Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
cc6056d6 by Andreas Tille at 2020-03-28T13:44:51+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,63 +1,64 @@
-Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
+Last-Update: Sat, 28 Mar 2020 13:42:04 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk | 165 | {imaging,covid-19} |
- orthanc | 99 | {practice,covid-19,imaging} |
- gdcm | 48 | {imaging-dev} |
- orthanc-wsi | 43 | {practice,imaging,covid-19,his,oncology,laboratory} |
- htsjdk | 36 | {bio-dev} |
+ dcmtk | 167 | {imaging,covid-19} |
+ orthanc | 97 | {imaging,practice,covid-19} |
+ gdcm | 49 | {imaging-dev} |
+ orthanc-wsi | 42 | {his,imaging,laboratory,covid-19,practice,oncology} |
amide | 35 | {imaging} |
+ htsjdk | 34 | {bio-dev} |
dcm2niix | 31 | {imaging} |
dicomscope | 28 | {imaging} |
dicom3tools | 26 | {imaging} |
+ gdcm | 21 | {covid-19,imaging} |
+ minc-tools | 19 | {imaging} |
+ pixelmed | 19 | {imaging} |
gnumed-server | 18 | {covid-19,practice} |
- pixelmed | 18 | {imaging} |
- gdcm | 17 | {covid-19,imaging} |
- minc-tools | 17 | {imaging} |
- invesalius | 16 | {imaging} |
- ngs-sdk | 16 | {bio-dev} |
- openslide | 15 | {imaging} |
+ ngs-sdk | 17 | {bio-dev} |
+ openslide | 16 | {imaging} |
+ invesalius | 15 | {imaging} |
+ vtk-dicom | 15 | {imaging} |
biojava-live | 14 | {bio-dev} |
+ king | 14 | {imaging,typesetting} |
ncbi-entrez-direct | 14 | {bio} |
- vtk-dicom | 14 | {imaging} |
adun.app | 13 | {bio} |
- king | 13 | {imaging,typesetting} |
+ insighttoolkit4 | 13 | {imaging-dev} |
cgview | 12 | {bio} |
- insighttoolkit4 | 12 | {imaging-dev} |
+ mia | 12 | {imaging} |
+ psychopy | 12 | {psychology} |
ea-utils | 11 | {bio} |
- mia | 11 | {imaging} |
- psychopy | 11 | {psychology,covid-19} |
+ jebl2 | 11 | {bio-dev} |
radiant | 11 | {bio} |
+ biosig4c++ | 10 | {physics,imaging} |
dazzdb | 10 | {bio} |
- diamond-aligner | 10 | {bio,covid-19} |
- jebl2 | 10 | {bio-dev} |
+ diamond-aligner | 10 | {covid-19,bio} |
king-probe | 10 | {bio} |
librg-utils-perl | 10 | {bio} |
norsp | 10 | {bio} |
obitools | 10 | {bio} |
+ plastimatch | 10 | {imaging} |
staden | 10 | {bio} |
- tree-puzzle | 10 | {cloud,bio-phylogeny,bio} |
- biosig4c++ | 9 | {covid-19,imaging,physics} |
+ tree-puzzle | 10 | {bio,cloud,bio-phylogeny} |
bppsuite | 9 | {bio} |
- fastlink | 9 | {cloud,bio} |
+ fastlink | 9 | {bio,cloud} |
gdcm | 9 | {imaging-dev} |
- mipe | 9 | {cloud,bio} |
+ mipe | 9 | {bio,cloud} |
ncbi-seg | 9 | {bio} |
ngs-sdk | 9 | {bio-dev} |
phast | 9 | {bio} |
- plastimatch | 9 | {imaging} |
- prime-phylo | 9 | {cloud,bio} |
+ prime-phylo | 9 | {bio,cloud} |
abacas | 8 | {bio} |
- ampliconnoise | 8 | {bio,cloud} |
- anfo | 8 | {cloud,bio} |
+ ampliconnoise | 8 | {cloud,bio} |
