Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
5afd375d by Andreas Tille at 2020-03-25T13:44:51+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,46 +1,46 @@
-Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
+Last-Update: Wed, 25 Mar 2020 13:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+--------------------------------------------+----------------------------------------------------------------------
- dcmtk | 169 | {imaging} |
- orthanc | 101 | {practice,imaging} |
- gdcm | 47 | {imaging-dev} |
- orthanc-wsi | 43 | {his,imaging,oncology,laboratory,practice} |
+ dcmtk | 166 | {imaging} |
+ orthanc | 100 | {imaging,practice} |
+ gdcm | 48 | {imaging-dev} |
+ orthanc-wsi | 43 | {his,laboratory,oncology,practice,imaging} |
amide | 35 | {imaging} |
htsjdk | 34 | {bio-dev} |
- dcm2niix | 30 | {imaging} |
+ dcm2niix | 31 | {imaging} |
dicomscope | 28 | {imaging} |
- dicom3tools | 24 | {imaging} |
+ dicom3tools | 25 | {imaging} |
gnumed-server | 18 | {practice} |
- pixelmed | 17 | {imaging} |
- invesalius | 16 | {imaging} |
- minc-tools | 16 | {imaging} |
- ngs-sdk | 16 | {bio-dev} |
- biojava-live | 15 | {bio-dev} |
- gdcm | 15 | {imaging} |
- openslide | 15 | {imaging} |
+ pixelmed | 18 | {imaging} |
+ invesalius | 17 | {imaging} |
+ minc-tools | 17 | {imaging} |
+ ngs-sdk | 17 | {bio-dev} |
+ gdcm | 16 | {imaging} |
+ openslide | 16 | {imaging} |
+ biojava-live | 14 | {bio-dev} |
+ king | 14 | {imaging,typesetting} |
+ vtk-dicom | 14 | {imaging} |
insighttoolkit4 | 13 | {imaging-dev} |
ncbi-entrez-direct | 13 | {bio} |
- psychopy | 13 | {psychology} |
- vtk-dicom | 13 | {imaging} |
adun.app | 12 | {bio} |
- king | 12 | {imaging,typesetting} |
+ psychopy | 12 | {psychology} |
cgview | 11 | {bio} |
+ mia | 11 | {imaging} |
+ plastimatch | 11 | {imaging} |
staden | 11 | {bio} |
tree-puzzle | 11 | {bio-phylogeny,cloud,bio} |
+ biosig4c++ | 10 | {imaging,physics} |
diamond-aligner | 10 | {bio} |
ea-utils | 10 | {bio} |
jebl2 | 10 | {bio-dev} |
king-probe | 10 | {bio} |
librg-utils-perl | 10 | {bio} |
- mia | 10 | {imaging} |
norsp | 10 | {bio} |
- plastimatch | 10 | {imaging} |
radiant | 10 | {bio} |
- biosig4c++ | 9 | {physics,imaging} |
bppsuite | 9 | {bio} |
dazzdb | 9 | {bio} |
- fastlink | 9 | {bio,cloud} |
+ fastlink | 9 | {cloud,bio} |
gdcm | 9 | {imaging-dev} |
mipe | 9 | {cloud,bio} |
ncbi-seg | 9 | {bio} |
@@ -50,7 +50,6 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
arden | 8 | {cloud,bio} |
biomaj3-cli | 8 | {cloud} |
ecopcr | 8 | {bio} |
- embassy-domainatrix | 8 | {bio,cloud} |
freecontact | 8 | {cloud,bio} |
hunspell-en-med | 8 | {tools} |
maqview | 8 | {bio} |
@@ -61,24 +60,21 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
phast | 8 | {bio} |
phyutility | 8 | {bio,cloud} |
piler | 8 | {bio} |
- prime-phylo | 8 | {bio,cloud} |
+ prime-phylo | 8 | {cloud,bio} |
pscan-tfbs | 8 | {bio} |
- seqsero | 8 | {bio} |
- sigma-align | 8 | {bio-phylogeny,bio,cloud} |
+ sigma-align | 8 | {cloud,bio,bio-phylogeny} |
