Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
df5fdeb4 by Andreas Tille at 2020-02-28T13:45:19+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,140 +1,151 @@
-Last-Update: Fri, 28 Feb 2020 01:42:03 +0000
+Last-Update: Fri, 28 Feb 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+--------------------------------------------+----------------------------------------------------------------------
- dcmtk | 170 | {imaging} |
- orthanc | 90 | {imaging,practice} |
- gdcm | 47 | {imaging-dev} |
- orthanc-wsi | 37 | {his,imaging,practice,oncology,laboratory} |
+ dcmtk | 171 | {imaging} |
+ orthanc | 92 | {practice,imaging} |
+ gdcm | 48 | {imaging-dev} |
+ orthanc-wsi | 37 | {imaging,practice,oncology,laboratory,his} |
cfflib | 35 | {imaging-dev} |
- dcm2niix | 33 | {imaging} |
+ dcm2niix | 34 | {imaging} |
amide | 32 | {imaging} |
- dicomscope | 25 | {imaging} |
- medicalterms | 24 | {tools} |
- dicom3tools | 21 | {imaging} |
- htsjdk | 19 | {bio-dev} |
+ dicomscope | 26 | {imaging} |
+ medicalterms | 25 | {tools} |
+ dicom3tools | 22 | {imaging} |
+ htsjdk | 21 | {bio-dev} |
gnumed-server | 17 | {practice} |
gdcm | 16 | {imaging} |
ngs-sdk | 13 | {bio-dev} |
adun.app | 12 | {bio} |
pixelmed | 12 | {imaging} |
+ insighttoolkit4 | 11 | {imaging-dev} |
invesalius | 11 | {imaging} |
- insighttoolkit4 | 10 | {imaging-dev} |
- minc-tools | 10 | {imaging} |
+ minc-tools | 11 | {imaging} |
+ king | 10 | {imaging,typesetting} |
jebl2 | 9 | {bio-dev} |
- king | 9 | {typesetting,imaging} |
mia | 9 | {imaging} |
- tree-puzzle | 9 | {bio,bio-phylogeny,cloud} |
+ tree-puzzle | 9 | {bio,cloud,bio-phylogeny} |
vtk-dicom | 9 | {imaging} |
+ biojava-live | 8 | {bio-dev} |
gdcm | 8 | {imaging-dev} |
librg-utils-perl | 8 | {bio} |
+ obitools | 8 | {bio} |
plastimatch | 8 | {imaging} |
- biojava-live | 7 | {bio-dev} |
fastlink | 7 | {cloud,bio} |
melting | 7 | {bio,cloud} |
- ncbi-seg | 7 | {bio} |
- norsp | 7 | {bio} |
- obitools | 7 | {bio} |
+ ncbi-entrez-direct | 7 | {bio} |
psychopy | 7 | {psychology} |
+ arden | 6 | {bio,cloud} |
+ cgview | 6 | {bio} |
+ dicompyler | 6 | {oncology} |
+ jaligner | 6 | {bio} |
maqview | 6 | {bio} |
- ncbi-entrez-direct | 6 | {bio} |
+ mipe | 6 | {bio,cloud} |
+ ncbi-seg | 6 | {bio} |
+ norsp | 6 | {bio} |
openslide | 6 | {imaging} |
- sortmerna | 6 | {bio} |
+ orthanc-webviewer | 6 | {imaging} |
staden | 6 | {bio} |
- dicompyler | 5 | {oncology} |
+ dazzdb | 5 | {bio} |
embassy-domainatrix | 5 | {cloud,bio} |
- freecontact | 5 | {cloud,bio} |
+ estscan | 5 | {bio} |
+ gasic | 5 | {cloud,bio} |
+ idba | 5 | {bio,cloud} |
ipig | 5 | {bio} |
- jaligner | 5 | {bio} |
king-probe | 5 | {bio} |
+ lagan | 5 | {bio} |
