Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
2b403620 by Andreas Tille at 2020-07-02T13:43:58+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,215 +1,207 @@
-Last-Update: Thu, 02 Jul 2020 01:42:04 +0000
+Last-Update: Thu, 02 Jul 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk | 180 | {covid-19,imaging} |
- orthanc | 93 | {covid-19,imaging,practice} |
+ dcmtk | 182 | {covid-19,imaging} |
+ orthanc | 94 | {covid-19,imaging,practice} |
gdcm | 46 | {imaging-dev} |
orthanc-wsi | 44 | {his,practice,covid-19,laboratory,imaging,oncology} |
- htsjdk | 35 | {bio-dev} |
+ htsjdk | 34 | {bio-dev} |
dcm2niix | 22 | {imaging} |
- dicomscope | 20 | {imaging} |
+ dicomscope | 21 | {imaging} |
+ dicom3tools | 20 | {imaging} |
gnumed-server | 19 | {practice,covid-19} |
- dicom3tools | 18 | {imaging} |
- ngs-sdk | 18 | {bio-dev} |
+ ngs-sdk | 17 | {bio-dev} |
gdcm | 16 | {covid-19,imaging} |
- gdcm | 12 | {imaging-dev} |
+ gdcm | 13 | {imaging-dev} |
insighttoolkit4 | 12 | {imaging-dev} |
- jebl2 | 12 | {bio-dev} |
- invesalius | 11 | {imaging} |
- minc-tools | 10 | {imaging} |
- adun.app | 9 | {bio} |
- melting | 9 | {bio,cloud} |
- ngs-sdk | 9 | {bio-dev} |
- openslide | 9 | {imaging} |
+ invesalius | 12 | {imaging} |
+ jebl2 | 11 | {bio-dev} |
+ minc-tools | 11 | {imaging} |
+ dicompyler | 9 | {oncology} |
pixelmed | 9 | {imaging} |
psychopy | 9 | {psychology} |
- king | 8 | {imaging,typesetting} |
- lagan | 8 | {bio} |
+ adun.app | 8 | {bio} |
libdivsufsort | 8 | {bio-dev} |
- maqview | 8 | {bio} |
- obitools | 8 | {bio} |
+ melting | 8 | {bio,cloud} |
+ ngs-sdk | 8 | {bio-dev} |
+ openslide | 8 | {imaging} |
+ plastimatch | 8 | {imaging} |
pymia | 8 | {imaging-dev} |
- stacks | 8 | {bio} |
- treeview | 8 | {bio-phylogeny,bio} |
+ vtk-dicom | 8 | {imaging} |
biosig4c++ | 7 | {physics,imaging} |
- dicompyler | 7 | {oncology} |
- ea-utils | 7 | {bio} |
- fastlink | 7 | {cloud,bio} |
- king-probe | 7 | {bio} |
+ lagan | 7 | {bio} |
libminc | 7 | {imaging-dev} |
- librg-utils-perl | 7 | {bio} |
+ maqview | 7 | {bio} |
orthanc-webviewer | 7 | {imaging} |
- paraclu | 7 | {cloud,bio} |
- plastimatch | 7 | {imaging} |
- seqsero | 7 | {bio} |
- vtk-dicom | 7 | {imaging} |
- anfo | 6 | {bio,cloud} |
- biojava-live | 6 | {bio-dev} |
- jaligner | 6 | {bio} |
- mlv-smile | 6 | {bio,cloud} |
- ncbi-seg | 6 | {bio} |
+ stacks | 7 | {bio} |
+ treeview | 7 | {bio-phylogeny,bio} |
+ ea-utils | 6 | {bio} |
+ king | 6 | {imaging,typesetting} |
+ king-probe | 6 | {bio} |
+ librg-utils-perl | 6 | {bio} |
+ obitools | 6 | {bio} |
