Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
dbe1c4eb by Andreas Tille at 2020-05-19T13:45:58+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,206 +1,216 @@
-Last-Update: Tue, 19 May 2020 01:42:03 +0000
+Last-Update: Tue, 19 May 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk | 189 | {imaging,covid-19} |
- orthanc | 96 | {imaging,covid-19,practice} |
+ dcmtk | 190 | {imaging,covid-19} |
+ orthanc | 99 | {imaging,covid-19,practice} |
gdcm | 54 | {imaging-dev} |
- orthanc-wsi | 47 | {oncology,practice,laboratory,his,imaging,covid-19} |
+ orthanc-wsi | 48 | {oncology,practice,laboratory,his,imaging,covid-19} |
htsjdk | 31 | {bio-dev} |
- dicom3tools | 30 | {imaging} |
dicomscope | 30 | {imaging} |
+ dicom3tools | 29 | {imaging} |
dcm2niix | 22 | {imaging} |
- gdcm | 19 | {covid-19,imaging} |
- gnumed-server | 16 | {practice,covid-19} |
+ gdcm | 18 | {covid-19,imaging} |
+ gnumed-server | 17 | {practice,covid-19} |
+ minc-tools | 17 | {imaging} |
+ insighttoolkit4 | 16 | {imaging-dev} |
pixelmed | 16 | {imaging} |
- minc-tools | 15 | {imaging} |
- insighttoolkit4 | 14 | {imaging-dev} |
- invesalius | 14 | {imaging} |
+ invesalius | 15 | {imaging} |
plastimatch | 14 | {imaging} |
+ adun.app | 13 | {bio} |
ngs-sdk | 13 | {bio-dev} |
openslide | 13 | {imaging} |
+ stacks | 13 | {bio} |
vtk-dicom | 13 | {imaging} |
- adun.app | 12 | {bio} |
king | 12 | {typesetting,imaging} |
- stacks | 11 | {bio} |
biosig4c++ | 10 | {imaging,physics} |
gdcm | 10 | {imaging-dev} |
+ librg-utils-perl | 10 | {bio} |
biojava-live | 9 | {bio-dev} |
jebl2 | 9 | {bio-dev} |
- librg-utils-perl | 9 | {bio} |
- ngs-sdk | 8 | {bio-dev} |
- obitools | 8 | {bio} |
+ ngs-sdk | 9 | {bio-dev} |
+ obitools | 9 | {bio} |
+ ea-utils | 8 | {bio} |
+ fastlink | 8 | {bio,cloud} |
+ paml | 8 | {bio} |
alter-sequence-alignment | 7 | {bio} |
- ea-utils | 7 | {bio} |
- fastlink | 7 | {bio,cloud} |
+ ampliconnoise | 7 | {cloud,bio} |
+ arden | 7 | {bio,cloud} |
+ indelible | 7 | {bio} |
+ maqview | 7 | {bio} |
melting | 7 | {bio,cloud} |
+ mipe | 7 | {bio,cloud} |
+ ncbi-seg | 7 | {bio} |
+ norsp | 7 | {bio} |
orthanc-webviewer | 7 | {imaging} |
- arden | 6 | {bio,cloud} |
+ piler | 7 | {bio} |
+ staden | 7 | {bio} |
+ abacas | 6 | {bio,covid-19} |
+ anfo | 6 | {cloud,bio} |
+ biomaj3-cli | 6 | {cloud} |
+ bio-rainbow | 6 | {bio} |
+ bio-tradis | 6 | {bio-dev,bio} |
+ bppsuite | 6 | {bio} |
cgview | 6 | {bio} |
- indelible | 6 | {bio} |
- maqview | 6 | {bio} |
- mipe | 6 | {bio,cloud} |
- ncbi-seg | 6 | {bio} |
- norsp | 6 | {bio} |
+ dazzdb | 6 | {bio} |
+ edtsurf | 6 | {bio} |
+ embassy-domainatrix | 6 | {cloud,bio} |
+ embassy-domalign | 6 | {bio,cloud} |
+ libminc | 6 | {imaging-dev} |
+ nutsqlite | 6 | {tools} |
orthanc-dicomweb | 6 | {imaging,covid-19} |
orthanc-mysql | 6 | {imaging} |
- piler | 6 | {bio} |
psychopy | 6 | {psychology} |
+ pymia | 6 | {imaging-dev} |
