Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
6a1cfa49 by Andreas Tille at 2020-06-17T13:42:59+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,115 +1,92 @@
-Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
+Last-Update: Wed, 17 Jun 2020 13:42:04 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
dcmtk | 182 | {imaging,covid-19} |
- orthanc | 91 | {covid-19,imaging,practice} |
- gdcm | 48 | {imaging-dev} |
- orthanc-wsi | 37 | {covid-19,his,imaging,oncology,practice,laboratory} |
- htsjdk | 35 | {bio-dev} |
+ orthanc | 91 | {practice,covid-19,imaging} |
+ gdcm | 46 | {imaging-dev} |
+ orthanc-wsi | 38 | {laboratory,his,practice,imaging,covid-19,oncology} |
+ htsjdk | 34 | {bio-dev} |
dcm2niix | 25 | {imaging} |
- dicom3tools | 25 | {imaging} |
+ dicom3tools | 24 | {imaging} |
dicomscope | 23 | {imaging} |
gdcm | 19 | {covid-19,imaging} |
+ ngs-sdk | 19 | {bio-dev} |
gnumed-server | 18 | {covid-19,practice} |
- ngs-sdk | 17 | {bio-dev} |
- insighttoolkit4 | 14 | {imaging-dev} |
- invesalius | 14 | {imaging} |
- minc-tools | 14 | {imaging} |
gdcm | 13 | {imaging-dev} |
+ insighttoolkit4 | 13 | {imaging-dev} |
+ invesalius | 12 | {imaging} |
+ minc-tools | 12 | {imaging} |
adun.app | 11 | {bio} |
- jebl2 | 11 | {bio-dev} |
plastimatch | 11 | {imaging} |
- king | 10 | {typesetting,imaging} |
+ jebl2 | 10 | {bio-dev} |
+ king | 10 | {imaging,typesetting} |
biosig4c++ | 9 | {imaging,physics} |
+ librg-utils-perl | 9 | {bio} |
openslide | 9 | {imaging} |
pixelmed | 9 | {imaging} |
vtk-dicom | 9 | {imaging} |
- biojava-live | 8 | {bio-dev} |
- librg-utils-perl | 8 | {bio} |
melting | 8 | {cloud,bio} |
+ ngs-sdk | 8 | {bio-dev} |
psychopy | 8 | {psychology} |
+ biojava-live | 7 | {bio-dev} |
dicompyler | 7 | {oncology} |
- fastlink | 7 | {cloud,bio} |
+ fastlink | 7 | {bio,cloud} |
ncbi-seg | 7 | {bio} |
- ngs-sdk | 7 | {bio-dev} |
orthanc-webviewer | 7 | {imaging} |
- sibsim4 | 7 | {bio,cloud} |
+ sibsim4 | 7 | {cloud,bio} |
vsearch | 7 | {bio,covid-19} |
- biomaj3-cli | 6 | {cloud} |
- brig | 6 | {bio} |
- ea-utils | 6 | {bio} |
- ecopcr | 6 | {bio} |
- maqview | 6 | {bio} |
- mipe | 6 | {cloud,bio} |
+ king-probe | 6 | {bio} |
obitools | 6 | {bio} |
- orthanc-dicomweb | 6 | {imaging,covid-19} |
+ orthanc-dicomweb | 6 | {covid-19,imaging} |
phyutility | 6 | {bio,cloud} |
piler | 6 | {bio} |
pymia | 6 | {imaging-dev} |
- radiant | 6 | {bio} |
seqsero | 6 | {bio} |
- sigma-align | 6 | {bio-phylogeny,bio,cloud} |
+ sigma-align | 6 | {cloud,bio,bio-phylogeny} |
snap-aligner | 6 | {bio} |
- spread-phy | 6 | {bio,bio-phylogeny} |
+ spread-phy | 6 | {bio-phylogeny,bio} |
