Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
c0424c80 by Andreas Tille at 2020-03-02T13:44:37+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,141 +1,124 @@
-Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
+Last-Update: Mon, 02 Mar 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+--------------------------------------------+----------------------------------------------------------------------
dcmtk | 172 | {imaging} |
orthanc | 95 | {practice,imaging} |
gdcm | 46 | {imaging-dev} |
+ dcm2niix | 37 | {imaging} |
orthanc-wsi | 37 | {oncology,imaging,his,laboratory,practice} |
- dcm2niix | 36 | {imaging} |
- cfflib | 35 | {imaging-dev} |
- amide | 32 | {imaging} |
- dicomscope | 26 | {imaging} |
+ amide | 33 | {imaging} |
+ dicomscope | 27 | {imaging} |
medicalterms | 26 | {tools} |
- dicom3tools | 23 | {imaging} |
- htsjdk | 22 | {bio-dev} |
+ dicom3tools | 24 | {imaging} |
+ htsjdk | 23 | {bio-dev} |
gdcm | 17 | {imaging} |
gnumed-server | 17 | {practice} |
ngs-sdk | 13 | {bio-dev} |
adun.app | 12 | {bio} |
- insighttoolkit4 | 12 | {imaging-dev} |
+ invesalius | 12 | {imaging} |
pixelmed | 12 | {imaging} |
- invesalius | 11 | {imaging} |
- king | 11 | {imaging,typesetting} |
minc-tools | 11 | {imaging} |
- plastimatch | 10 | {imaging} |
- vtk-dicom | 10 | {imaging} |
+ king | 10 | {imaging,typesetting} |
+ insighttoolkit4 | 9 | {imaging-dev} |
jebl2 | 9 | {bio-dev} |
mia | 9 | {imaging} |
tree-puzzle | 9 | {bio,bio-phylogeny,cloud} |
+ vtk-dicom | 9 | {imaging} |
biojava-live | 8 | {bio-dev} |
gdcm | 8 | {imaging-dev} |
obitools | 8 | {bio} |
- fastlink | 7 | {bio,cloud} |
+ plastimatch | 8 | {imaging} |
+ psychopy | 8 | {psychology} |
librg-utils-perl | 7 | {bio} |
- melting | 7 | {bio,cloud} |
ncbi-entrez-direct | 7 | {bio} |
- openslide | 7 | {imaging} |
- psychopy | 7 | {psychology} |
arden | 6 | {cloud,bio} |
cgview | 6 | {bio} |
- dicompyler | 6 | {oncology} |
- jaligner | 6 | {bio} |
+ fastlink | 6 | {bio,cloud} |
maqview | 6 | {bio} |
+ melting | 6 | {bio,cloud} |
mipe | 6 | {bio,cloud} |
- ncbi-seg | 6 | {bio} |
ngs-sdk | 6 | {bio-dev} |
- norsp | 6 | {bio} |
+ openslide | 6 | {imaging} |
orthanc-webviewer | 6 | {imaging} |
+ cluster3 | 5 | {bio} |
dazzdb | 5 | {bio} |
+ dicompyler | 5 | {oncology} |
embassy-domainatrix | 5 | {cloud,bio} |
- estscan | 5 | {bio} |
- gasic | 5 | {bio,cloud} |
- idba | 5 | {bio,cloud} |
- ipig | 5 | {bio} |
- king-probe | 5 | {bio} |
lagan | 5 | {bio} |
- mapsembler2 | 5 | {cloud,bio} |
- neobio | 5 | {bio,cloud} |
+ ncbi-seg | 5 | {bio} |
+ norsp | 5 | {bio} |
paml | 5 | {bio} |
radiant | 5 | {bio} |
sibsim4 | 5 | {cloud,bio} |
sigma-align | 5 | {bio-phylogeny,bio,cloud} |
- sortmerna | 5 | {bio} |
- staden | 5 | {bio} |
- ampliconnoise | 4 | {bio,cloud} |
anfo | 4 | {bio,cloud} |
biomaj3-cli | 4 | {cloud} |