+ anfo | 8 | {bio,cloud} |
arden | 8 | {bio,cloud} |
biomaj3-cli | 8 | {cloud} |
daligner | 8 | {bio-ngs,bio} |
ecopcr | 8 | {bio} |
- embassy-domainatrix | 8 | {cloud,bio} |
- freecontact | 8 | {cloud,bio} |
+ embassy-domainatrix | 8 | {bio,cloud} |
+ freecontact | 8 | {bio,cloud} |
hunspell-en-med | 8 | {tools} |
+ jaligner | 8 | {bio} |
maqview | 8 | {bio} |
melting | 8 | {cloud,bio} |
neobio | 8 | {bio,cloud} |
@@ -66,29 +67,28 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
piler | 8 | {bio} |
pscan-tfbs | 8 | {bio} |
seqsero | 8 | {bio} |
- sigma-align | 8 | {bio-phylogeny,cloud,bio} |
+ sigma-align | 8 | {bio,cloud,bio-phylogeny} |
bio-tradis | 7 | {bio-dev,bio} |
bitseq | 7 | {bio} |
codonw | 7 | {bio} |
edtsurf | 7 | {bio} |
- embassy-domalign | 7 | {bio,cloud} |
- embassy-domsearch | 7 | {cloud,bio} |
+ embassy-domalign | 7 | {cloud,bio} |
+ embassy-domsearch | 7 | {bio,cloud} |
estscan | 7 | {bio} |
- fitgcp | 7 | {cloud,bio} |
+ fitgcp | 7 | {bio,cloud} |
freebayes | 7 | {bio} |
gasic | 7 | {cloud,bio} |
- jaligner | 7 | {bio} |
lagan | 7 | {bio} |
lamarc | 7 | {bio} |
lucy | 7 | {bio} |
mauve-aligner | 7 | {bio} |
microbegps | 7 | {bio} |
paraclu | 7 | {cloud,bio} |
- perm | 7 | {bio,cloud} |
+ perm | 7 | {cloud,bio} |
placnet | 7 | {bio} |
poretools | 7 | {bio} |
predictprotein | 7 | {bio} |
- probabel | 7 | {bio,cloud} |
+ probabel | 7 | {cloud,bio} |
saint | 7 | {bio} |
seqtools | 7 | {bio} |
sibsim4 | 7 | {cloud,bio} |
@@ -117,6 +117,7 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
mlv-smile | 6 | {cloud,bio} |
murasaki | 6 | {bio} |
orthanc-webviewer | 6 | {imaging} |
+ parsnp | 6 | {bio} |
proalign | 6 | {bio-phylogeny,bio} |
pscan-chip | 6 | {bio} |
quorum | 6 | {bio} |
@@ -129,17 +130,16 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
sickle | 6 | {bio} |
sprai | 6 | {bio} |
spread-phy | 6 | {bio,bio-phylogeny} |
- squizz | 6 | {bio,cloud} |
+ squizz | 6 | {cloud,bio} |
transtermhp | 6 | {bio} |
treeview | 6 | {bio-phylogeny,bio} |
vsearch | 6 | {bio} |
- zalign | 6 | {bio,cloud} |
+ zalign | 6 | {cloud,bio} |
assemblytics | 5 | {bio} |
bandage | 5 | {bio} |
beast-mcmc | 5 | {bio-phylogeny,bio} |
cluster3 | 5 | {bio} |
dwgsim | 5 | {bio} |
- elastix | 5 | {imaging} |
fastml | 5 | {bio} |
ghmm | 5 | {bio} |
hinge | 5 | {bio} |
@@ -152,17 +152,17 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
mhap | 5 | {bio,bio-ngs} |
mptp | 5 | {bio} |
openslide | 5 | {imaging-dev} |
- parsnp | 5 | {bio} |
patman | 5 | {bio} |
phipack | 5 | {bio} |
pymia | 5 | {imaging-dev} |
rdp-classifier | 5 | {bio} |
sumatra | 5 | {bio} |
tvc | 5 | {bio} |
- blasr | 4 | {bio,bio-ngs} |
- delly | 4 | {bio,covid-19} |
+ blasr | 4 | {bio-ngs,bio} |
