2 | {bio} |
+ libsbml | 2 | {bio-dev} |
logol | 2 | {bio} |
- mencal | 2 | {tools} |
+ maffilter | 2 | {bio} |
metaphlan2 | 2 | {bio} |
- nanook | 2 | {bio} |
+ mptp | 2 | {bio} |
+ nanook | 2 | {covid-19,bio} |
+ pal2nal | 2 | {bio} |
papyrus | 2 | {imaging-dev} |
+ patman | 2 | {bio} |
+ pbdagcon | 2 | {bio} |
+ phipack | 2 | {bio} |
+ plasmidseeker | 2 | {bio} |
+ qcumber | 2 | {bio} |
+ rambo-k | 2 | {bio} |
+ rampler | 2 | {bio} |
relion | 2 | {bio} |
+ samblaster | 2 | {covid-19,bio} |
+ scrm | 2 | {bio} |
+ seqmagick | 2 | {bio,covid-19} |
+ seqtools | 2 | {bio} |
sift | 2 | {bio} |
+ soapaligner | 2 | {bio} |
+ spaced | 2 | {bio} |
+ sprai | 2 | {bio} |
+ suitename | 2 | {bio} |
+ sweed | 2 | {bio} |
+ trace2dbest | 2 | {bio} |
+ tvc | 2 | {bio} |
+ velvetoptimiser | 2 | {bio} |
acedb | 1 | {cloud,bio} |
ctn | 1 | {imaging-dev} |
embassy-phylip | 1 | {cloud,bio} |
emboss-explorer | 1 | {bio} |
gatb-core | 1 | {bio-dev} |
- libchado-perl | 1 | {bio-dev} |
+ libbio-mage-utils-perl | 1 | {bio-dev} |
libctapimkt | 1 | {practice} |
libmialm | 1 | {imaging-dev} |
libvistaio | 1 | {imaging-dev} |
libxdf | 1 | {imaging-dev} |
murasaki | 1 | {bio} |
opensurgsim | 1 | {imaging-dev} |
- oscar | 1 | {practice,data,tools} |
+ oscar | 1 | {data,practice,tools} |
python-scitrack | 1 | {covid-19} |
relion | 1 | {bio} |
seqan | 1 | {bio-dev} |
simpleitk | 1 | {imaging-dev} |
- srf | 1 | {bio-dev} |
volpack | 1 | {imaging-dev} |
wtdbg2 | 1 | {covid-19} |
atropos | 0 | {bio} |
@@ -225,8 +222,8 @@ Last-Update: Tue, 09 Jun 2020 01:42:04 +0000
biosig4c++ | 0 | {physics} |
biosyntax | 0 | {bio} |
camp | 0 | {imaging-dev} |
- cufflinks | 0 | {bio,cloud} |
- drop-seq | 0 | {bio,covid-19} |
+ cufflinks | 0 | {cloud,bio} |
+ drop-seq | 0 | {covid-19,bio} |
emmax | 0 | {bio} |
fis-gtm | 0 | {his} |
htscodecs | 0 | {covid-19,bio-dev} |
@@ -243,13 +240,14 @@ Last-Update: Tue, 09 Jun 2020 01:42:04 +0000
libbpp-raa | 0 | {bio-dev} |
libbpp-seq | 0 | {bio-dev} |
libbpp-seq-omics | 0 | {bio-dev} |
+ libchado-perl | 0 | {bio-dev} |
libdisorder | 0 | {bio-dev} |
libgenome | 0 | {bio-dev} |
libgkarrays | 0 | {bio-dev} |
libhmsbeagle | 0 | {bio-dev} |
- libics | 0 | {imaging-dev,covid-19} |
+ libics | 0 | {covid-19,imaging-dev} |
libjloda-java | 0 | {bio-dev} |
- libmaus2 | 0 | {covid-19,bio-dev} |
+ libmaus2 | 0 | {bio-dev,covid-19} |
libmems | 0 | {bio-dev} |
libmuscle | 0 | {bio-dev} |
libncl | 0 | {bio-dev} |
@@ -263,7 +261,7 @@ Last-Update: Tue, 09 Jun 2020 01:42:04 +0000
miaviewit | 0 | {imaging-dev} |
milib | 0 | {bio-dev,covid-19} |
mssstest | 0 | {tools} |
- multiqc | 0 | {covid-19,bio} |
+ multiqc | 0 | {bio,covid-19} |
ncbi-vdb | 0 | {bio-dev} |
ngs-sdk | 0 | {bio-dev} |
opencfu | 0 | {laboratory} |
@@ -273,8 +271,8 @@ Last-Update: Tue, 09 Jun 2020 01:42:04 +0000
pbseqlib | 0 | {bio-dev} |
pilercr | 0 | {bio} |
python-py2bit | 0 | {bio-dev,bio} |
- relion | 0 | {bio} |
relion | 0 | {bio-dev} |
+ relion | 0 | {bio} |
sambamba | 0 | {bio} |
samtools-legacy | 0 | {bio-dev} |
sbmltoolbox | 0 | {bio-dev} |
@@ -282,15 +280,16 @@ Last-Update: Tue, 09 Jun 2020 01:42:04 +0000
skesa | 0 | {bio} |
skewer | 0 | {bio} |
smrtanalysis | 0 | {covid-19,bio} |
- spaln | 0 | {covid-19,bio} |
- stringtie | 0 | {bio,covid-19} |
+ spaln | 0 | {bio,covid-19} |
+ srf | 0 | {bio-dev} |
+ stringtie | 0 | {covid-19,bio} |
thesias | 0 | {bio,covid-19} |
varna | 0 | {bio} |
- varscan | 0 | {covid-19,bio} |
+ varscan | 0 | {bio,covid-19} |
vtk-dicom | 0 | {imaging-dev} |
- bustools | -1 | {covid-19,bio} |
+ bustools | -1 | {bio,covid-19} |
cat-bat | -1 | {covid-19,bio} |
- flash | -1 | {bio,covid-19} |
- pycoqc | -1 | {covid-19,bio} |
-(319 rows)
+ flash | -1 | {covid-19,bio} |
+ pycoqc | -1 | {bio,covid-19} |
+(318 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/cb95b019eeabad0c5aac42fb0c3beb5ecfd8989f
--
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