- brig | 4 | {bio} |
- cluster3 | 4 | {bio} |
- diamond-aligner | 4 | {bio} |
- ea-utils | 4 | {bio} |
- ecopcr | 4 | {bio} |
- edtsurf | 4 | {bio} |
embassy-domalign | 4 | {bio,cloud} |
embassy-domsearch | 4 | {bio,cloud} |
- fitgcp | 4 | {cloud,bio} |
- freecontact | 4 | {bio,cloud} |
- ghmm | 4 | {bio} |
- indelible | 4 | {bio} |
- jellyfish1 | 4 | {bio} |
+ estscan | 4 | {bio} |
+ gasic | 4 | {bio,cloud} |
+ idba | 4 | {bio,cloud} |
+ ipig | 4 | {bio} |
+ jaligner | 4 | {bio} |
+ king-probe | 4 | {bio} |
libdivsufsort | 4 | {bio-dev} |
- mauve-aligner | 4 | {bio} |
- mhap | 4 | {bio,bio-ngs} |
- mlv-smile | 4 | {cloud,bio} |
+ mapsembler2 | 4 | {cloud,bio} |
+ neobio | 4 | {bio,cloud} |
nutsqlite | 4 | {tools} |
openslide | 4 | {imaging-dev} |
orthanc-dicomweb | 4 | {imaging} |
phyutility | 4 | {bio,cloud} |
piler | 4 | {bio} |
- prime-phylo | 4 | {cloud,bio} |
pymia | 4 | {imaging-dev} |
relion | 4 | {bio} |
- seqtools | 4 | {bio} |
+ sortmerna | 4 | {bio} |
squizz | 4 | {bio,cloud} |
+ staden | 4 | {bio} |
tracetuner | 4 | {bio} |
transtermhp | 4 | {bio} |
treeview | 4 | {bio-phylogeny,bio} |
zalign | 4 | {bio,cloud} |
abacas | 3 | {bio} |
+ ampliconnoise | 3 | {bio,cloud} |
assemblytics | 3 | {bio} |
bandage | 3 | {bio} |
- beast2-mcmc | 3 | {bio} |
biomaj3-daemon | 3 | {bio} |
bio-tradis | 3 | {bio-dev,bio} |
bppsuite | 3 | {bio} |
- canu | 3 | {bio} |
+ brig | 3 | {bio} |
codonw | 3 | {bio} |
- delly | 3 | {bio} |
- elph | 3 | {bio} |
- gatb-core | 3 | {bio} |
+ diamond-aligner | 3 | {bio} |
+ ea-utils | 3 | {bio} |
+ ecopcr | 3 | {bio} |
+ edtsurf | 3 | {bio} |
+ fitgcp | 3 | {cloud,bio} |
+ freecontact | 3 | {bio,cloud} |
getdata | 3 | {bio} |
- harvest-tools | 3 | {bio} |
+ ghmm | 3 | {bio} |
+ indelible | 3 | {bio} |
+ jellyfish1 | 3 | {bio} |
libminc | 3 | {imaging-dev} |
libsbml | 3 | {bio-dev} |
- lucy | 3 | {bio} |
- microbegps | 3 | {bio} |
+ mauve-aligner | 3 | {bio} |
+ mlv-smile | 3 | {cloud,bio} |
mrs | 3 | {bio} |
- murasaki | 3 | {bio} |
- orthanc-mysql | 3 | {imaging} |
paraclu | 3 | {cloud,bio} |
parsnp | 3 | {bio} |
- pbdagcon | 3 | {bio} |
perm | 3 | {cloud,bio} |
phast | 3 | {bio} |
plasmidseeker | 3 | {bio} |
predictprotein | 3 | {bio} |
+ prime-phylo | 3 | {cloud,bio} |
proalign | 3 | {bio-phylogeny,bio} |
probabel | 3 | {bio,cloud} |
- pscan-chip | 3 | {bio} |
pscan-tfbs | 3 | {bio} |
qrisk2 | 3 | {practice} |
- quorum | 3 | {bio} |
rdp-alignment | 3 | {bio} |
rdp-readseq | 3 | {bio} |
saint | 3 | {bio} |
salmon | 3 | {bio} |
seer | 3 | {bio} |
- segemehl | 3 | {bio} |
seqsero | 3 | {bio} |
seqtools | 3 | {bio} |
spread-phy | 3 | {bio-phylogeny,bio} |
@@ -147,74 +130,86 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
andi | 2 | {bio} |
baitfisher | 2 | {bio} |
bart-view | 2 | {imaging} |
- beads | 2 | {bio} |