abacas | 7 | {bio} |
alter-sequence-alignment | 7 | {bio} |
anfo | 7 | {cloud,bio} |
bio-tradis | 7 | {bio,bio-dev} |
bitseq | 7 | {bio} |
codonw | 7 | {bio} |
- daligner | 7 | {bio-ngs,bio} |
+ daligner | 7 | {bio,bio-ngs} |
edtsurf | 7 | {bio} |
- embassy-domalign | 7 | {cloud,bio} |
- embassy-domsearch | 7 | {bio,cloud} |
+ embassy-domainatrix | 7 | {cloud,bio} |
estscan | 7 | {bio} |
fitgcp | 7 | {cloud,bio} |
freebayes | 7 | {bio} |
- gasic | 7 | {bio,cloud} |
jaligner | 7 | {bio} |
lagan | 7 | {bio} |
lamarc | 7 | {bio} |
@@ -91,6 +87,7 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
predictprotein | 7 | {bio} |
probabel | 7 | {bio,cloud} |
saint | 7 | {bio} |
+ seqsero | 7 | {bio} |
seqtools | 7 | {bio} |
sibsim4 | 7 | {bio,cloud} |
andi | 6 | {bio} |
@@ -104,13 +101,15 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
dascrubber | 6 | {bio} |
dicompyler | 6 | {oncology} |
elph | 6 | {bio} |
+ embassy-domalign | 6 | {bio,cloud} |
+ embassy-domsearch | 6 | {cloud,bio} |
+ gasic | 6 | {cloud,bio} |
gatb-core | 6 | {bio} |
harvest-tools | 6 | {bio} |
indelible | 6 | {bio} |
ipig | 6 | {bio} |
jellyfish1 | 6 | {bio} |
libminc | 6 | {imaging-dev} |
- libncl | 6 | {bio} |
libpal-java | 6 | {bio-dev} |
mapsembler2 | 6 | {bio,cloud} |
mlv-smile | 6 | {cloud,bio} |
@@ -119,22 +118,21 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
proalign | 6 | {bio,bio-phylogeny} |
pscan-chip | 6 | {bio} |
quorum | 6 | {bio} |
- rambo-k | 6 | {bio} |
rdp-readseq | 6 | {bio} |
scythe | 6 | {bio} |
seqtools | 6 | {bio} |
sickle | 6 | {bio} |
spread-phy | 6 | {bio,bio-phylogeny} |
- squizz | 6 | {cloud,bio} |
+ squizz | 6 | {bio,cloud} |
tracetuner | 6 | {bio} |
transtermhp | 6 | {bio} |
- treeview | 6 | {bio-phylogeny,bio} |
+ treeview | 6 | {bio,bio-phylogeny} |
vsearch | 6 | {bio} |
zalign | 6 | {bio,cloud} |
assemblytics | 5 | {bio} |
bandage | 5 | {bio} |
beads | 5 | {bio} |
- beast-mcmc | 5 | {bio,bio-phylogeny} |
+ beast-mcmc | 5 | {bio-phylogeny,bio} |
brig | 5 | {bio} |
clonalorigin | 5 | {bio} |
cluster3 | 5 | {bio} |
@@ -144,6 +142,7 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
hinge | 5 | {bio} |
jmodeltest | 5 | {bio,bio-phylogeny} |
libdivsufsort | 5 | {bio-dev} |
+ libncl | 5 | {bio} |
librdp-taxonomy-tree-java | 5 | {bio-dev} |
libsbml | 5 | {bio-dev} |
logol | 5 | {bio} |
@@ -155,12 +154,13 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
phipack | 5 | {bio} |
prottest | 5 | {bio-phylogeny,bio} |
pymia | 5 | {imaging-dev} |
+ rambo-k | 5 | {bio} |
rdp-classifier | 5 | {bio} |
repeatmasker-recon | 5 | {bio} |
seer | 5 | {bio} |
sprai | 5 | {bio} |
tvc | 5 | {bio} |
- blasr | 4 | {bio,bio-ngs} |
+ blasr | 4 | {bio-ngs,bio} |
delly | 4 | {bio} |
dindel | 4 | {bio} |
fastml | 4 | {bio} |
@@ -202,8 +202,9 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
sumaclust | 3 | {bio} |
surankco | 3 | {bio} |
tnseq-transit | 3 | {bio} |
+ varscan | 3 | {bio} |
ctn | 2 | {imaging-dev} |
- cufflinks | 2 | {bio,cloud} |