orthanc-dicomweb | 6 | {imaging,covid-19} |
- sibsim4 | 6 | {bio,cloud} |
- sigma-align | 6 | {bio-phylogeny,cloud,bio} |
- staden | 6 | {bio} |
- zalign | 6 | {cloud,bio} |
- biomaj3-cli | 5 | {cloud} |
- ecopcr | 5 | {bio} |
- gatb-core | 5 | {bio} |
+ paraclu | 6 | {cloud,bio} |
+ seqsero | 6 | {bio} |
+ anfo | 5 | {bio,cloud} |
+ biojava-live | 5 | {bio-dev} |
+ fastlink | 5 | {cloud,bio} |
getdata | 5 | {bio} |
- microbegps | 5 | {bio} |
- mipe | 5 | {cloud,bio} |
- neobio | 5 | {cloud,bio} |
+ jaligner | 5 | {bio} |
+ mlv-smile | 5 | {bio,cloud} |
orthanc-mysql | 5 | {imaging} |
- phyutility | 5 | {bio,cloud} |
- piler | 5 | {bio} |
- rdp-alignment | 5 | {bio} |
- rdp-readseq | 5 | {bio} |
- snap-aligner | 5 | {bio} |
- spread-phy | 5 | {bio-phylogeny,bio} |
- squizz | 5 | {bio,cloud} |
- tnseq-transit | 5 | {covid-19,bio} |
- transtermhp | 5 | {bio} |
- alter-sequence-alignment | 4 | {bio} |
- ampliconnoise | 4 | {cloud,bio} |
- bandage | 4 | {bio} |
+ sibsim4 | 5 | {bio,cloud} |
+ sigma-align | 5 | {bio-phylogeny,cloud,bio} |
+ staden | 5 | {bio} |
+ zalign | 5 | {cloud,bio} |
bart-view | 4 | {imaging} |
- biomaj3-daemon | 4 | {bio} |
- brig | 4 | {bio} |
- delly | 4 | {bio,covid-19} |
- edtsurf | 4 | {bio} |
- embassy-domainatrix | 4 | {cloud,bio} |
- embassy-domalign | 4 | {cloud,bio} |
- embassy-domsearch | 4 | {bio,cloud} |
- ghmm | 4 | {bio} |
- ipig | 4 | {bio} |
- libncl | 4 | {bio} |
- librdp-taxonomy-tree-java | 4 | {bio-dev} |
- maffilter | 4 | {bio} |
- mauve-aligner | 4 | {bio} |
- mhap | 4 | {bio-ngs,bio} |
+ gatb-core | 4 | {bio} |
+ microbegps | 4 | {bio} |
+ mipe | 4 | {cloud,bio} |
mrs | 4 | {bio} |
+ ncbi-seg | 4 | {bio} |
+ neobio | 4 | {cloud,bio} |
orthanc-postgresql | 4 | {imaging} |
pal2nal | 4 | {bio} |
- perm | 4 | {cloud,bio} |
- placnet | 4 | {bio} |
- predictprotein | 4 | {bio} |
- proalign | 4 | {bio-phylogeny,bio} |
- probabel | 4 | {cloud,bio} |
+ phyutility | 4 | {bio,cloud} |
+ piler | 4 | {bio} |
qrisk2 | 4 | {practice} |
- rambo-k | 4 | {bio} |
- rdp-classifier | 4 | {bio} |
- relion | 4 | {bio} |
- runcircos-gui | 4 | {bio} |
- saint | 4 | {bio} |
salmon | 4 | {bio,covid-19} |
- scythe | 4 | {bio} |
- segemehl | 4 | {bio} |
- seqmagick | 4 | {covid-19,bio} |
- tracetuner | 4 | {bio} |
- arden | 3 | {bio,cloud} |
- assemblytics | 3 | {bio} |
- baitfisher | 3 | {bio} |
- beast2-mcmc | 3 | {bio} |
- beast-mcmc | 3 | {bio-phylogeny,bio} |
- bio-rainbow | 3 | {bio} |
- biosig4c++ | 3 | {physics,imaging-dev} |
- bio-tradis | 3 | {bio-dev,bio} |
- bitseq | 3 | {bio} |
- canu | 3 | {bio} |
- centrifuge | 3 | {bio,covid-19} |