+ delly | 4 | {covid-19,bio} |
dicompyler | 4 | {oncology} |
dindel | 4 | {bio} |
+ elastix | 4 | {imaging} |
fsm-lite | 4 | {bio} |
libdivsufsort | 4 | {bio-dev} |
libsbml | 4 | {bio-dev} |
@@ -171,7 +171,7 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
phybin | 4 | {bio} |
pilon | 4 | {bio} |
plasmidseeker | 4 | {bio} |
- prottest | 4 | {bio-phylogeny,bio} |
+ prottest | 4 | {bio,bio-phylogeny} |
rampler | 4 | {bio} |
rdp-alignment | 4 | {bio} |
relion | 4 | {bio} |
@@ -180,7 +180,6 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
salmon | 4 | {bio} |
samblaster | 4 | {bio,covid-19} |
sga | 4 | {bio} |
- soapaligner | 4 | {bio} |
soapsnp | 4 | {bio} |
sweed | 4 | {bio} |
transrate-tools | 4 | {bio} |
@@ -188,26 +187,28 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
yaha | 4 | {bio} |
bart-view | 3 | {imaging} |
igor | 3 | {bio} |
- libgff | 3 | {bio-dev} |
mrs | 3 | {bio} |
- orthanc-dicomweb | 3 | {covid-19,imaging} |
+ orthanc-dicomweb | 3 | {imaging,covid-19} |
orthanc-mysql | 3 | {imaging} |
relion | 3 | {bio} |
- rtax | 3 | {cloud,bio} |
+ rtax | 3 | {bio,cloud} |
segemehl | 3 | {bio} |
seqmagick | 3 | {bio,covid-19} |
snap-aligner | 3 | {bio} |
+ soapaligner | 3 | {bio} |
stacks | 3 | {bio} |
suitename | 3 | {bio} |
- sumaclust | 3 | {bio,covid-19} |
+ sumaclust | 3 | {covid-19,bio} |
surankco | 3 | {bio} |
tnseq-transit | 3 | {bio,covid-19} |
varscan | 3 | {bio} |
cufflinks | 2 | {cloud,bio} |
getdata | 2 | {bio} |
- kma | 2 | {covid-19,bio} |
+ kma | 2 | {bio} |
kmerresistance | 2 | {bio} |
+ libgff | 2 | {bio-dev} |
libsmithwaterman | 2 | {bio} |
+ mencal | 2 | {tools} |
nanook | 2 | {bio} |
qcumber | 2 | {bio} |
qrisk2 | 2 | {practice} |
@@ -217,7 +218,7 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
spaced | 2 | {bio} |
srf | 2 | {bio-dev} |
thesias | 2 | {bio,covid-19} |
- tree-puzzle | 2 | {bio,cloud,bio-phylogeny} |
+ tree-puzzle | 2 | {cloud,bio,bio-phylogeny} |
volpack | 2 | {imaging-dev} |
atropos | 1 | {bio} |
biosig4c++ | 1 | {physics,imaging-dev} |
@@ -225,15 +226,13 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
blimps | 1 | {bio} |
ctn | 1 | {imaging-dev} |
edflib | 1 | {imaging-dev} |
- embassy-phylip | 1 | {bio,cloud} |
+ embassy-phylip | 1 | {cloud,bio} |
libbio-mage-utils-perl | 1 | {bio-dev} |
libchado-perl | 1 | {bio-dev} |
libctapimkt | 1 | {practice} |
- libhmsbeagle | 1 | {bio-dev} |
libsmithwaterman | 1 | {bio-dev} |
libvistaio | 1 | {imaging-dev} |
maxflow | 1 | {imaging-dev} |
- mencal | 1 | {tools} |
ngs-sdk | 1 | {bio-dev} |
nutsqlite | 1 | {tools} |
opencfu | 1 | {laboratory} |
@@ -244,20 +243,20 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
pilercr | 1 | {bio} |
ragout | 1 | {bio,covid-19} |