- beast-mcmc | 2 | {bio,bio-phylogeny} |
- bio-rainbow | 2 | {bio} |
+ beast2-mcmc | 2 | {bio} |
bitseq | 2 | {bio} |
- blasr | 2 | {bio,bio-ngs} |
+ canu | 2 | {bio} |
centrifuge | 2 | {bio} |
- clonalframeml | 2 | {bio} |
clonalorigin | 2 | {bio} |
cufflinks | 2 | {bio,cloud} |
- daligner | 2 | {bio-ngs,bio} |
- dascrubber | 2 | {bio} |
- dindel | 2 | {bio} |
- dwgsim | 2 | {bio} |
+ delly | 2 | {bio} |
elastix | 2 | {imaging} |
- fastml | 2 | {bio} |
- fsm-lite | 2 | {bio} |
- hinge | 2 | {bio} |
- igor | 2 | {bio} |
- jmodeltest | 2 | {bio-phylogeny,bio} |
- lamarc | 2 | {bio} |
+ elph | 2 | {bio} |
+ gatb-core | 2 | {bio} |
+ harvest-tools | 2 | {bio} |
libgff | 2 | {bio-dev} |
- libncl | 2 | {bio} |
- libpal-java | 2 | {bio-dev} |
librdp-taxonomy-tree-java | 2 | {bio-dev} |
- logol | 2 | {bio} |
- maffilter | 2 | {bio} |
- mptp | 2 | {bio} |
- nanook | 2 | {bio} |
+ lucy | 2 | {bio} |
+ mhap | 2 | {bio,bio-ngs} |
+ microbegps | 2 | {bio} |
+ murasaki | 2 | {bio} |
+ orthanc-mysql | 2 | {imaging} |
orthanc-postgresql | 2 | {imaging} |
+ pbdagcon | 2 | {bio} |
pilon | 2 | {bio} |
placnet | 2 | {bio} |
poretools | 2 | {bio} |
+ pscan-chip | 2 | {bio} |
+ quorum | 2 | {bio} |
rambo-k | 2 | {bio} |
rampler | 2 | {bio} |
rdp-classifier | 2 | {bio} |
relion | 2 | {bio} |
- repeatmasker-recon | 2 | {bio} |
rtax | 2 | {cloud,bio} |
samblaster | 2 | {bio} |
scythe | 2 | {bio} |
+ segemehl | 2 | {bio} |
seqtools | 2 | {bio} |
sickle | 2 | {bio} |
soapsnp | 2 | {bio} |
- sprai | 2 | {bio} |
sumatra | 2 | {bio} |
sweed | 2 | {bio} |
trace2dbest | 2 | {bio} |
transrate-tools | 2 | {bio} |
vsearch | 2 | {bio} |
atropos | 1 | {bio} |
+ beads | 1 | {bio} |
+ beast-mcmc | 1 | {bio,bio-phylogeny} |
+ bio-rainbow | 1 | {bio} |
+ blasr | 1 | {bio,bio-ngs} |
blimps | 1 | {bio} |
+ clonalframeml | 1 | {bio} |
ctn | 1 | {imaging-dev} |
+ daligner | 1 | {bio-ngs,bio} |
+ dascrubber | 1 | {bio} |
+ dindel | 1 | {bio} |
+ dwgsim | 1 | {bio} |
edflib | 1 | {imaging-dev} |
embassy-phylip | 1 | {bio,cloud} |
emmax | 1 | {bio} |
+ fastml | 1 | {bio} |
freebayes | 1 | {bio} |
+ fsm-lite | 1 | {bio} |
+ hinge | 1 | {bio} |
hunspell-en-med | 1 | {tools} |
+ igor | 1 | {bio} |
+ jmodeltest | 1 | {bio-phylogeny,bio} |
kma | 1 | {bio} |
kmerresistance | 1 | {bio} |
+ lamarc | 1 | {bio} |
libctapimkt | 1 | {practice} |
libhmsbeagle | 1 | {bio-dev} |
- libsmithwaterman | 1 | {bio-dev} |
+ libncl | 1 | {bio} |
+ libpal-java | 1 | {bio-dev} |
libsmithwaterman | 1 | {bio} |
+ libsmithwaterman | 1 | {bio-dev} |
libvistaio | 1 | {imaging-dev} |
+ logol | 1 | {bio} |
+ maffilter | 1 | {bio} |
maxflow | 1 | {imaging-dev} |
medicalterms | 1 | {tools} |
mencal | 1 | {tools} |
- metaphlan2 | 1 | {bio} |
+ mptp | 1 | {bio} |
+ nanook | 1 | {bio} |
pal2nal | 1 | {bio} |
patman | 1 | {bio} |
phipack | 1 | {bio} |
