Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
babd1cbb by Andreas Tille at 2020-08-26T13:45:02+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,211 +1,191 @@
-Last-Update: Wed, 26 Aug 2020 01:42:03 +0000
+Last-Update: Wed, 26 Aug 2020 13:42:04 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
dcmtk | 165 | {imaging,covid-19} |
- orthanc | 89 | {practice,covid-19,imaging} |
- orthanc-wsi | 45 | {his,laboratory,covid-19,imaging,practice,oncology} |
- gdcm | 37 | {imaging-dev} |
- dicom3tools | 25 | {imaging} |
- htsjdk | 22 | {bio-dev} |
- dicomscope | 21 | {imaging} |
- dcm2niix | 20 | {imaging} |
- gdcm | 17 | {covid-19,imaging} |
- gnumed-server | 17 | {covid-19,practice} |
+ orthanc | 90 | {practice,covid-19,imaging} |
+ orthanc-wsi | 46 | {his,laboratory,covid-19,imaging,practice,oncology} |
+ gdcm | 36 | {imaging-dev} |
+ dicom3tools | 28 | {imaging} |
+ dicomscope | 23 | {imaging} |
+ htsjdk | 23 | {bio-dev} |
+ gnumed-server | 20 | {covid-19,practice} |
+ gdcm | 15 | {covid-19,imaging} |
+ dcm2niix | 14 | {imaging} |
ngs-sdk | 14 | {bio-dev} |
+ invesalius | 13 | {imaging} |
gdcm | 12 | {imaging-dev} |
insighttoolkit4 | 12 | {imaging-dev} |
- invesalius | 11 | {imaging} |
- minc-tools | 9 | {imaging} |
+ minc-tools | 11 | {imaging} |
+ openslide | 11 | {imaging} |
+ adun.app | 10 | {bio} |
+ nifticlib | 10 | {imaging-dev} |
+ pixelmed | 10 | {imaging} |
+ melting | 9 | {cloud,bio} |
ngs-sdk | 9 | {bio-dev} |
- adun.app | 8 | {bio} |
- openslide | 8 | {imaging} |
- orthanc-webviewer | 8 | {imaging} |
- pixelmed | 8 | {imaging} |
- psychopy | 8 | {psychology} |
- bart-view | 7 | {imaging} |
- fastlink | 7 | {bio,cloud} |
- jebl2 | 7 | {bio-dev} |
- melting | 7 | {cloud,bio} |
- orthanc-dicomweb | 7 | {covid-19,imaging} |
- phyutility | 7 | {bio,cloud} |
- sibsim4 | 7 | {bio,cloud} |
+ nifticlib | 9 | {imaging} |
+ plastimatch | 9 | {imaging} |
+ fastlink | 8 | {bio,cloud} |
+ librg-utils-perl | 8 | {bio} |
+ biosig4c++ | 7 | {physics,imaging} |
+ libminc | 7 | {imaging-dev} |
+ obitools | 7 | {bio} |
+ orthanc-webviewer | 7 | {imaging} |
sigma-align | 7 | {bio,cloud,bio-phylogeny} |
+ treeview | 7 | {bio,bio-phylogeny} |
+ vtk-dicom | 7 | {imaging} |
biojava-live | 6 | {bio-dev} |
+ dicompyler | 6 | {oncology} |
+ jebl2 | 6 | {bio-dev} |
king | 6 | {typesetting,imaging} |
- librg-utils-perl | 6 | {bio} |
- mipe | 6 | {cloud,bio} |
- obitools | 6 | {bio} |
- orthanc-mysql | 6 | {imaging} |
- piler | 6 | {bio} |
- stacks | 6 | {bio} |
- vtk-dicom | 6 | {imaging} |
- anfo | 5 | {cloud,bio} |
- biomaj3-cli | 5 | {cloud} |
- biosig4c++ | 5 | {physics,imaging} |
+ pymia | 6 | {imaging-dev} |
+ sibsim4 | 6 | {bio,cloud} |
+ bart-view | 5 | {imaging} |
+ ea-utils | 5 | {bio} |
ecopcr | 5 | {bio} |
- elastix | 5 | {imaging} |
- embassy-domainatrix | 5 | {cloud,bio} |
- embassy-domalign | 5 | {cloud,bio} |
- embassy-domsearch | 5 | {cloud,bio} |
+ edtsurf | 5 | {bio} |
+ ipig | 5 | {bio} |
libdivsufsort | 5 | {bio-dev} |
- neobio | 5 | {cloud,bio} |
- orthanc-postgresql | 5 | {imaging} |