+ radiant | 6 | {bio} |
+ saint | 6 | {bio} |
salmon | 6 | {bio,covid-19} |
- staden | 6 | {bio} |
- abacas | 5 | {bio,covid-19} |
- ampliconnoise | 5 | {cloud,bio} |
- anfo | 5 | {cloud,bio} |
+ seer | 6 | {bio} |
+ sibsim4 | 6 | {cloud,bio} |
+ sigma-align | 6 | {cloud,bio,bio-phylogeny} |
+ transrate-tools | 6 | {bio} |
+ transtermhp | 6 | {bio} |
bart-view | 5 | {imaging} |
beast-mcmc | 5 | {bio,bio-phylogeny} |
- biomaj3-cli | 5 | {cloud} |
- bio-rainbow | 5 | {bio} |
- bio-tradis | 5 | {bio-dev,bio} |
- bppsuite | 5 | {bio} |
+ bitseq | 5 | {bio} |
cluster3 | 5 | {bio} |
- dazzdb | 5 | {bio} |
- edtsurf | 5 | {bio} |
- embassy-domainatrix | 5 | {cloud,bio} |
- embassy-domalign | 5 | {bio,cloud} |
- libminc | 5 | {imaging-dev} |
- nutsqlite | 5 | {tools} |
+ daligner | 5 | {bio-ngs,bio} |
+ ecopcr | 5 | {bio} |
+ embassy-domsearch | 5 | {bio,cloud} |
+ gasic | 5 | {cloud,bio} |
+ gatb-core | 5 | {bio} |
+ ipig | 5 | {bio} |
+ jellyfish1 | 5 | {bio} |
+ king-probe | 5 | {bio} |
+ lagan | 5 | {bio} |
+ mapsembler2 | 5 | {cloud,bio} |
+ mrs | 5 | {bio} |
+ neobio | 5 | {cloud,bio} |
orthanc-postgresql | 5 | {imaging} |
+ paraclu | 5 | {cloud,bio} |
+ phast | 5 | {bio} |
+ phyutility | 5 | {cloud,bio} |
predictprotein | 5 | {bio} |
- pymia | 5 | {imaging-dev} |
- seer | 5 | {bio} |
- sibsim4 | 5 | {cloud,bio} |
- sigma-align | 5 | {cloud,bio,bio-phylogeny} |
- transrate-tools | 5 | {bio} |
- transtermhp | 5 | {bio} |
+ probabel | 5 | {cloud,bio} |
+ pscan-tfbs | 5 | {bio} |
+ repeatmasker-recon | 5 | {bio} |
+ seqtools | 5 | {bio} |
+ sickle | 5 | {bio} |
+ squizz | 5 | {cloud,bio} |
treeview | 5 | {bio,bio-phylogeny} |
- bitseq | 4 | {bio} |
+ zalign | 5 | {bio,cloud} |
+ assemblytics | 4 | {bio} |
+ baitfisher | 4 | {bio} |
+ bandage | 4 | {bio} |
+ beads | 4 | {bio} |
+ biomaj3-daemon | 4 | {bio} |
brig | 4 | {bio} |
- daligner | 4 | {bio-ngs,bio} |
+ clonalframeml | 4 | {bio,covid-19} |
+ clonalorigin | 4 | {bio} |
+ dascrubber | 4 | {bio} |
dicompyler | 4 | {oncology} |
- ecopcr | 4 | {bio} |
+ dindel | 4 | {bio} |
elastix | 4 | {imaging} |
- embassy-domsearch | 4 | {bio,cloud} |
- gasic | 4 | {cloud,bio} |
- gatb-core | 4 | {bio} |
- ipig | 4 | {bio} |
+ estscan | 4 | {bio} |
+ fastml | 4 | {bio} |
+ freebayes | 4 | {covid-19,bio} |
+ fsm-lite | 4 | {bio} |
+ harvest-tools | 4 | {bio} |
jaligner | 4 | {bio} |
- jellyfish1 | 4 | {bio} |
jmodeltest | 4 | {bio-phylogeny,bio} |
- king-probe | 4 | {bio} |
- lagan | 4 | {bio} |
libdivsufsort | 4 | {bio-dev} |
libgff | 4 | {bio-dev} |
+ libncl | 4 | {bio} |
libpal-java | 4 | {bio-dev} |
libsbml | 4 | {bio-dev} |
- mapsembler2 | 4 | {cloud,bio} |
- mrs | 4 | {bio} |
- neobio | 4 | {cloud,bio} |
- paml | 4 | {bio} |
- paraclu | 4 | {cloud,bio} |
- phast | 4 | {bio} |
- phyutility | 4 | {cloud,bio} |
+ microbegps | 4 | {bio} |
+ murasaki | 4 | {bio} |
+ perm | 4 | {bio,cloud} |
+ phybin | 4 | {bio} |