staden | 6 | {bio} |
- treeview | 6 | {bio,bio-phylogeny} |
- alter-sequence-alignment | 5 | {bio} |
- ampliconnoise | 5 | {cloud,bio} |
- anfo | 5 | {bio,cloud} |
- arden | 5 | {bio,cloud} |
- bandage | 5 | {bio} |
- beast-mcmc | 5 | {bio,bio-phylogeny} |
- biomaj3-daemon | 5 | {bio} |
- bio-tradis | 5 | {bio-dev,bio} |
- delly | 5 | {bio,covid-19} |
+ treeview | 6 | {bio-phylogeny,bio} |
+ biomaj3-cli | 5 | {cloud} |
+ brig | 5 | {bio} |
+ 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} |
- gatb-core | 5 | {bio} |
- king-probe | 5 | {bio} |
- lagan | 5 | {bio} |
+ jaligner | 5 | {bio} |
libdivsufsort | 5 | {bio-dev} |
- libminc | 5 | {imaging-dev} |
- neobio | 5 | {bio,cloud} |
+ maqview | 5 | {bio} |
+ mipe | 5 | {bio,cloud} |
+ neobio | 5 | {cloud,bio} |
nutsqlite | 5 | {tools} |
orthanc-mysql | 5 | {imaging} |
predictprotein | 5 | {bio} |
- pscan-tfbs | 5 | {bio} |
rdp-alignment | 5 | {bio} |
rdp-readseq | 5 | {bio} |
runcircos-gui | 5 | {bio} |
- saint | 5 | {bio} |
sickle | 5 | {bio} |
- squizz | 5 | {bio,cloud} |
- stacks | 5 | {bio} |
- tracetuner | 5 | {bio} |
- transtermhp | 5 | {bio} |
- assemblytics | 4 | {bio} |
- baitfisher | 4 | {bio} |
+ squizz | 5 | {cloud,bio} |
+ alter-sequence-alignment | 4 | {bio} |
+ ampliconnoise | 4 | {bio,cloud} |
+ anfo | 4 | {cloud,bio} |
+ arden | 4 | {cloud,bio} |
+ bandage | 4 | {bio} |
bart-view | 4 | {imaging} |
- beads | 4 | {bio} |
- beast2-mcmc | 4 | {bio} |
- bio-rainbow | 4 | {bio} |
- bitseq | 4 | {bio} |
- canu | 4 | {bio} |
- centrifuge | 4 | {covid-19,bio} |
- clonalframeml | 4 | {bio,covid-19} |
- clonalorigin | 4 | {bio} |
- daligner | 4 | {bio-ngs,bio} |
- dascrubber | 4 | {bio} |
- dazzdb | 4 | {bio} |
- dindel | 4 | {bio} |
+ beast-mcmc | 4 | {bio-phylogeny,bio} |
+ biomaj3-daemon | 4 | {bio} |
+ bio-tradis | 4 | {bio,bio-dev} |
+ delly | 4 | {covid-19,bio} |
edtsurf | 4 | {bio} |
- estscan | 4 | {bio} |
+ embassy-domainatrix | 4 | {bio,cloud} |
+ embassy-domalign | 4 | {bio,cloud} |
+ embassy-domsearch | 4 | {cloud,bio} |
+ gatb-core | 4 | {bio} |
getdata | 4 | {bio} |
ghmm | 4 | {bio} |
- harvest-tools | 4 | {bio} |
ipig | 4 | {bio} |
- jaligner | 4 | {bio} |
jellyfish1 | 4 | {bio} |
- libncl | 4 | {bio} |
+ lagan | 4 | {bio} |
+ libminc | 4 | {imaging-dev} |
librdp-taxonomy-tree-java | 4 | {bio-dev} |
maffilter | 4 | {bio} |
mauve-aligner | 4 | {bio} |
@@ -117,78 +94,102 @@ Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
microbegps | 4 | {bio} |
mlv-smile | 4 | {cloud,bio} |
mrs | 4 | {bio} |
- murasaki | 4 | {bio} |
openslide | 4 | {imaging-dev} |
orthanc-postgresql | 4 | {imaging} |
- paraclu | 4 | {cloud,bio} |