- paraclu | 5 | {bio,cloud} |
- perm | 5 | {cloud,bio} |
- plastimatch | 5 | {imaging} |
- probabel | 5 | {bio,cloud} |
- pymia | 5 | {imaging-dev} |
- rdp-readseq | 5 | {bio} |
- repeatmasker-recon | 5 | {bio} |
- saint | 5 | {bio} |
+ libncl | 5 | {bio} |
+ librdp-taxonomy-tree-java | 5 | {bio-dev} |
+ mipe | 5 | {cloud,bio} |
+ multiqc | 5 | {bio,covid-19} |
+ orthanc-dicomweb | 5 | {covid-19,imaging} |
+ phyutility | 5 | {bio,cloud} |
+ piler | 5 | {bio} |
+ predictprotein | 5 | {bio} |
+ rdp-alignment | 5 | {bio} |
+ rdp-classifier | 5 | {bio} |
spread-phy | 5 | {bio-phylogeny,bio} |
- squizz | 5 | {bio,cloud} |
- staden | 5 | {bio} |
- transtermhp | 5 | {bio} |
- alter-sequence-alignment | 4 | {bio} |
- biomaj3-daemon | 4 | {bio} |
- bio-rainbow | 4 | {bio} |
- daligner | 4 | {bio,bio-ngs} |
- dascrubber | 4 | {bio} |
- dindel | 4 | {bio} |
- ea-utils | 4 | {bio} |
- edtsurf | 4 | {bio} |
- fastml | 4 | {bio} |
- fsm-lite | 4 | {bio} |
- gatb-core | 4 | {bio} |
- ghmm | 4 | {bio} |
- harvest-tools | 4 | {bio} |
- ipig | 4 | {bio} |
- lagan | 4 | {bio} |
- libminc | 4 | {imaging-dev} |
- libncl | 4 | {bio} |
- librdp-taxonomy-tree-java | 4 | {bio-dev} |
- maffilter | 4 | {bio} |
+ anfo | 4 | {cloud,bio} |
+ embassy-domainatrix | 4 | {cloud,bio} |
+ embassy-domalign | 4 | {cloud,bio} |
+ embassy-domsearch | 4 | {cloud,bio} |
mauve-aligner | 4 | {bio} |
- phybin | 4 | {bio} |
- predictprotein | 4 | {bio} |
+ mrs | 4 | {bio} |
+ neobio | 4 | {cloud,bio} |
+ orthanc-mysql | 4 | {imaging} |
+ orthanc-postgresql | 4 | {imaging} |
+ paraclu | 4 | {bio,cloud} |
+ perm | 4 | {cloud,bio} |
proalign | 4 | {bio,bio-phylogeny} |
- radiant | 4 | {bio} |
- rdp-alignment | 4 | {bio} |
- rdp-classifier | 4 | {bio} |
relion | 4 | {bio} |
- rtax | 4 | {cloud,bio} |
- runcircos-gui | 4 | {bio} |
+ saint | 4 | {bio} |
salmon | 4 | {covid-19,bio} |
- scrm | 4 | {bio} |
- scythe | 4 | {bio} |
- sprai | 4 | {bio} |
- tracetuner | 4 | {bio} |
- treeview | 4 | {bio,bio-phylogeny} |
- ampliconnoise | 3 | {bio,cloud} |
- assemblytics | 3 | {bio} |
- baitfisher | 3 | {bio} |
- bandage | 3 | {bio} |
+ stacks | 4 | {bio} |
+ staden | 4 | {bio} |
+ zalign | 4 | {cloud,bio} |
+ alter-sequence-alignment | 3 | {bio} |
+ arden | 3 | {cloud,bio} |
beast2-mcmc | 3 | {bio} |
beast-mcmc | 3 | {bio,bio-phylogeny} |
- bitseq | 3 | {bio} |
- centrifuge | 3 | {covid-19,bio} |
- clonalframeml | 3 | {bio,covid-19} |
- clonalorigin | 3 | {bio} |
- delly | 3 | {covid-19,bio} |
- dicompyler | 3 | {oncology} |
- estscan | 3 | {bio} |
- hinge | 3 | {bio} |
+ biomaj3-cli | 3 | {cloud} |
+ brig | 3 | {bio} |
+ busco | 3 | {bio,covid-19} |
+ dindel | 3 | {bio} |
+ fastml | 3 | {bio} |
+ fsm-lite | 3 | {bio} |
+ gatb-core | 3 | {bio} |
+ harvest-tools | 3 | {bio} |
jellyfish1 | 3 | {bio} |
jmodeltest | 3 | {bio-phylogeny,bio} |
- lamarc | 3 | {bio} |
+ lagan | 3 | {bio} |
libpal-java | 3 | {bio-dev} |
- libsbml | 3 | {bio-dev} |
metaphlan2 | 3 | {bio} |
microbegps | 3 | {bio} |
- mrs | 3 | {bio} |
nutsqlite | 3 | {tools} |