- clonalframeml | 3 | {bio,covid-19} |
- clonalorigin | 3 | {bio} |
- daligner | 3 | {bio-ngs,bio} |
- dascrubber | 3 | {bio} |
- dazzdb | 3 | {bio} |
- dindel | 3 | {bio} |
- dwgsim | 3 | {bio} |
- estscan | 3 | {bio} |
- fastml | 3 | {bio} |
- fsm-lite | 3 | {bio} |
- harvest-tools | 3 | {bio} |
- hinge | 3 | {bio} |
- jellyfish1 | 3 | {bio} |
- jmodeltest | 3 | {bio-phylogeny,bio} |
- lamarc | 3 | {bio} |
- libpal-java | 3 | {bio-dev} |
- metaphlan2 | 3 | {bio} |
- mptp | 3 | {bio} |
+ spread-phy | 4 | {bio-phylogeny,bio} |
+ squizz | 4 | {bio,cloud} |
+ tnseq-transit | 4 | {covid-19,bio} |
+ transtermhp | 4 | {bio} |
+ ampliconnoise | 3 | {cloud,bio} |
+ bandage | 3 | {bio} |
+ biomaj3-cli | 3 | {cloud} |
+ brig | 3 | {bio} |
+ busco | 3 | {covid-19,bio} |
+ delly | 3 | {bio,covid-19} |
+ ecopcr | 3 | {bio} |
+ edtsurf | 3 | {bio} |
+ elastix | 3 | {imaging} |
+ embassy-domainatrix | 3 | {cloud,bio} |
+ embassy-domalign | 3 | {cloud,bio} |
+ embassy-domsearch | 3 | {bio,cloud} |
+ ghmm | 3 | {bio} |
+ ipig | 3 | {bio} |
+ libncl | 3 | {bio} |
+ librdp-taxonomy-tree-java | 3 | {bio-dev} |
+ maffilter | 3 | {bio} |
+ mauve-aligner | 3 | {bio} |
+ mhap | 3 | {bio-ngs,bio} |
multiqc | 3 | {bio,covid-19} |
- murasaki | 3 | {bio} |
- nutsqlite | 3 | {tools} |
- openslide | 3 | {imaging-dev} |
- patman | 3 | {bio} |
- phast | 3 | {bio} |
- phybin | 3 | {bio} |
- prime-phylo | 3 | {bio,cloud} |
- prottest | 3 | {bio-phylogeny,bio} |
- pscan-chip | 3 | {bio} |
- pscan-tfbs | 3 | {bio} |
- qcumber | 3 | {bio} |
- quorum | 3 | {bio} |
- radiant | 3 | {bio} |
- rampler | 3 | {bio} |
- repeatmasker-recon | 3 | {bio} |
- roguenarok | 3 | {bio} |
- rtax | 3 | {cloud,bio} |
- samblaster | 3 | {covid-19,bio} |
- scrm | 3 | {bio} |
- sga | 3 | {bio} |
- soapaligner | 3 | {bio} |
- soapsnp | 3 | {bio} |
- spaced | 3 | {bio} |
- sprai | 3 | {bio} |
- suitename | 3 | {bio} |
- surankco | 3 | {bio} |
- sweed | 3 | {bio} |
- tvc | 3 | {bio} |
- yaha | 3 | {bio} |
- biosig4c++ | 2 | {physics,imaging-dev} |
- blasr | 2 | {bio,bio-ngs} |
- busco | 2 | {covid-19,bio} |
- elastix | 2 | {imaging} |
- embassy-phylip | 2 | {bio,cloud} |
+ perm | 3 | {cloud,bio} |
+ placnet | 3 | {bio} |
+ predictprotein | 3 | {bio} |
+ proalign | 3 | {bio-phylogeny,bio} |
+ probabel | 3 | {cloud,bio} |
+ rambo-k | 3 | {bio} |
+ rdp-alignment | 3 | {bio} |
+ rdp-classifier | 3 | {bio} |
+ rdp-readseq | 3 | {bio} |
+ relion | 3 | {bio} |
+ runcircos-gui | 3 | {bio} |
+ saint | 3 | {bio} |
+ scythe | 3 | {bio} |
+ segemehl | 3 | {bio} |
+ seqmagick | 3 | {covid-19,bio} |