+ cufflinks | 2 | {cloud,bio} |
getdata | 2 | {bio} |
kma | 2 | {bio} |
kmerresistance | 2 | {bio} |
@@ -217,12 +218,11 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
skesa | 2 | {bio} |
spaced | 2 | {bio} |
srf | 2 | {bio-dev} |
- tree-puzzle | 2 | {cloud,bio,bio-phylogeny} |
- varscan | 2 | {bio} |
+ tree-puzzle | 2 | {bio-phylogeny,cloud,bio} |
volpack | 2 | {imaging-dev} |
acedb | 1 | {bio,cloud} |
atropos | 1 | {bio} |
- biosig4c++ | 1 | {imaging-dev,physics} |
+ biosig4c++ | 1 | {physics,imaging-dev} |
blimps | 1 | {bio} |
edflib | 1 | {imaging-dev} |
embassy-phylip | 1 | {cloud,bio} |
@@ -234,6 +234,7 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
libvistaio | 1 | {imaging-dev} |
maxflow | 1 | {imaging-dev} |
mencal | 1 | {tools} |
+ ngs-sdk | 1 | {bio-dev} |
nutsqlite | 1 | {tools} |
opensurgsim | 1 | {imaging-dev} |
orthanc-postgresql | 1 | {imaging} |
@@ -292,14 +293,13 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
mssstest | 0 | {tools} |
murasaki | 0 | {bio} |
ncbi-vdb | 0 | {bio-dev} |
- ngs-sdk | 0 | {bio-dev} |
orthanc-imagej | 0 | {imaging} |
- oscar | 0 | {tools,data,practice} |
+ oscar | 0 | {data,practice,tools} |
pbcopper | 0 | {bio-dev} |
pbseqlib | 0 | {bio-dev} |
- python-py2bit | 0 | {bio,bio-dev} |
- relion | 0 | {bio} |
+ python-py2bit | 0 | {bio-dev,bio} |
relion | 0 | {bio-dev} |
+ relion | 0 | {bio} |
sambamba | 0 | {bio} |
sbmltoolbox | 0 | {bio-dev} |
seqan | 0 | {bio-dev} |
=====================================
outdated_med-packages.txt
=====================================
@@ -1,15 +1,16 @@
-Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
+Last-Update: Wed, 25 Mar 2020 13:42:03 +0000
source | version | upstream_version | uploaders | Last uploader | Last uploaded
-------------------------------+---------------------------------+---------------------------------+-----------------------------------------------------------------------------+----------------------+------------------------
artemis | 17.0.1 | 18.1.0 | Andreas Tille | Andreas Tille | 2019-02-08 11:19:24+00
+ atropos | 1.1.24 | 2.0.0-alpha.4 | Andreas Tille | Steffen Moeller | 2019-11-30 12:19:31+00
baitfisher | 1.2.7+git20180107.e92dbf2 | 1.2.7+git20190123.241d060 | Olivier Sallou | Andreas Tille | 2018-09-24 13:04:18+00
beagle | 5.1-191125 | 200321 | Dylan Aïssi | Dylan Aïssi | 2019-12-14 18:34:10+00
biobambam2 | 2.0.153 | 2.0.159+ds | Andreas Tille | Andreas Tille | 2020-02-05 13:20:41+00
biomaj3 | 3.1.14 | 3.1.16 | Olivier Sallou | Olivier Sallou | 2020-02-08 18:22:42+00
biosig4c++ | 1.9.5 | 2.0.2 | Michael Hanke,Yaroslav Halchenko | Andreas Tille | 2020-03-02 08:38:37+00
ctdopts | 1.2 | 1.3 | Michael R. Crusoe | Michael R. Crusoe | 2018-02-28 12:34:26+00
- cwltool | 2.0.20200224214940 | 3.0.20200317203547 | Michael R. Crusoe | Michael R. Crusoe | 2020-02-26 12:07:54+00
+ cwltool | 2.0.20200224214940 | 3.0.20200324120055 | Michael R. Crusoe | Michael R. Crusoe | 2020-02-26 12:07:54+00