libdivsufsort | 5 | {bio-dev} |
mapsembler2 | 5 | {cloud,bio} |
- mipe | 5 | {cloud,bio} |
- neobio | 5 | {cloud,bio} |
+ neobio | 5 | {bio,cloud} |
ngs-sdk | 5 | {bio-dev} |
- orthanc-webviewer | 5 | {imaging} |
+ openslide | 5 | {imaging-dev} |
+ radiant | 5 | {bio} |
sibsim4 | 5 | {bio,cloud} |
- sigma-align | 5 | {bio,bio-phylogeny,cloud} |
+ sigma-align | 5 | {bio-phylogeny,cloud,bio} |
+ sortmerna | 5 | {bio} |
ampliconnoise | 4 | {cloud,bio} |
- anfo | 4 | {cloud,bio} |
- arden | 4 | {cloud,bio} |
- bandage | 4 | {bio} |
- cgview | 4 | {bio} |
+ anfo | 4 | {bio,cloud} |
+ biomaj3-cli | 4 | {cloud} |
+ bio-tradis | 4 | {bio-dev,bio} |
+ brig | 4 | {bio} |
cluster3 | 4 | {bio} |
- dazzdb | 4 | {bio} |
diamond-aligner | 4 | {bio} |
ea-utils | 4 | {bio} |
+ ecopcr | 4 | {bio} |
edtsurf | 4 | {bio} |
- embassy-domalign | 4 | {cloud,bio} |
- estscan | 4 | {bio} |
- gatb-core | 4 | {bio} |
+ embassy-domalign | 4 | {bio,cloud} |
+ embassy-domsearch | 4 | {bio,cloud} |
+ fitgcp | 4 | {bio,cloud} |
+ freecontact | 4 | {cloud,bio} |
ghmm | 4 | {bio} |
- idba | 4 | {bio,cloud} |
indelible | 4 | {bio} |
jellyfish1 | 4 | {bio} |
- lagan | 4 | {bio} |
+ mhap | 4 | {bio,bio-ngs} |
mlv-smile | 4 | {cloud,bio} |
nutsqlite | 4 | {tools} |
- openslide | 4 | {imaging-dev} |
orthanc-dicomweb | 4 | {imaging} |
- orthanc-mysql | 4 | {imaging} |
paml | 4 | {bio} |
phyutility | 4 | {bio,cloud} |
piler | 4 | {bio} |
- predictprotein | 4 | {bio} |
- prime-phylo | 4 | {bio,cloud} |
+ prime-phylo | 4 | {cloud,bio} |
pymia | 4 | {imaging-dev} |
+ relion | 4 | {bio} |
seqtools | 4 | {bio} |
- squizz | 4 | {cloud,bio} |
+ squizz | 4 | {bio,cloud} |
tracetuner | 4 | {bio} |
transtermhp | 4 | {bio} |
- treeview | 4 | {bio-phylogeny,bio} |
+ treeview | 4 | {bio,bio-phylogeny} |
velvetoptimiser | 4 | {bio} |
zalign | 4 | {cloud,bio} |
abacas | 3 | {bio} |
+ assemblytics | 3 | {bio} |
+ bandage | 3 | {bio} |
beast2-mcmc | 3 | {bio} |
- biomaj3-cli | 3 | {cloud} |
biomaj3-daemon | 3 | {bio} |
- bio-tradis | 3 | {bio-dev,bio} |
blasr | 3 | {bio,bio-ngs} |
bppsuite | 3 | {bio} |
- brig | 3 | {bio} |
canu | 3 | {bio} |
+ codonw | 3 | {bio} |
delly | 3 | {bio} |
- ecopcr | 3 | {bio} |
elph | 3 | {bio} |
- embassy-domsearch | 3 | {cloud,bio} |
- fitgcp | 3 | {cloud,bio} |
- gasic | 3 | {cloud,bio} |
+ gatb-core | 3 | {bio} |
getdata | 3 | {bio} |
+ harvest-tools | 3 | {bio} |
libminc | 3 | {imaging-dev} |
- libncl | 3 | {bio} |
libsbml | 3 | {bio-dev} |
lucy | 3 | {bio} |
mauve-aligner | 3 | {bio} |
- mhap | 3 | {bio-ngs,bio} |
microbegps | 3 | {bio} |
mrs | 3 | {bio} |
+ murasaki | 3 | {bio} |
+ orthanc-mysql | 3 | {imaging} |
paraclu | 3 | {cloud,bio} |
