[med-svn] [Git][med-team/community/helper-scripts][master] automatic update

Andreas Tille gitlab at salsa.debian.org
Sun Apr 5 14:44:26 BST 2020



Andreas Tille pushed to branch master at Debian Med / community / helper-scripts


Commits:
4085c990 by Andreas Tille at 2020-04-05T13:44:20+00:00
automatic update

- - - - -


2 changed files:

- debian-med-tests.txt
- outdated_med-packages.txt


Changes:

=====================================
debian-med-tests.txt
=====================================
@@ -1,230 +1,229 @@
-Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
+Last-Update: Sun, 05 Apr 2020 13:42:03 +0000
 
  Source                        | Vote   |     Tasks                                           |                                 Tags                                 
 -------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk                         |    160 | {imaging,covid-19}                                  | 
- orthanc                       |     92 | {practice,imaging,covid-19}                         | 
- gdcm                          |     50 | {imaging-dev}                                       | 
- orthanc-wsi                   |     39 | {covid-19,his,practice,oncology,imaging,laboratory} | 
- htsjdk                        |     31 | {bio-dev}                                           | 
- amide                         |     30 | {imaging}                                           | 
- dcm2niix                      |     27 | {imaging}                                           | 
- dicomscope                    |     25 | {imaging}                                           | 
- dicom3tools                   |     24 | {imaging}                                           | 
- gdcm                          |     21 | {imaging,covid-19}                                  | 
- minc-tools                    |     17 | {imaging}                                           | 
+ dcmtk                         |    163 | {imaging,covid-19}                                  | 
+ orthanc                       |     93 | {practice,imaging,covid-19}                         | 
+ gdcm                          |     52 | {imaging-dev}                                       | 
+ orthanc-wsi                   |     38 | {practice,his,laboratory,imaging,oncology,covid-19} | 
+ htsjdk                        |     30 | {bio-dev}                                           | 
+ amide                         |     28 | {imaging}                                           | 
+ dcm2niix                      |     26 | {imaging}                                           | 
+ dicomscope                    |     24 | {imaging}                                           | 
+ dicom3tools                   |     22 | {imaging}                                           | 
+ gdcm                          |     21 | {covid-19,imaging}                                  | 
+ gnumed-server                 |     17 | {covid-19,practice}                                 | 
  ngs-sdk                       |     17 | {bio-dev}                                           | 
- gnumed-server                 |     16 | {practice,covid-19}                                 | 
- king                          |     15 | {typesetting,imaging}                               | 
- pixelmed                      |     15 | {imaging}                                           | 
  invesalius                    |     14 | {imaging}                                           | 
- ncbi-entrez-direct            |     14 | {bio}                                               | 
- biojava-live                  |     13 | {bio-dev}                                           | 
- vtk-dicom                     |     13 | {imaging}                                           | 
- insighttoolkit4               |     12 | {imaging-dev}                                       | 
- mia                           |     12 | {imaging}                                           | 
- openslide                     |     12 | {imaging}                                           | 
+ king                          |     14 | {typesetting,imaging}                               | 
+ minc-tools                    |     14 | {imaging}                                           | 
+ insighttoolkit4               |     13 | {imaging-dev}                                       | 
+ ncbi-entrez-direct            |     13 | {bio}                                               | 
+ pixelmed                      |     13 | {imaging}                                           | 
+ cgview                        |     12 | {bio}                                               | 
+ vtk-dicom                     |     12 | {imaging}                                           | 
  adun.app                      |     11 | {bio}                                               | 
- cgview                        |     11 | {bio}                                               | 
- jebl2                         |     11 | {bio-dev}                                           | 
- staden                        |     11 | {bio}                                               | 
- biosig4c++                    |     10 | {imaging,physics}                                   | 
- ea-utils                      |     10 | {bio}                                               | 
- king-probe                    |     10 | {bio}                                               | 
- psychopy                      |     10 | {psychology}                                        | 
- radiant                       |     10 | {bio}                                               | 
- dazzdb                        |      9 | {bio}                                               | 
- diamond-aligner               |      9 | {bio,covid-19}                                      | 
+ biojava-live                  |     11 | {bio-dev}                                           | 
+ openslide                     |     11 | {imaging}                                           | 
+ jebl2                         |     10 | {bio-dev}                                           | 
+ mia                           |     10 | {imaging}                                           | 
+ seqsero                       |     10 | {bio}                                               | 
+ staden                        |     10 | {bio}                                               | 