sift | 1 | {bio} |
- stringtie | 1 | {covid-19,bio} |
+ stringtie | 1 | {bio,covid-19} |
trace2dbest | 1 | {bio} |
acedb | 0 | {bio,cloud} |
- augur | 0 | {covid-19,bio} |
+ augur | 0 | {bio,covid-19} |
bambamc | 0 | {bio-dev} |
bbmap | 0 | {covid-19} |
- biobambam2 | 0 | {bio-dev,bio,covid-19} |
+ biobambam2 | 0 | {covid-19,bio-dev,bio} |
biojava4-live | 0 | {bio-dev} |
biosig4c++ | 0 | {physics} |
biosyntax | 0 | {bio} |
camp | 0 | {imaging-dev} |
emboss-explorer | 0 | {bio} |
emmax | 0 | {bio} |
- fasta3 | 0 | {covid-19,bio} |
+ fasta3 | 0 | {bio,covid-19} |
fis-gtm | 0 | {his} |
freecontact | 0 | {bio-dev} |
gatb-core | 0 | {bio-dev} |
@@ -274,9 +273,10 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
libdisorder | 0 | {bio-dev} |
libgenome | 0 | {bio-dev} |
libgkarrays | 0 | {bio-dev} |
+ libhmsbeagle | 0 | {bio-dev} |
libics | 0 | {imaging-dev,covid-19} |
libjloda-java | 0 | {bio-dev} |
- libmaus2 | 0 | {bio-dev,covid-19} |
+ libmaus2 | 0 | {covid-19,bio-dev} |
libmems | 0 | {bio-dev} |
libmialm | 0 | {imaging-dev} |
libmuscle | 0 | {bio-dev} |
@@ -291,14 +291,15 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
metastudent-data-2 | 0 | {bio} |
mia | 0 | {imaging-dev} |
miaviewit | 0 | {imaging-dev} |
- milib | 0 | {bio-dev,covid-19} |
+ milib | 0 | {covid-19,bio-dev} |
mssstest | 0 | {tools} |
murasaki | 0 | {bio} |
ncbi-vdb | 0 | {bio-dev} |
orthanc-imagej | 0 | {imaging} |
- oscar | 0 | {data,practice,tools} |
+ oscar | 0 | {practice,tools,data} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
+ python-etelemetry | 0 | {covid-19} |
python-py2bit | 0 | {bio,bio-dev} |
python-questplus | 0 | {covid-19} |
python-scitrack | 0 | {covid-19} |
@@ -310,12 +311,11 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
seq-gen | 0 | {bio} |
simpleitk | 0 | {imaging-dev} |
skewer | 0 | {bio} |
- smrtanalysis | 0 | {covid-19,bio} |
+ smrtanalysis | 0 | {bio,covid-19} |
solvate | 0 | {bio} |
- spaln | 0 | {covid-19,bio} |
+ spaln | 0 | {bio,covid-19} |
trim-galore | 0 | {bio} |
varna | 0 | {bio} |
vtk-dicom | 0 | {imaging-dev} |
- python-etelemetry | -1 | {covid-19} |
(345 rows)
=====================================
outdated_med-packages.txt
=====================================
@@ -1,4 +1,4 @@
-Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
+Last-Update: Sat, 28 Mar 2020 13:42:04 +0000
source | version | upstream_version | uploaders | Last uploader | Last uploaded
-------------------------------+---------------------------------+---------------------------------+---------------------------------------------------------------------------+----------------------+------------------------
@@ -20,7 +20,7 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