- openslide | 3 | {imaging-dev} |
oscar | 3 | {data,practice,tools} |
- patman | 3 | {bio} |
phast | 3 | {bio} |
- phipack | 3 | {bio} |
+ phybin | 3 | {bio} |
placnet | 3 | {bio} |
prime-phylo | 3 | {cloud,bio} |
- pscan-chip | 3 | {bio} |
- pscan-tfbs | 3 | {bio} |
- quorum | 3 | {bio} |
- rampler | 3 | {bio} |
- samblaster | 3 | {covid-19,bio} |
- segemehl | 3 | {bio} |
- seqmagick | 3 | {bio,covid-19} |
- seqsero | 3 | {bio} |
+ prottest | 3 | {bio,bio-phylogeny} |
+ radiant | 3 | {bio} |
+ rtax | 3 | {cloud,bio} |
+ scrm | 3 | {bio} |
sga | 3 | {bio} |
- soapaligner | 3 | {bio} |
- soapsnp | 3 | {bio} |
spaced | 3 | {bio} |
+ sprai | 3 | {bio} |
suitename | 3 | {bio} |
- sweed | 3 | {bio} |
- tnseq-transit | 3 | {bio,covid-19} |
- tvc | 3 | {bio} |
- velvetoptimiser | 3 | {bio} |
- yaha | 3 | {bio} |
- acedb | 2 | {cloud,bio} |
- arden | 2 | {cloud,bio} |
+ tracetuner | 3 | {bio} |
+ assemblytics | 2 | {bio} |
+ biomaj3-daemon | 2 | {bio} |
bio-tradis | 2 | {bio,bio-dev} |
+ bitseq | 2 | {bio} |
blasr | 2 | {bio-ngs,bio} |
- brig | 2 | {bio} |
- busco | 2 | {bio,covid-19} |
canu | 2 | {bio} |
+ clonalframeml | 2 | {bio,covid-19} |
+ clonalorigin | 2 | {bio} |
+ cufflinks | 2 | {bio,cloud} |
+ delly | 2 | {covid-19,bio} |
+ elastix | 2 | {imaging} |
+ estscan | 2 | {bio} |
getdata | 2 | {bio} |
- kma | 2 | {bio} |
+ ghmm | 2 | {bio} |
+ hinge | 2 | {bio} |
+ lamarc | 2 | {bio} |
libctapimkt | 2 | {practice} |
+ logol | 2 | {bio} |
mhap | 2 | {bio-ngs,bio} |
- multiqc | 2 | {bio,covid-19} |
murasaki | 2 | {bio} |
+ openslide | 2 | {imaging-dev} |
+ patman | 2 | {bio} |
pbdagcon | 2 | {bio} |
- plasmidseeker | 2 | {bio} |
- prottest | 2 | {bio,bio-phylogeny} |
+ pscan-chip | 2 | {bio} |
qcumber | 2 | {bio} |
+ quorum | 2 | {bio} |
rambo-k | 2 | {bio} |
+ runcircos-gui | 2 | {bio} |
+ samblaster | 2 | {covid-19,bio} |
+ segemehl | 2 | {bio} |
+ seqsero | 2 | {bio} |
+ soapaligner | 2 | {bio} |
+ soapsnp | 2 | {bio} |
surankco | 2 | {bio} |
- zalign | 2 | {cloud,bio} |
- atropos | 1 | {bio} |
+ sweed | 2 | {bio} |
+ tvc | 2 | {bio} |
+ velvetoptimiser | 2 | {bio} |
+ yaha | 2 | {bio} |
+ acedb | 1 | {cloud,bio} |
biosig4c++ | 1 | {physics,imaging-dev} |
blimps | 1 | {bio} |
cat-bat | 1 | {covid-19,bio} |
+ conda-package-handling | 1 | {bio-dev,bio} |
+ dextractor | 1 | {bio,covid-19} |
embassy-phylip | 1 | {cloud,bio} |
- emmax | 1 | {bio} |
- kmerresistance | 1 | {bio} |
- libhmsbeagle | 1 | {bio-dev} |
+ emboss-explorer | 1 | {bio} |
+ gatb-core | 1 | {bio-dev} |
+ intake | 1 | {bio-dev,bio} |
+ libsbml | 1 | {bio-dev} |
libvistaio | 1 | {imaging-dev} |
- logol | 1 | {bio} |
- ngs-sdk | 1 | {bio-dev} |
+ lighter | 1 | {covid-19,bio} |
opensurgsim | 1 | {imaging-dev} |
papyrus | 1 | {imaging-dev} |
- pilercr | 1 | {bio} |
+ plasmidseeker | 1 | {bio} |
q2templates | 1 | {bio} |
relion | 1 | {bio} |
samtools-legacy | 1 | {bio-dev} |
seqan | 1 | {bio-dev} |
sift | 1 | {bio} |
+ sight | 1 | {imaging} |
simpleitk | 1 | {imaging-dev} |
- skesa | 1 | {bio} |
- srf | 1 | {bio-dev} |