- perm | 3 | {cloud,bio} |
+ parsnp | 3 | {bio} |
+ pbdagcon | 3 | {bio} |
+ perm | 3 | {bio,cloud} |
+ phast | 3 | {bio} |
+ plasmidseeker | 3 | {bio} |
+ predictprotein | 3 | {bio} |
proalign | 3 | {bio-phylogeny,bio} |
probabel | 3 | {cloud,bio} |
+ pscan-chip | 3 | {bio} |
+ pscan-tfbs | 3 | {bio} |
qrisk2 | 3 | {practice} |
- radiant | 3 | {bio} |
+ quorum | 3 | {bio} |
rdp-alignment | 3 | {bio} |
rdp-readseq | 3 | {bio} |
- relion | 3 | {bio} |
repeatmasker-recon | 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} |
tvc | 3 | {bio} |
yaha | 3 | {bio} |
alter-sequence-alignment | 2 | {bio} |
andi | 2 | {bio} |
- assemblytics | 2 | {bio} |
baitfisher | 2 | {bio} |
bart-view | 2 | {imaging} |
beads | 2 | {bio} |
@@ -144,48 +155,41 @@ Last-Update: Fri, 28 Feb 2020 01:42:03 +0000
centrifuge | 2 | {bio} |
clonalframeml | 2 | {bio} |
clonalorigin | 2 | {bio} |
- codonw | 2 | {bio} |
cufflinks | 2 | {cloud,bio} |
- daligner | 2 | {bio-ngs,bio} |
+ daligner | 2 | {bio,bio-ngs} |
dascrubber | 2 | {bio} |
dindel | 2 | {bio} |
dwgsim | 2 | {bio} |
elastix | 2 | {imaging} |
fastml | 2 | {bio} |
fsm-lite | 2 | {bio} |
- harvest-tools | 2 | {bio} |
hinge | 2 | {bio} |
igor | 2 | {bio} |
jmodeltest | 2 | {bio-phylogeny,bio} |
lamarc | 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} |
- murasaki | 2 | {bio} |
nanook | 2 | {bio} |
orthanc-postgresql | 2 | {imaging} |
- pbdagcon | 2 | {bio} |
- phast | 2 | {bio} |
pilon | 2 | {bio} |
placnet | 2 | {bio} |
- plasmidseeker | 2 | {bio} |
poretools | 2 | {bio} |
- pscan-chip | 2 | {bio} |
- pscan-tfbs | 2 | {bio} |
- quorum | 2 | {bio} |
+ rambo-k | 2 | {bio} |
rampler | 2 | {bio} |
rdp-classifier | 2 | {bio} |
relion | 2 | {bio} |
- rtax | 2 | {cloud,bio} |
+ rtax | 2 | {bio,cloud} |
runcircos-gui | 2 | {bio} |
samblaster | 2 | {bio} |
scythe | 2 | {bio} |
- seer | 2 | {bio} |
seqtools | 2 | {bio} |
sickle | 2 | {bio} |
+ soapsnp | 2 | {bio} |
sprai | 2 | {bio} |
sumatra | 2 | {bio} |
sweed | 2 | {bio} |
@@ -213,14 +217,12 @@ Last-Update: Fri, 28 Feb 2020 01:42:03 +0000
mencal | 1 | {tools} |
metaphlan2 | 1 | {bio} |
pal2nal | 1 | {bio} |
- parsnp | 1 | {bio} |
patman | 1 | {bio} |
phipack | 1 | {bio} |
phybin | 1 | {bio} |
pilercr | 1 | {bio} |
- prottest | 1 | {bio,bio-phylogeny} |
+ prottest | 1 | {bio-phylogeny,bio} |
qcumber | 1 | {bio} |
- rambo-k | 1 | {bio} |
relion | 1 | {bio} |
roguenarok | 1 | {bio} |
samtools-legacy | 1 | {bio-dev} |
@@ -228,13 +230,11 @@ Last-Update: Fri, 28 Feb 2020 01:42:03 +0000
seqan | 1 | {bio-dev} |
seq-gen | 1 | {bio} |
seqmagick | 1 | {bio} |
- seqsero | 1 | {bio} |
sga | 1 | {bio} |
sift | 1 | {bio} |
skesa | 1 | {bio} |
snap-aligner | 1 | {bio} |