gmap | 2019-09-12 | 2020-03-12 | Alexandre Mestiashvili,Andreas Tille,Shaun Jackman | Steffen Moeller | 2019-12-30 12:37:15+00
hdmf | 1.5.4 | 1.6.1 | Yaroslav Halchenko | Yaroslav Halchenko | 2020-02-03 03:01:25+00
htsjdk | 2.18.2 | 2.21.3 | Andreas Tille,Charles Plessy,Olivier Sallou,Vincent Danjean | Andreas Tille | 2019-03-01 22:19:40+00
- hyphy | 2.5.1 | 2.5.7 | Andreas Tille | Andreas Tille | 2020-01-07 21:19:50+00
+ igdiscover | 0.11 | 0.12.3 | Steffen Moeller | Andreas Tille | 2019-09-06 07:04:02+00
igraph | 0.8.0 | 0.8.1 | Andreas Tille | Andreas Tille | 2020-03-14 20:10:56+00
imagej | 1.52r | 1.52u | David Miguel Susano Pinto | Andreas Tille | 2019-12-04 14:55:11+00
jebl2 | 0.1+git20180418.653eb83 | 0.1+git20190308.a98448e | Andreas Tille | Andreas Tille | 2018-07-05 12:05:57+00
@@ -32,6 +32,7 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
libmaus2 | 2.0.713 | 2.0.714 | Andreas Tille,Steffen Moeller | Andreas Tille | 2020-03-27 09:34:39+00
libsis-base-java | 18.09~pre1+git20180827.fe4953e | 18.09~pre1+git20180928.45fbd31 | Andreas Tille,Olivier Sallou,Tim Booth | Andreas Tille | 2018-09-26 08:35:30+00
libthread-pool | 2.0.1 | 2.0.2 | Andreas Tille | Andreas Tille | 2019-11-19 21:21:23+00
+ libundead | 1.0.10 | 1.1.1 | Andreas Tille | Andreas Tille | 2019-09-13 21:06:10+00
metaphlan2 | 2.9.22 | 2.96.1 | Andreas Tille | Andreas Tille | 2019-11-08 07:19:11+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 | 13.5.20200306 | Aaron M. Ucko | Aaron M. Ucko | 2020-02-03 03:53:53+00
@@ -55,11 +56,13 @@ Last-Update: Sat, 28 Mar 2020 01:42:03 +0000
salmon | 0.12.0 | 1.1.0 | Kevin Murray,Michael R. Crusoe | Andreas Tille | 2018-12-13 19:05:56+00
scrm | 1.7.3 | 1.7.4 | Kevin Murray | Andreas Tille | 2018-12-17 13:05:34+00
seaview | 4.7 | 5.0.2 | Andreas Tille,Charles Plessy | Andreas Tille | 2018-05-09 13:43:40+00
+ simka | 1.5.1 | 1.5.2 | Shayan Doust | Andreas Tille | 2020-01-12 18:49:47+00
spoa | 3.0.1 | 3.0.2 | Andreas Tille | Andreas Tille | 2019-09-16 11:53:05+00
sumatra | 1.0.31 | 1.0.34 | Andreas Tille,Tim Booth | Andreas Tille | 2018-10-16 10:06:33+00
t-coffee | 12.00.7fb08c2 | 13.41.0.28bdc39 | Andreas Tille,Steffen Moeller | Andreas Tille | 2019-02-15 07:57:10+00
+ ugene | 33.0 | 34.0 | Andreas Tille,Olivier Sallou,Steffen Moeller | Andreas Tille | 2020-01-12 16:25:44+00
xmedcon | 0.16.1 | 0.16.2 | Andreas Tille,Roland Marcus Rutschmann | Andreas Tille | 2019-01-25 18:23:59+00
-(57 rows)
+(60 rows)
source | id | severity | title
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/cc6056d60896da8c1c07f4f9eacf33d61a2eca6d
--
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/cc6056d60896da8c1c07f4f9eacf33d61a2eca6d
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