+ snap-aligner | 3 | {bio} |
+ tracetuner | 3 | {bio} |
+ alter-sequence-alignment | 2 | {bio} |
+ arden | 2 | {bio,cloud} |
+ assemblytics | 2 | {bio} |
+ baitfisher | 2 | {bio} |
+ beast2-mcmc | 2 | {bio} |
+ beast-mcmc | 2 | {bio-phylogeny,bio} |
+ biomaj3-daemon | 2 | {bio} |
+ bio-rainbow | 2 | {bio} |
+ bio-tradis | 2 | {bio-dev,bio} |
+ bitseq | 2 | {bio} |
+ canu | 2 | {bio} |
+ centrifuge | 2 | {bio,covid-19} |
+ clonalframeml | 2 | {bio,covid-19} |
+ clonalorigin | 2 | {bio} |
+ daligner | 2 | {bio-ngs,bio} |
+ dascrubber | 2 | {bio} |
+ dazzdb | 2 | {bio} |
+ dindel | 2 | {bio} |
+ dwgsim | 2 | {bio} |
+ estscan | 2 | {bio} |
+ fastml | 2 | {bio} |
+ fsm-lite | 2 | {bio} |
+ harvest-tools | 2 | {bio} |
+ hinge | 2 | {bio} |
+ jellyfish1 | 2 | {bio} |
+ jmodeltest | 2 | {bio-phylogeny,bio} |
+ lamarc | 2 | {bio} |
libctapimkt | 2 | {practice} |
- libvistaio | 2 | {imaging-dev} |
- logol | 2 | {bio} |
- nanook | 2 | {bio,covid-19} |
+ libpal-java | 2 | {bio-dev} |
+ metaphlan2 | 2 | {bio} |
+ mptp | 2 | {bio} |
+ murasaki | 2 | {bio} |
ncbi-vdb | 2 | {bio-dev} |
+ nutsqlite | 2 | {tools} |
+ openslide | 2 | {imaging-dev} |
oscar | 2 | {practice,tools,data} |
- pbdagcon | 2 | {bio} |
- phipack | 2 | {bio} |
- plasmidseeker | 2 | {bio} |
+ patman | 2 | {bio} |
+ phast | 2 | {bio} |
+ phybin | 2 | {bio} |
+ prime-phylo | 2 | {bio,cloud} |
+ prottest | 2 | {bio-phylogeny,bio} |
+ pscan-chip | 2 | {bio} |
+ pscan-tfbs | 2 | {bio} |
+ qcumber | 2 | {bio} |
+ quorum | 2 | {bio} |
+ radiant | 2 | {bio} |
+ rampler | 2 | {bio} |
+ repeatmasker-recon | 2 | {bio} |
+ roguenarok | 2 | {bio} |
+ rtax | 2 | {cloud,bio} |
+ samblaster | 2 | {covid-19,bio} |
samtools-legacy | 2 | {bio-dev} |
+ scrm | 2 | {bio} |
seqan | 2 | {bio-dev} |
- velvetoptimiser | 2 | {bio} |
+ sga | 2 | {bio} |
+ soapaligner | 2 | {bio} |
+ soapsnp | 2 | {bio} |
+ spaced | 2 | {bio} |
+ sprai | 2 | {bio} |
+ suitename | 2 | {bio} |
+ surankco | 2 | {bio} |
+ sweed | 2 | {bio} |
+ tvc | 2 | {bio} |
+ yaha | 2 | {bio} |
atropos | 1 | {bio} |
+ biosig4c++ | 1 | {physics,imaging-dev} |
+ blasr | 1 | {bio,bio-ngs} |
blimps | 1 | {bio} |
cat-bat | 1 | {bio,covid-19} |
cufflinks | 1 | {cloud,bio} |
- emboss-explorer | 1 | {bio} |
+ embassy-phylip | 1 | {bio,cloud} |
gatb-core | 1 | {bio-dev} |
htscodecs | 1 | {covid-19,bio-dev} |
libchado-perl | 1 | {bio-dev} |
libdisorder | 1 | {bio-dev} |
- libmaus2 | 1 | {covid-19,bio-dev} |
- libmialm | 1 | {imaging-dev} |
libsbml | 1 | {bio-dev} |
- libxdf | 1 | {imaging-dev} |
+ libvistaio | 1 | {imaging-dev} |