+ ea-utils                      |      9 | {bio}                                               | 
  gasic                         |      9 | {cloud,bio}                                         | 
- mipe                          |      9 | {cloud,bio}                                         | 
+ king-probe                    |      9 | {bio}                                               | 
  ngs-sdk                       |      9 | {bio-dev}                                           | 
+ obitools                      |      9 | {bio}                                               | 
  plastimatch                   |      9 | {imaging}                                           | 
- seqsero                       |      9 | {bio}                                               | 
- tree-puzzle                   |      9 | {cloud,bio,bio-phylogeny}                           | 
- bppsuite                      |      8 | {bio}                                               | 
- fastlink                      |      8 | {cloud,bio}                                         | 
- fitgcp                        |      8 | {bio,cloud}                                         | 
+ psychopy                      |      9 | {psychology}                                        | 
+ biosig4c++                    |      8 | {imaging,physics}                                   | 
+ dazzdb                        |      8 | {bio}                                               | 
  gdcm                          |      8 | {imaging-dev}                                       | 
- norsp                         |      8 | {bio}                                               | 
- obitools                      |      8 | {bio}                                               | 
- phast                         |      8 | {bio}                                               | 
- prime-phylo                   |      8 | {cloud,bio}                                         | 
- sigma-align                   |      8 | {cloud,bio-phylogeny,bio}                           | 
+ mipe                          |      8 | {bio,cloud}                                         | 
+ radiant                       |      8 | {bio}                                               | 
+ tree-puzzle                   |      8 | {cloud,bio,bio-phylogeny}                           | 
  abacas                        |      7 | {bio}                                               | 
  alter-sequence-alignment      |      7 | {bio}                                               | 
- ampliconnoise                 |      7 | {bio,cloud}                                         | 
- anfo                          |      7 | {cloud,bio}                                         | 
- arden                         |      7 | {bio,cloud}                                         | 
- biomaj3-cli                   |      7 | {cloud}                                             | 
- daligner                      |      7 | {bio,bio-ngs}                                       | 
- ecopcr                        |      7 | {bio}                                               | 
- embassy-domainatrix           |      7 | {cloud,bio}                                         | 
- embassy-domsearch             |      7 | {bio,cloud}                                         | 
- freecontact                   |      7 | {cloud,bio}                                         | 
+ bppsuite                      |      7 | {bio}                                               | 
+ diamond-aligner               |      7 | {bio,covid-19}                                      | 
+ fastlink                      |      7 | {bio,cloud}                                         | 
+ fitgcp                        |      7 | {cloud,bio}                                         | 
  hunspell-en-med               |      7 | {tools}                                             | 
  librg-utils-perl              |      7 | {bio}                                               | 
- maqview                       |      7 | {bio}                                               | 
  ncbi-seg                      |      7 | {bio}                                               | 
- neobio                        |      7 | {cloud,bio}                                         | 
- phyutility                    |      7 | {bio,cloud}                                         | 
- piler                         |      7 | {bio}                                               | 
- placnet                       |      7 | {bio}                                               | 
- pscan-tfbs                    |      7 | {bio}                                               | 
- rambo-k                       |      7 | {bio}                                               | 
- rdp-readseq                   |      7 | {bio}                                               | 
- saint                         |      7 | {bio}                                               | 
- sibsim4                       |      7 | {bio,cloud}                                         | 
- biomaj3-daemon                |      6 | {bio}                                               | 
- bio-tradis                    |      6 | {bio-dev,bio}                                       | 
- bitseq                        |      6 | {bio}                                               | 
- clonalframeml                 |      6 | {covid-19,bio}                                      | 
- codonw                        |      6 | {bio}                                               | 
- edtsurf                       |      6 | {bio}                                               | 
- embassy-domalign              |      6 | {cloud,bio}                                         | 
- estscan                       |      6 | {bio}                                               | 
- freebayes                     |      6 | {bio}                                               | 
+ norsp                         |      7 | {bio}                                               | 
+ parsnp                        |      7 | {bio}                                               | 
+ phast                         |      7 | {bio}                                               | 
+ anfo                          |      6 | {cloud,bio}                                         | 