soapaligner | 1 | {bio} |
- soapsnp | 1 | {bio} |
spaced | 1 | {bio} |
srf | 1 | {bio-dev} |
stacks | 1 | {bio} |
@@ -243,7 +243,7 @@ Last-Update: Fri, 28 Feb 2020 01:42:03 +0000
sumaclust | 1 | {bio} |
surankco | 1 | {bio} |
tnseq-transit | 1 | {bio} |
- tree-puzzle | 1 | {bio,bio-phylogeny,cloud} |
+ tree-puzzle | 1 | {bio,cloud,bio-phylogeny} |
varscan | 1 | {bio} |
volpack | 1 | {imaging-dev} |
bambamc | 0 | {bio-dev} |
@@ -297,16 +297,16 @@ Last-Update: Fri, 28 Feb 2020 01:42:03 +0000
opencfu | 0 | {laboratory} |
opensurgsim | 0 | {imaging-dev} |
orthanc-imagej | 0 | {imaging} |
- oscar | 0 | {tools,practice,data} |
+ oscar | 0 | {data,tools,practice} |
papyrus | 0 | {imaging-dev} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
- python-deeptools | 0 | {bio-dev,bio} |
+ python-deeptools | 0 | {bio,bio-dev} |
python-py2bit | 0 | {bio-dev,bio} |
python-pyani | 0 | {bio-dev} |
- python-tinyalign | 0 | {bio-dev} |
- relion | 0 | {bio-dev} |
+ python-tinyalign | 0 | {bio,bio-dev} |
relion | 0 | {bio} |
+ relion | 0 | {bio-dev} |
sambamba | 0 | {bio} |
sbmltoolbox | 0 | {bio-dev} |
simpleitk | 0 | {imaging-dev} |
=====================================
outdated_med-packages.txt
=====================================
@@ -1,4 +1,4 @@
-Last-Update: Fri, 28 Feb 2020 01:42:04 +0000
+Last-Update: Fri, 28 Feb 2020 13:42:03 +0000
source | version | upstream_version | uploaders | Last uploader | Last uploaded
-------------------------------+---------------------------------+---------------------------------+-----------------------------------------------------------------------------+----------------------+------------------------
@@ -37,7 +37,7 @@ Last-Update: Fri, 28 Feb 2020 01:42:04 +0000
libedlib | 1.2.4 | 1.2.6 | Andreas Tille | Andreas Tille | 2019-08-19 00:34:56+00
libgclib | 0.11.4 | 0.11.7 | Andreas Tille,Michael R. Crusoe,Steffen Moeller | Michael R. Crusoe | 2020-02-14 13:04:26+00
libics | 1.6.3 | 1.6.4 | Andreas Tille | Andreas Tille | 2019-08-01 12:39:13+00
- libjloda-java | 0.0+git20180523.cbaf6d1 | 0.0+git20200221.17916cc | Andreas Tille | Andreas Tille | 2018-05-25 21:49:43+00
+ libjloda-java | 0.0+git20180523.cbaf6d1 | 0.0+git20200227.17134f9 | Andreas Tille | Andreas Tille | 2018-05-25 21:49:43+00
libmaus2 | 2.0.698 | 2.0.703 | Andreas Tille,Steffen Moeller | Andreas Tille | 2020-02-05 10:04:12+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
libundead | 1.0.10 | 1.1.1 | Andreas Tille | Andreas Tille | 2019-09-13 21:06:10+00
@@ -52,7 +52,7 @@ Last-Update: Fri, 28 Feb 2020 01:42:04 +0000
pbgenomicconsensus | 2.3.2 | 2.3.3 | Andreas Tille | Liubov Chuprikova | 2019-04-07 15:33:36+00