- perm | 4 | {bio,cloud} |
- phast | 4 | {bio} |
+ paraclu | 4 | {bio,cloud} |
+ perm | 4 | {cloud,bio} |
placnet | 4 | {bio} |
- prime-phylo | 4 | {bio,cloud} |
proalign | 4 | {bio-phylogeny,bio} |
probabel | 4 | {cloud,bio} |
- pscan-chip | 4 | {bio} |
+ pscan-tfbs | 4 | {bio} |
qrisk2 | 4 | {practice} |
- quorum | 4 | {bio} |
+ radiant | 4 | {bio} |
rambo-k | 4 | {bio} |
rdp-classifier | 4 | {bio} |
- relion | 4 | {bio} |
rtax | 4 | {cloud,bio} |
+ saint | 4 | {bio} |
salmon | 4 | {covid-19,bio} |
scythe | 4 | {bio} |
segemehl | 4 | {bio} |
- soapsnp | 4 | {bio} |
- surankco | 4 | {bio} |
+ stacks | 4 | {bio} |
tnseq-transit | 4 | {covid-19,bio} |
- yaha | 4 | {bio} |
- zalign | 4 | {bio,cloud} |
- blasr | 3 | {bio,bio-ngs} |
+ tracetuner | 4 | {bio} |
+ transtermhp | 4 | {bio} |
+ assemblytics | 3 | {bio} |
+ baitfisher | 3 | {bio} |
+ beads | 3 | {bio} |
+ beast2-mcmc | 3 | {bio} |
+ bio-rainbow | 3 | {bio} |
+ bitseq | 3 | {bio} |
+ canu | 3 | {bio} |
+ centrifuge | 3 | {covid-19,bio} |
+ clonalframeml | 3 | {covid-19,bio} |
+ clonalorigin | 3 | {bio} |
+ daligner | 3 | {bio,bio-ngs} |
+ dascrubber | 3 | {bio} |
+ dazzdb | 3 | {bio} |
+ dindel | 3 | {bio} |
dwgsim | 3 | {bio} |
elph | 3 | {bio} |
+ estscan | 3 | {bio} |
fastml | 3 | {bio} |
fsm-lite | 3 | {bio} |
+ harvest-tools | 3 | {bio} |
hinge | 3 | {bio} |
jmodeltest | 3 | {bio,bio-phylogeny} |
lamarc | 3 | {bio} |
+ libncl | 3 | {bio} |
libpal-java | 3 | {bio-dev} |
logol | 3 | {bio} |
metaphlan2 | 3 | {bio} |
mptp | 3 | {bio} |
+ murasaki | 3 | {bio} |
nanook | 3 | {covid-19,bio} |
patman | 3 | {bio} |
- pbdagcon | 3 | {bio} |
+ phast | 3 | {bio} |
phipack | 3 | {bio} |
phybin | 3 | {bio} |
pilon | 3 | {bio} |
plasmidseeker | 3 | {bio} |
- prottest | 3 | {bio-phylogeny,bio} |
+ prime-phylo | 3 | {bio,cloud} |
+ prottest | 3 | {bio,bio-phylogeny} |
+ pscan-chip | 3 | {bio} |
qcumber | 3 | {bio} |
+ quorum | 3 | {bio} |
rampler | 3 | {bio} |
+ relion | 3 | {bio} |
repeatmasker-recon | 3 | {bio} |
roguenarok | 3 | {bio} |
- samblaster | 3 | {covid-19,bio} |
+ samblaster | 3 | {bio,covid-19} |
scrm | 3 | {bio} |
seqmagick | 3 | {covid-19,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} |
velvetoptimiser | 3 | {bio} |
- biosig4c++ | 2 | {imaging-dev,physics} |
+ yaha | 3 | {bio} |
+ zalign | 3 | {bio,cloud} |
+ biosig4c++ | 2 | {physics,imaging-dev} |
+ blasr | 2 | {bio-ngs,bio} |
blimps | 2 | {bio} |
- busco | 2 | {bio,covid-19} |
- embassy-phylip | 2 | {bio,cloud} |
+ busco | 2 | {covid-19,bio} |
+ embassy-phylip | 2 | {cloud,bio} |
emboss-explorer | 2 | {bio} |
libsbml | 2 | {bio-dev} |
ngs-sdk | 2 | {bio-dev} |