+ arden                         |      6 | {bio,cloud}                                         | 
+ biomaj3-cli                   |      6 | {cloud}                                             | 
+ brig                          |      6 | {bio}                                               | 
+ daligner                      |      6 | {bio-ngs,bio}                                       | 
+ ecopcr                        |      6 | {bio}                                               | 
+ embassy-domainatrix           |      6 | {bio,cloud}                                         | 
+ embassy-domsearch             |      6 | {bio,cloud}                                         | 
+ freecontact                   |      6 | {bio,cloud}                                         | 
  jaligner                      |      6 | {bio}                                               | 
  lagan                         |      6 | {bio}                                               | 
- lamarc                        |      6 | {bio}                                               | 
- lucy                          |      6 | {bio}                                               | 
- melting                       |      6 | {bio,cloud}                                         | 
- microbegps                    |      6 | {bio}                                               | 
- mlv-smile                     |      6 | {cloud,bio}                                         | 
+ maqview                       |      6 | {bio}                                               | 
+ melting                       |      6 | {cloud,bio}                                         | 
+ neobio                        |      6 | {cloud,bio}                                         | 
  orthanc-webviewer             |      6 | {imaging}                                           | 
  paml                          |      6 | {bio}                                               | 
- paraclu                       |      6 | {cloud,bio}                                         | 
- parsnp                        |      6 | {bio}                                               | 
- perm                          |      6 | {cloud,bio}                                         | 
- poretools                     |      6 | {bio}                                               | 
- probabel                      |      6 | {bio,cloud}                                         | 
+ phyutility                    |      6 | {bio,cloud}                                         | 
+ piler                         |      6 | {bio}                                               | 
+ placnet                       |      6 | {bio}                                               | 
+ predictprotein                |      6 | {bio}                                               | 
+ prime-phylo                   |      6 | {bio,cloud}                                         | 
+ pscan-tfbs                    |      6 | {bio}                                               | 
  pymia                         |      6 | {imaging-dev}                                       | 
+ rambo-k                       |      6 | {bio}                                               | 
+ rdp-readseq                   |      6 | {bio}                                               | 
  salmon                        |      6 | {bio}                                               | 
- scythe                        |      6 | {bio}                                               | 
  seqtools                      |      6 | {bio}                                               | 
- sickle                        |      6 | {bio}                                               | 
- spread-phy                    |      6 | {bio-phylogeny,bio}                                 | 
- squizz                        |      6 | {bio,cloud}                                         | 
+ sibsim4                       |      6 | {bio,cloud}                                         | 
+ sigma-align                   |      6 | {cloud,bio-phylogeny,bio}                           | 
+ sumatra                       |      6 | {bio}                                               | 
  tracetuner                    |      6 | {bio}                                               | 
- treeview                      |      6 | {bio-phylogeny,bio}                                 | 
+ ampliconnoise                 |      5 | {cloud,bio}                                         | 
  andi                          |      5 | {bio}                                               | 
- baitfisher                    |      5 | {bio}                                               | 
  bandage                       |      5 | {bio}                                               | 
  beads                         |      5 | {bio}                                               | 
- beast2-mcmc                   |      5 | {bio}                                               | 
+ biomaj3-daemon                |      5 | {bio}                                               | 
  bio-rainbow                   |      5 | {bio}                                               | 
- brig                          |      5 | {bio}                                               | 
+ bitseq                        |      5 | {bio}                                               | 
  canu                          |      5 | {bio}                                               | 
- centrifuge                    |      5 | {bio}                                               | 
- clonalorigin                  |      5 | {bio}                                               | 
  cluster3                      |      5 | {bio}                                               | 
- dascrubber                    |      5 | {bio}                                               | 
- elph                          |      5 | {bio}                                               | 
+ codonw                        |      5 | {bio}                                               | 
+ edtsurf                       |      5 | {bio}                                               | 
+ embassy-domalign              |      5 | {cloud,bio}                                         | 
+ estscan                       |      5 | {bio}                                               | 