+ logol | 1 | {bio} |
+ nanook | 1 | {bio,covid-19} |
ngs-sdk | 1 | {bio-dev} |
opensurgsim | 1 | {imaging-dev} |
- papyrus | 1 | {imaging-dev} |
pbcopper | 1 | {bio-dev} |
+ pbdagcon | 1 | {bio} |
+ phipack | 1 | {bio} |
+ plasmidseeker | 1 | {bio} |
python-py2bit | 1 | {bio,bio-dev} |
python-scitrack | 1 | {covid-19} |
q2templates | 1 | {bio} |
relion | 1 | {bio} |
sift | 1 | {bio} |
- simpleitk | 1 | {imaging-dev} |
thesias | 1 | {bio,covid-19} |
trace2dbest | 1 | {bio} |
- volpack | 1 | {imaging-dev} |
+ velvetoptimiser | 1 | {bio} |
wtdbg2 | 1 | {covid-19} |
acedb | 0 | {cloud,bio} |
augur | 0 | {covid-19,bio} |
@@ -220,6 +212,7 @@ Last-Update: Thu, 02 Jul 2020 01:42:04 +0000
biosyntax | 0 | {bio} |
camp | 0 | {imaging-dev} |
ctn | 0 | {imaging-dev} |
+ emboss-explorer | 0 | {bio} |
emmax | 0 | {bio} |
fis-gtm | 0 | {his} |
kma | 0 | {bio} |
@@ -240,7 +233,9 @@ Last-Update: Thu, 02 Jul 2020 01:42:04 +0000
libhmsbeagle | 0 | {bio-dev} |
libics | 0 | {imaging-dev,covid-19} |
libjloda-java | 0 | {bio-dev} |
+ libmaus2 | 0 | {covid-19,bio-dev} |
libmems | 0 | {bio-dev} |
+ libmialm | 0 | {imaging-dev} |
libmuscle | 0 | {bio-dev} |
libncl | 0 | {bio-dev} |
libpll | 0 | {bio-dev} |
@@ -248,6 +243,7 @@ Last-Update: Thu, 02 Jul 2020 01:42:04 +0000
libqes | 0 | {bio-dev} |
libseqlib | 0 | {bio-dev} |
libstatgen | 0 | {bio-dev} |
+ libxdf | 0 | {imaging-dev} |
metastudent-data | 0 | {bio} |
metastudent-data-2 | 0 | {bio} |
miaviewit | 0 | {imaging-dev} |
@@ -257,15 +253,17 @@ Last-Update: Thu, 02 Jul 2020 01:42:04 +0000
nanosv | 0 | {bio,covid-19} |
opencfu | 0 | {laboratory} |
orthanc-imagej | 0 | {imaging} |
+ papyrus | 0 | {imaging-dev} |
parallel-fastq-dump | 0 | {covid-19} |
pbseqlib | 0 | {bio-dev} |
pilercr | 0 | {bio} |
quicktree | 0 | {bio,covid-19,bio-phylogeny} |
- relion | 0 | {bio-dev} |
relion | 0 | {bio} |
+ relion | 0 | {bio-dev} |
sambamba | 0 | {bio} |
sbmltoolbox | 0 | {bio-dev} |
seq-gen | 0 | {bio} |
+ simpleitk | 0 | {imaging-dev} |
skesa | 0 | {bio} |
skewer | 0 | {bio} |
smrtanalysis | 0 | {covid-19,bio} |
@@ -275,10 +273,11 @@ Last-Update: Thu, 02 Jul 2020 01:42:04 +0000
tophat-recondition | 0 | {bio,covid-19} |
varna | 0 | {bio} |
varscan | 0 | {covid-19,bio} |
+ volpack | 0 | {imaging-dev} |
vtk-dicom | 0 | {imaging-dev} |
bustools | -1 | {bio,covid-19} |
pycoqc | -1 | {covid-19,bio} |
shovill | -1 | {bio,covid-19} |
yanagiba | -1 | {bio,covid-19} |
-(307 rows)
+(306 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/2b403620cd7fd68d210f16a14fa2ddfb0dfa73bc
--
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