+ oscar | 2 | {data,practice,tools} |
pal2nal | 2 | {bio} |
papyrus | 2 | {imaging-dev} |
+ pbdagcon | 2 | {bio} |
relion | 2 | {bio} |
sift | 2 | {bio} |
trace2dbest | 2 | {bio} |
- cat-bat | 1 | {covid-19,bio} |
+ cat-bat | 1 | {bio,covid-19} |
ctn | 1 | {imaging-dev} |
gatb-core | 1 | {bio-dev} |
libbio-mage-utils-perl | 1 | {bio-dev} |
@@ -198,8 +199,9 @@ Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
libxdf | 1 | {imaging-dev} |
murasaki | 1 | {bio} |
opensurgsim | 1 | {imaging-dev} |
- oscar | 1 | {data,practice,tools} |
+ parallel-fastq-dump | 1 | {covid-19} |
python-scitrack | 1 | {covid-19} |
+ q2templates | 1 | {bio} |
relion | 1 | {bio} |
seqan | 1 | {bio-dev} |
simpleitk | 1 | {imaging-dev} |
@@ -214,7 +216,7 @@ Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
biosig4c++ | 0 | {physics} |
biosyntax | 0 | {bio} |
camp | 0 | {imaging-dev} |
- cufflinks | 0 | {bio,cloud} |
+ cufflinks | 0 | {cloud,bio} |
drop-seq | 0 | {bio,covid-19} |
emmax | 0 | {bio} |
fis-gtm | 0 | {his} |
@@ -239,7 +241,7 @@ Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
libhmsbeagle | 0 | {bio-dev} |
libics | 0 | {imaging-dev,covid-19} |
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} |
@@ -251,19 +253,17 @@ Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
metastudent-data | 0 | {bio} |
metastudent-data-2 | 0 | {bio} |
miaviewit | 0 | {imaging-dev} |
- milib | 0 | {bio-dev,covid-19} |
+ milib | 0 | {covid-19,bio-dev} |
mssstest | 0 | {tools} |
- multiqc | 0 | {bio,covid-19} |
+ multiqc | 0 | {covid-19,bio} |
ncbi-vdb | 0 | {bio-dev} |
opencfu | 0 | {laboratory} |
orthanc-imagej | 0 | {imaging} |
- parallel-fastq-dump | 0 | {covid-19} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
pilercr | 0 | {bio} |
- python-py2bit | 0 | {bio-dev,bio} |
- q2templates | 0 | {bio} |
- quicktree | 0 | {bio,bio-phylogeny,covid-19} |
+ python-py2bit | 0 | {bio,bio-dev} |
+ quicktree | 0 | {covid-19,bio-phylogeny,bio} |
relion | 0 | {bio-dev} |
relion | 0 | {bio} |
sambamba | 0 | {bio} |
@@ -276,12 +276,12 @@ Last-Update: Wed, 17 Jun 2020 01:42:03 +0000
spaln | 0 | {bio,covid-19} |
srf | 0 | {bio-dev} |
stringtie | 0 | {bio,covid-19} |
- thesias | 0 | {bio,covid-19} |
+ thesias | 0 | {covid-19,bio} |
tophat-recondition | 0 | {bio,covid-19} |
varna | 0 | {bio} |
varscan | 0 | {covid-19,bio} |
vtk-dicom | 0 | {imaging-dev} |
- bustools | -1 | {covid-19,bio} |
+ bustools | -1 | {bio,covid-19} |
flash | -1 | {covid-19,bio} |
pycoqc | -1 | {bio,covid-19} |
(311 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/6a1cfa49cf3ab0bb1e8a9c781e413b6a3757e358
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