+ freebayes                     |      5 | {bio}                                               | 
  gatb-core                     |      5 | {bio}                                               | 
  ghmm                          |      5 | {bio}                                               | 
- harvest-tools                 |      5 | {bio}                                               | 
  indelible                     |      5 | {bio}                                               | 
  ipig                          |      5 | {bio}                                               | 
  jellyfish1                    |      5 | {bio}                                               | 
+ lamarc                        |      5 | {bio}                                               | 
  libdivsufsort                 |      5 | {bio-dev}                                           | 
- librdp-taxonomy-tree-java     |      5 | {bio-dev}                                           | 
- logol                         |      5 | {bio}                                               | 
+ lucy                          |      5 | {bio}                                               | 
  mapsembler2                   |      5 | {bio,cloud}                                         | 
  mauve-aligner                 |      5 | {bio}                                               | 
- murasaki                      |      5 | {bio}                                               | 
+ microbegps                    |      5 | {bio}                                               | 
+ mlv-smile                     |      5 | {cloud,bio}                                         | 
  openslide                     |      5 | {imaging-dev}                                       | 
- predictprotein                |      5 | {bio}                                               | 
- proalign                      |      5 | {bio-phylogeny,bio}                                 | 
+ paraclu                       |      5 | {bio,cloud}                                         | 
+ perm                          |      5 | {bio,cloud}                                         | 
+ poretools                     |      5 | {bio}                                               | 
+ proalign                      |      5 | {bio,bio-phylogeny}                                 | 
+ probabel                      |      5 | {cloud,bio}                                         | 
  pscan-chip                    |      5 | {bio}                                               | 
  quorum                        |      5 | {bio}                                               | 
  rdp-alignment                 |      5 | {bio}                                               | 
- rdp-classifier                |      5 | {bio}                                               | 
- repeatmasker-recon            |      5 | {bio}                                               | 
- samblaster                    |      5 | {bio,covid-19}                                      | 
- seer                          |      5 | {bio}                                               | 
+ saint                         |      5 | {bio}                                               | 
  seqtools                      |      5 | {bio}                                               | 
- sprai                         |      5 | {bio}                                               | 
- sumatra                       |      5 | {bio}                                               | 
+ sickle                        |      5 | {bio}                                               | 
+ spread-phy                    |      5 | {bio,bio-phylogeny}                                 | 
+ squizz                        |      5 | {cloud,bio}                                         | 
  transtermhp                   |      5 | {bio}                                               | 
+ treeview                      |      5 | {bio,bio-phylogeny}                                 | 
  vsearch                       |      5 | {bio}                                               | 
- zalign                        |      5 | {cloud,bio}                                         | 
- assemblytics                  |      4 | {bio}                                               | 
+ baitfisher                    |      4 | {bio}                                               | 
  bart-view                     |      4 | {imaging}                                           | 
- beast-mcmc                    |      4 | {bio-phylogeny,bio}                                 | 
+ beast2-mcmc                   |      4 | {bio}                                               | 
+ beast-mcmc                    |      4 | {bio,bio-phylogeny}                                 | 
+ bio-tradis                    |      4 | {bio,bio-dev}                                       | 
+ centrifuge                    |      4 | {bio}                                               | 
+ clonalframeml                 |      4 | {bio,covid-19}                                      | 
+ clonalorigin                  |      4 | {bio}                                               | 
+ dascrubber                    |      4 | {bio}                                               | 
  dwgsim                        |      4 | {bio}                                               | 
- elastix                       |      4 | {imaging}                                           | 
+ elph                          |      4 | {bio}                                               | 
  fastml                        |      4 | {bio}                                               | 
+ harvest-tools                 |      4 | {bio}                                               | 
  hinge                         |      4 | {bio}                                               | 
- jmodeltest                    |      4 | {bio-phylogeny,bio}                                 | 
+ jmodeltest                    |      4 | {bio,bio-phylogeny}                                 | 
  libminc                       |      4 | {imaging-dev}                                       | 
- libncl                        |      4 | {bio}                                               | 
  libpal-java                   |      4 | {bio-dev}                                           | 