+ placnet | 4 | {bio} |
+ poretools | 4 | {bio} |
+ prime-phylo | 4 | {cloud,bio} |
proalign | 4 | {bio,bio-phylogeny} |
- probabel | 4 | {cloud,bio} |
- pscan-tfbs | 4 | {bio} |
- radiant | 4 | {bio} |
+ rambo-k | 4 | {bio} |
rdp-alignment | 4 | {bio} |
rdp-readseq | 4 | {bio} |
- repeatmasker-recon | 4 | {bio} |
- saint | 4 | {bio} |
+ roguenarok | 4 | {bio} |
+ runcircos-gui | 4 | {bio} |
+ scythe | 4 | {bio} |
+ segemehl | 4 | {bio} |
seqtools | 4 | {bio} |
- sickle | 4 | {bio} |
+ sga | 4 | {bio} |
+ snap-aligner | 4 | {bio} |
+ soapaligner | 4 | {bio} |
+ soapsnp | 4 | {bio} |
+ sprai | 4 | {bio} |
spread-phy | 4 | {bio-phylogeny,bio} |
- squizz | 4 | {cloud,bio} |
- zalign | 4 | {bio,cloud} |
- assemblytics | 3 | {bio} |
- baitfisher | 3 | {bio} |
- bandage | 3 | {bio} |
- beads | 3 | {bio} |
beast2-mcmc | 3 | {bio} |
- biomaj3-daemon | 3 | {bio} |
+ blasr | 3 | {bio,bio-ngs} |
canu | 3 | {bio} |
- clonalframeml | 3 | {bio,covid-19} |
- clonalorigin | 3 | {bio} |
+ centrifuge | 3 | {covid-19,bio} |
cufflinks | 3 | {cloud,bio} |
- dascrubber | 3 | {bio} |
- dindel | 3 | {bio} |
- estscan | 3 | {bio} |
- fastml | 3 | {bio} |
- freebayes | 3 | {covid-19,bio} |
- fsm-lite | 3 | {bio} |
- harvest-tools | 3 | {bio} |
+ delly | 3 | {covid-19,bio} |
+ dwgsim | 3 | {bio} |
+ elph | 3 | {bio} |
+ ghmm | 3 | {bio} |
+ hinge | 3 | {bio} |
kma | 3 | {bio} |
- libncl | 3 | {bio} |
+ lamarc | 3 | {bio} |
librdp-taxonomy-tree-java | 3 | {bio-dev} |
+ libsmithwaterman | 3 | {bio} |
+ maffilter | 3 | {bio} |
mauve-aligner | 3 | {bio} |
mhap | 3 | {bio,bio-ngs} |
- microbegps | 3 | {bio} |
- murasaki | 3 | {bio} |
- perm | 3 | {bio,cloud} |
- phybin | 3 | {bio} |
- placnet | 3 | {bio} |
- poretools | 3 | {bio} |
- prime-phylo | 3 | {cloud,bio} |
+ mlv-smile | 3 | {bio,cloud} |
+ mptp | 3 | {bio} |
+ patman | 3 | {bio} |
+ phipack | 3 | {bio} |
prottest | 3 | {bio-phylogeny,bio} |
+ pscan-chip | 3 | {bio} |
+ qcumber | 3 | {bio} |
qrisk2 | 3 | {practice} |
- rambo-k | 3 | {bio} |
+ quorum | 3 | {bio} |
rdp-classifier | 3 | {bio} |
- roguenarok | 3 | {bio} |
- runcircos-gui | 3 | {bio} |
- scythe | 3 | {bio} |
- segemehl | 3 | {bio} |
- seqtools | 3 | {bio} |
- sga | 3 | {bio} |
- snap-aligner | 3 | {bio} |
- soapaligner | 3 | {bio} |
- soapsnp | 3 | {bio} |
- sprai | 3 | {bio} |
+ rtax | 3 | {cloud,bio} |
+ scrm | 3 | {bio} |
+ seqmagick | 3 | {bio,covid-19} |
+ seqsero | 3 | {bio} |
+ spaced | 3 | {bio} |
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} |
atropos | 2 | {bio} |
biosig4c++ | 2 | {physics,imaging-dev} |
biosig4c++ | 2 | {imaging-dev,physics} |
- blasr | 2 | {bio,bio-ngs} |
- centrifuge | 2 | {covid-19,bio} |
- delly | 2 | {covid-19,bio} |
- dwgsim | 2 | {bio} |
- elph | 2 | {bio} |
getdata | 2 | {bio} |
- ghmm | 2 | {bio} |
- hinge | 2 | {bio} |
kmerresistance | 2 | {bio} |
- lamarc | 2 | {bio} |
+ libbio-mage-utils-perl | 2 | {bio-dev} |