daligner | 1.0+git20200115.c2b47da | 1.0+git20200322.477d5b9 | Andreas Tille | Andreas Tille | 2020-01-28 10:34:12+00
dazzdb | 1.0+git20200115.d8adde7 | 1.0+git20200322.ba88d76 | Andreas Tille | Andreas Tille | 2020-01-23 16:34:35+00
dcm2niix | 1.0.20181125 | 1.0.20190902 | Ghislain Antony Vaillant | Andreas Tille | 2019-01-30 10:04:52+00
@@ -27,7 +28,6 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
jebl2 | 0.1+git20180418.653eb83 | 0.1+git20190308.a98448e | Andreas Tille | Andreas Tille | 2018-07-05 12:05:57+00
kineticstools | 0.6.1+git20180425.27a1878 | 0.6.1+git20190618.0ac41a0 | Andreas Tille | Andreas Tille | 2019-02-14 13:26:09+00
king-probe | 2.16.160404+git20180613.a09b012 | 2.16.160404+git20200121.9b198c1 | Andreas Tille,Malihe Asemani,Michael Prisant | Andreas Tille | 2018-07-16 07:34:48+00
- last-align | 1047 | 1060 | Andreas Tille,Charles Plessy | Michael R. Crusoe | 2020-01-24 15:34:18+00
libbioparser-dev | 2.0.1 | 2.1.2 | Andreas Tille | Andreas Tille | 2019-07-15 13:35:45+00
libedlib | 1.2.4 | 1.2.6 | Andreas Tille | Andreas Tille | 2019-08-19 00:34:56+00
libjloda-java | 0.0+git20180523.cbaf6d1 | 0.0+git20200318.6fef1b7 | Andreas Tille | Andreas Tille | 2018-05-25 21:49:43+00
@@ -36,6 +36,7 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
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
nibabel | 3.0.1 | 3.0.2 | Michael Hanke,Yaroslav Halchenko | Andreas Tille | 2020-03-03 14:58:34+00
+ pbseqlib | 5.3.3 | 5.3.4 | Andreas Tille | Andreas Tille | 2020-01-29 15:04:33+00
picard-tools | 2.18.25 | 2.22.1 | Andreas Tille,Charles Plessy,Olivier Sallou,Steffen Moeller,Vincent Danjean | Andreas Tille | 2019-02-04 09:20:37+00
plink2 | 2.00~a3-200217 | 200321 | Dylan Aïssi | Dylan Aïssi | 2020-02-19 06:19:18+00
pynn | 0.7.5 | 0.9.5 | Michael Hanke,Yaroslav Halchenko | Andreas Tille | 2020-03-20 11:00:12+00
@@ -47,8 +48,6 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
python-schema-salad | 5.0.20200220195218 | 5.0.20200302192450 | Michael R. Crusoe | Michael R. Crusoe | 2020-02-27 19:19:53+00
q2-demux | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2020-01-26 07:34:40+00
q2-metadata | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Andreas Tille | 2020-02-03 08:42:28+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
racon | 1.4.10 | 1.4.12 | Andreas Tille,Cédric Lood | Michael R. Crusoe | 2019-11-12 17:22:24+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+git20200318.d6f36d3 | Andreas Tille | Andreas Tille | 2019-11-16 23:00:12+00
@@ -59,7 +58,7 @@ Last-Update: Wed, 25 Mar 2020 01:42:04 +0000
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
xmedcon | 0.16.1 | 0.16.2 | Andreas Tille,Roland Marcus Rutschmann | Andreas Tille | 2019-01-25 18:23:59+00
-(57 rows)
+(56 rows)
source | id | severity | title
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/5afd375de2f7bdaf1c897701ee49fce3b1158a33
--
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/5afd375de2f7bdaf1c897701ee49fce3b1158a33
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