pbh5tools | 0.8.0+git20170929.58d54ff | 0.8.0+git20181212.9fa8fc4 | Afif Elghraoui | Andreas Tille | 2018-07-13 14:49:05+00
pbseqlib | 5.3.3 | 5.3.4 | Andreas Tille | Andreas Tille | 2020-01-29 15:04:33+00
- picard-tools | 2.18.25 | 2.21.9 | Andreas Tille,Charles Plessy,Olivier Sallou,Steffen Moeller,Vincent Danjean | Andreas Tille | 2019-02-04 09:20:37+00
+ picard-tools | 2.18.25 | 2.22.0 | Andreas Tille,Charles Plessy,Olivier Sallou,Steffen Moeller,Vincent Danjean | Andreas Tille | 2019-02-04 09:20:37+00
plink2 | 2.00~a3-200217 | 200225 | Dylan Aïssi | Dylan Aïssi | 2020-02-19 06:19:18+00
prokka | 1.14.5 | 1.14.6 | Andreas Tille,Michael R. Crusoe | Michael R. Crusoe | 2019-12-04 11:00:31+00
pydicom | 1.4.1 | 1.4.2 | Michael Hanke,Yaroslav Halchenko | Andreas Tille | 2020-01-23 12:34:53+00
@@ -63,23 +63,22 @@ Last-Update: Fri, 28 Feb 2020 01:42:04 +0000
python-colormap | 1.0.2 | 1.0.3 | Andreas Tille | Andreas Tille | 2019-12-06 16:51:43+00
python-pbcommand | 1.1.1+git20191122.ec024c3 | 1.1.1+git20200211.116b09f | Andreas Tille | Andreas Tille | 2019-12-19 08:42:03+00
python-pymummer | 0.10.3 | 0.11.0 | Afif Elghraoui | Andreas Tille | 2019-01-07 09:06:07+00
- python-schema-salad | 5.0.20200126033820 | 5.0.20200220195218 | Michael R. Crusoe | Michael R. Crusoe | 2020-02-14 12:34:49+00
python-treetime | 0.7.1 | 0.7.4 | Andreas Tille | Steffen Moeller | 2020-01-18 20:52:48+00
q2-feature-classifier | 2019.4.0 | 2019.10.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-11-11 10:00:33+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
resfinder-db | 0.0+git20191001.149209d | 0.0+git20200213.2a8dd7f | Andreas Tille | Andreas Tille | 2019-11-16 23:00:12+00
salmon | 0.12.0 | 1.1.0 | Kevin Murray,Michael R. Crusoe | Andreas Tille | 2018-12-13 19:05:56+00
- seaview | 4.7 | 5.0 | Andreas Tille,Charles Plessy | Andreas Tille | 2018-05-09 13:43:40+00
+ seaview | 4.7 | 5.0.1 | 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
simpleitk | 1.0.1 | 1.2.0 | Ghislain Antony Vaillant | Andreas Tille | 2019-01-30 10:06:08+00
spades | 3.13.1 | 3.14.0 | Alexandre Mestiashvili,Andreas Tille,Michael R. Crusoe,Sascha Steinbiss | Andreas Tille | 2019-11-22 10:05:04+00
- sra-sdk | 2.9.3 | 2.10.3 | Andreas Tille,Charles Plessy | Steffen Moeller | 2018-10-23 20:40:02+00
+ sra-sdk | 2.9.3 | 2.10.4 | Andreas Tille,Charles Plessy | Steffen Moeller | 2018-10-23 20:40:02+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
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
-(77 rows)
+(76 rows)
source | id | severity | title
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/df5fdeb4c2b16b64aa422ab37e51021fc0eb3bf7
--
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