libctapimkt | 2 | {practice} |
- libsmithwaterman | 2 | {bio} |
libvistaio | 2 | {imaging-dev} |
logol | 2 | {bio} |
- maffilter | 2 | {bio} |
+ mencal | 2 | {tools} |
metaphlan2 | 2 | {bio} |
- mlv-smile | 2 | {bio,cloud} |
- mptp | 2 | {bio} |
nanook | 2 | {bio} |
openslide | 2 | {imaging-dev} |
oscar | 2 | {practice,tools,data} |
- patman | 2 | {bio} |
- phipack | 2 | {bio} |
+ pal2nal | 2 | {bio} |
+ pbdagcon | 2 | {bio} |
pilon | 2 | {bio} |
- pscan-chip | 2 | {bio} |
- qcumber | 2 | {bio} |
- quorum | 2 | {bio} |
+ plasmidseeker | 2 | {bio} |
+ rampler | 2 | {bio} |
relion | 2 | {bio} |
- rtax | 2 | {cloud,bio} |
+ samblaster | 2 | {bio,covid-19} |
samtools-legacy | 2 | {bio-dev} |
- scrm | 2 | {bio} |
- seqmagick | 2 | {bio,covid-19} |
- seqsero | 2 | {bio} |
- spaced | 2 | {bio} |
stringtie | 2 | {bio,covid-19} |
- suitename | 2 | {bio} |
- surankco | 2 | {bio} |
- tnseq-transit | 2 | {covid-19,bio} |
- tracetuner | 2 | {bio} |
- velvetoptimiser | 2 | {bio} |
- vsearch | 2 | {covid-19,bio} |
- yaha | 2 | {bio} |
+ sweed | 2 | {bio} |
+ trace2dbest | 2 | {bio} |
+ tvc | 2 | {bio} |
acedb | 1 | {cloud,bio} |
biobambam2 | 1 | {bio,covid-19,bio-dev} |
blimps | 1 | {bio} |
@@ -208,32 +218,22 @@ Last-Update: Tue, 19 May 2020 01:42:03 +0000
emboss-explorer | 1 | {bio} |
emmax | 1 | {bio} |
gatb-core | 1 | {bio-dev} |
- libbio-mage-utils-perl | 1 | {bio-dev} |
+ libchado-perl | 1 | {bio-dev} |
libmaus2 | 1 | {bio-dev,covid-19} |
libmialm | 1 | {imaging-dev} |
libsmithwaterman | 1 | {bio-dev} |
libxdf | 1 | {imaging-dev} |
- mencal | 1 | {tools} |
ncbi-vdb | 1 | {bio-dev} |
- ngs-sdk | 1 | {bio-dev} |
opensurgsim | 1 | {imaging-dev} |
- pal2nal | 1 | {bio} |
papyrus | 1 | {imaging-dev} |
- pbdagcon | 1 | {bio} |
- plasmidseeker | 1 | {bio} |
python-py2bit | 1 | {bio,bio-dev} |
python-scitrack | 1 | {covid-19} |
- rampler | 1 | {bio} |
relion | 1 | {bio} |
- samblaster | 1 | {bio,covid-19} |
seqan | 1 | {bio-dev} |
sift | 1 | {bio} |
simpleitk | 1 | {imaging-dev} |
skesa | 1 | {bio} |
spaln | 1 | {covid-19,bio} |
- sweed | 1 | {bio} |
- trace2dbest | 1 | {bio} |
- tvc | 1 | {bio} |
varscan | 1 | {covid-19,bio} |
volpack | 1 | {imaging-dev} |
augur | 0 | {covid-19,bio} |
@@ -257,7 +257,6 @@ Last-Update: Tue, 19 May 2020 01:42:03 +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} |
@@ -279,14 +278,15 @@ Last-Update: Tue, 19 May 2020 01:42:03 +0000
mssstest | 0 | {tools} |
multiqc | 0 | {covid-19,bio} |
murasaki | 0 | {bio} |
+ ngs-sdk | 0 | {bio-dev} |
opencfu | 0 | {laboratory} |
orthanc-imagej | 0 | {imaging} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
pilercr | 0 | {bio} |
pycoqc | 0 | {covid-19,bio} |
- relion | 0 | {bio-dev} |
relion | 0 | {bio} |
+ relion | 0 | {bio-dev} |
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/dbe1c4ebb90cf2ff18830de29206607a726145a9
--
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