@@ -223,18 +218,21 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
prottest | 1 | {bio-phylogeny,bio} |
qcumber | 1 | {bio} |
relion | 1 | {bio} |
+ repeatmasker-recon | 1 | {bio} |
roguenarok | 1 | {bio} |
runcircos-gui | 1 | {bio} |
samtools-legacy | 1 | {bio-dev} |
scrm | 1 | {bio} |
seqan | 1 | {bio-dev} |
seqmagick | 1 | {bio} |
+ seqtools | 1 | {bio} |
sga | 1 | {bio} |
sift | 1 | {bio} |
skesa | 1 | {bio} |
snap-aligner | 1 | {bio} |
soapaligner | 1 | {bio} |
spaced | 1 | {bio} |
+ sprai | 1 | {bio} |
srf | 1 | {bio-dev} |
stacks | 1 | {bio} |
stringtie | 1 | {bio} |
@@ -284,6 +282,7 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
libseqlib | 0 | {bio-dev} |
libstatgen | 0 | {bio-dev} |
libxdf | 0 | {imaging-dev} |
+ metaphlan2 | 0 | {bio} |
metastudent-data | 0 | {bio} |
metastudent-data-2 | 0 | {bio} |
mia | 0 | {imaging-dev} |
@@ -304,8 +303,8 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
python-py2bit | 0 | {bio,bio-dev} |
python-pyani | 0 | {bio-dev} |
python-tinyalign | 0 | {bio-dev,bio} |
- relion | 0 | {bio} |
relion | 0 | {bio-dev} |
+ relion | 0 | {bio} |
sambamba | 0 | {bio} |
sbmltoolbox | 0 | {bio-dev} |
seq-gen | 0 | {bio} |
@@ -317,5 +316,5 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
trim-galore | 0 | {bio} |
varna | 0 | {bio} |
vtk-dicom | 0 | {imaging-dev} |
-(345 rows)
+(344 rows)
=====================================
outdated_med-packages.txt
=====================================
@@ -1,4 +1,4 @@
-Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
+Last-Update: Mon, 02 Mar 2020 13:42:03 +0000
source | version | upstream_version | uploaders | Last uploader | Last uploaded
-------------------------------+---------------------------------+---------------------------------+-----------------------------------------------------------------------------+----------------------+------------------------
@@ -23,6 +23,7 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
fis-gtm | 6.3-007 | 6.3-010 | Amul Shah,Andreas Tille | Amul Shah | 2019-02-28 14:12:19+00
gatb-core | 1.4.1+git20191209.9398f28 | 1.4.1+git20200118.1dc23ff | Andreas Tille,Nadiya Sitdykova | Michael R. Crusoe | 2020-02-17 14:52:30+00
gdcm | 3.0.4 | 3.0.5 | Gert Wollny,Sébastien Jodogne,Steve M. Robbins | Gert Wollny | 2019-11-07 11:49:02+00
+ gnumed-server | 22.9 | 22.11 | Andreas Tille,Sebastian Hilbert | Andreas Tille | 2020-02-27 11:19:44+00
hdmf | 1.5.4 | 1.6.0 | Yaroslav Halchenko | Yaroslav Halchenko | 2020-02-03 03:01:25+00
htsjdk | 2.18.2 | 2.21.2 | Andreas Tille,Charles Plessy,Olivier Sallou,Vincent Danjean | Andreas Tille | 2019-03-01 22:19:40+00
hyphy | 2.5.1 | 2.5.4 | Andreas Tille | Andreas Tille | 2020-01-07 21:19:50+00
@@ -47,7 +48,6 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
mothur | 1.42.1 | 1.43.0 | Andreas Tille,Steffen Moeller,Tomasz Buchert | Andreas Tille | 2019-08-01 19:09:05+00