- stringtie | 1 | {bio,covid-19} |
trace2dbest | 1 | {bio} |
+ vienna-rna | 1 | {covid-19,bio} |
+ atropos | 0 | {bio} |
bambamc | 0 | {bio-dev} |
bamkit | 0 | {covid-19,bio} |
bbmap | 0 | {covid-19,bio} |
biojava4-live | 0 | {bio-dev} |
biosig4c++ | 0 | {physics} |
biosyntax | 0 | {bio} |
+ bustools | 0 | {bio,covid-19} |
camp | 0 | {imaging-dev} |
- conda-package-handling | 0 | {bio-dev,bio} |
ctn | 0 | {imaging-dev} |
- cufflinks | 0 | {bio,cloud} |
- dextractor | 0 | {bio,covid-19} |
- emboss-explorer | 0 | {bio} |
+ emmax | 0 | {bio} |
fis-gtm | 0 | {his} |
- gatb-core | 0 | {bio-dev} |
htscodecs | 0 | {covid-19,bio-dev} |
- intake | 0 | {bio-dev,bio} |
+ kma | 0 | {bio} |
+ kmerresistance | 0 | {bio} |
libbigwig | 0 | {bio-dev} |
libbiod | 0 | {bio-dev} |
libbio-mage-utils-perl | 0 | {bio-dev} |
@@ -221,6 +201,7 @@ Last-Update: Wed, 26 Aug 2020 01:42:03 +0000
libdisorder | 0 | {bio-dev} |
libgenome | 0 | {bio-dev} |
libgkarrays | 0 | {bio-dev} |
+ libhmsbeagle | 0 | {bio-dev} |
libics | 0 | {covid-19,imaging-dev} |
libjloda-java | 0 | {bio-dev} |
libmaus2 | 0 | {covid-19,bio-dev} |
@@ -233,45 +214,44 @@ Last-Update: Wed, 26 Aug 2020 01:42:03 +0000
libseqlib | 0 | {bio-dev} |
libstatgen | 0 | {bio-dev} |
libxdf | 0 | {imaging-dev} |
- lighter | 0 | {covid-19,bio} |
metastudent-data | 0 | {bio} |
metastudent-data-2 | 0 | {bio} |
miaviewit | 0 | {imaging-dev} |
milib | 0 | {covid-19,bio-dev} |
- mssstest | 0 | {tools} |
murasaki | 0 | {bio} |
+ nanosv | 0 | {bio,covid-19} |
ncbi-vdb | 0 | {bio-dev} |
+ ngs-sdk | 0 | {bio-dev} |
+ nifticlib | 0 | {imaging-dev} |
opencfu | 0 | {laboratory} |
orthanc-imagej | 0 | {imaging} |
parallel-fastq-dump | 0 | {covid-19} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
- quicktree | 0 | {covid-19,bio-phylogeny,bio} |
- relion | 0 | {bio} |
+ pilercr | 0 | {bio} |
+ pplacer | 0 | {covid-19,bio,bio-phylogeny} |
relion | 0 | {bio-dev} |
+ relion | 0 | {bio} |
sambamba | 0 | {bio} |
sbmltoolbox | 0 | {bio-dev} |
+ scrappie | 0 | {covid-19,bio} |
seq-gen | 0 | {bio} |
- sight | 0 | {imaging} |
simpleitk | 0 | {imaging-dev} |
+ skesa | 0 | {bio} |
skewer | 0 | {bio} |
smrtanalysis | 0 | {bio,covid-19} |
spaln | 0 | {covid-19,bio} |
+ srf | 0 | {bio-dev} |
+ stringtie | 0 | {bio,covid-19} |
thesias | 0 | {covid-19,bio} |
tophat-recondition | 0 | {bio,covid-19} |
varna | 0 | {bio} |
varscan | 0 | {bio,covid-19} |
- vienna-rna | 0 | {covid-19,bio} |
- volpack | 0 | {imaging-dev} |
vtk-dicom | 0 | {imaging-dev} |
- wtdbg2 | 0 | {covid-19} |
- bustools | -1 | {bio,covid-19} |
- nanosv | -1 | {bio,covid-19} |
+ yanagiba | 0 | {bio,covid-19} |
+ mssstest | -1 | {tools} |
orthanc-python | -1 | {covid-19} |
- pplacer | -1 | {covid-19,bio,bio-phylogeny} |
- pycoqc | -1 | {bio,covid-19} |
shovill | -1 | {bio,covid-19} |
sight | -1 | {imaging-dev} |
- yanagiba | -1 | {bio,covid-19} |
-(300 rows)
+(280 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/babd1cbb72fbe31857533deb133ce1a9671a7e58
--
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