mummer | 3.23 | 4.0.0~beta2 | Andreas Tille,Charles Plessy,Steffen Moeller | Andreas Tille | 2018-06-11 07:19:31+00
ncbi-blast+ | 2.9.0 | 2.10.0 | Aaron M. Ucko,Andreas Tille,Olivier Sallou | Aaron M. Ucko | 2020-02-17 01:50:53+00
- ncbi-entrez-direct | 12.0.20190816 | 13.5.20200221 | Aaron M. Ucko | Aaron M. Ucko | 2020-02-03 03:53:53+00
ncbi-vdb | 2.10.3 | 2.10.4 | Andreas Tille | Andreas Tille | 2020-02-24 21:12:17+00
ngs-sdk | 2.10.2 | 2.10.4 | Andreas Tille,Olivier Sallou,Vincent Danjean | Michael R. Crusoe | 2020-02-17 15:36:45+00
nibabel | 2.5.1 | 3.0.1 | Michael Hanke,Yaroslav Halchenko | Andreas Tille | 2020-01-20 10:35:09+00
@@ -67,7 +67,13 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
python-pymummer | 0.10.3 | 0.11.0 | Afif Elghraoui | Andreas Tille | 2019-01-07 09:06:07+00
python-treetime | 0.7.1 | 0.7.4 | Andreas Tille | Steffen Moeller | 2020-01-18 20:52:48+00
q2cli | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-12-16 10:20:08+00
- q2-feature-classifier | 2019.4.0 | 2019.10.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-11-11 10:00:33+00
+ q2-cutadapt | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2020-01-26 07:34:32+00
+ q2-demux | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2020-01-26 07:34:40+00
+ q2-feature-classifier | 2019.4.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-11-11 10:00:33+00
+ q2-feature-table | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2020-01-26 07:49:21+00
+ q2-metadata | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Andreas Tille | 2020-02-03 08:42:28+00
+ q2-quality-filter | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2020-01-26 07:34:49+00
+ q2templates | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-11-14 22:00:17+00
q2-types | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-12-23 20:39:42+00
qiime | 2019.10.0 | 2020.2.0 | Andreas Tille,Liubov Chuprikova,Steffen Moeller | Liubov Chuprikova | 2019-12-16 09:51:27+00
relion | 1.4 | 3.0.8 | Andreas Tille,Goswin von Brederlow,Navid Fehrenbacher,Roland Fehrenbacher | Andreas Tille | 2018-06-14 12:49:40+00
@@ -84,7 +90,7 @@ Last-Update: Mon, 02 Mar 2020 01:42:04 +0000
unanimity | 3.3.0 | 4.2.0 | Afif Elghraoui,Andreas Tille | Adrian Bunk | 2019-02-06 07:34:42+00
vsearch | 2.14.1 | 2.14.2 | Andreas Tille,Tim Booth | Andreas Tille | 2019-12-17 10:07:09+00
xmedcon | 0.16.1 | 0.16.2 | Andreas Tille,Roland Marcus Rutschmann | Andreas Tille | 2019-01-25 18:23:59+00
-(82 rows)
+(88 rows)
source | id | severity | title
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/c0424c803e01a43ce31d5765ed5d298a08ffb3c9
--
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/c0424c803e01a43ce31d5765ed5d298a08ffb3c9
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