- maffilter                     |      4 | {bio}                                               | 
+ librdp-taxonomy-tree-java     |      4 | {bio-dev}                                           | 
+ logol                         |      4 | {bio}                                               | 
  mhap                          |      4 | {bio,bio-ngs}                                       | 
- mptp                          |      4 | {bio}                                               | 
  patman                        |      4 | {bio}                                               | 
- phipack                       |      4 | {bio}                                               | 
- prottest                      |      4 | {bio,bio-phylogeny}                                 | 
- rampler                       |      4 | {bio}                                               | 
+ prottest                      |      4 | {bio-phylogeny,bio}                                 | 
+ rdp-classifier                |      4 | {bio}                                               | 
  relion                        |      4 | {bio}                                               | 
- roguenarok                    |      4 | {bio}                                               | 
- seqmagick                     |      4 | {covid-19,bio}                                      | 
- sga                           |      4 | {bio}                                               | 
+ repeatmasker-recon            |      4 | {bio}                                               | 
+ samblaster                    |      4 | {covid-19,bio}                                      | 
+ scythe                        |      4 | {bio}                                               | 
+ seer                          |      4 | {bio}                                               | 
+ seqtools                      |      4 | {bio}                                               | 
  soapsnp                       |      4 | {bio}                                               | 
- stacks                        |      4 | {bio}                                               | 
- sweed                         |      4 | {bio}                                               | 
- tnseq-transit                 |      4 | {bio,covid-19}                                      | 
- tvc                           |      4 | {bio}                                               | 
+ sprai                         |      4 | {bio}                                               | 
+ assemblytics                  |      3 | {bio}                                               | 
  blasr                         |      3 | {bio,bio-ngs}                                       | 
  delly                         |      3 | {bio,covid-19}                                      | 
- dicompyler                    |      3 | {oncology}                                          | 
  dindel                        |      3 | {bio}                                               | 
+ elastix                       |      3 | {imaging}                                           | 
  fsm-lite                      |      3 | {bio}                                               | 
+ libncl                        |      3 | {bio}                                               | 
  libsbml                       |      3 | {bio-dev}                                           | 
+ maffilter                     |      3 | {bio}                                               | 
  metaphlan2                    |      3 | {bio}                                               | 
+ mptp                          |      3 | {bio}                                               | 
  mrs                           |      3 | {bio}                                               | 
- ngs-sdk                       |      3 | {bio-dev}                                           | 
+ murasaki                      |      3 | {bio}                                               | 
+ nutsqlite                     |      3 | {tools}                                             | 
  orthanc-dicomweb              |      3 | {covid-19,imaging}                                  | 
  orthanc-mysql                 |      3 | {imaging}                                           | 
  pbdagcon                      |      3 | {bio}                                               | 
+ phipack                       |      3 | {bio}                                               | 
  phybin                        |      3 | {bio}                                               | 
  pilon                         |      3 | {bio}                                               | 
  plasmidseeker                 |      3 | {bio}                                               | 
+ rampler                       |      3 | {bio}                                               | 
  relion                        |      3 | {bio}                                               | 
- rtax                          |      3 | {bio,cloud}                                         | 
+ roguenarok                    |      3 | {bio}                                               | 
+ rtax                          |      3 | {cloud,bio}                                         | 
  runcircos-gui                 |      3 | {bio}                                               | 
- snap-aligner                  |      3 | {bio}                                               | 
+ seqmagick                     |      3 | {covid-19,bio}                                      | 
+ sga                           |      3 | {bio}                                               | 
  soapaligner                   |      3 | {bio}                                               | 
+ stacks                        |      3 | {bio}                                               | 
  suitename                     |      3 | {bio}                                               | 
- sumaclust                     |      3 | {bio,covid-19}                                      | 
  surankco                      |      3 | {bio}                                               | 
- transrate-tools               |      3 | {bio}                                               | 
+ sweed                         |      3 | {bio}                                               | 
+ tnseq-transit                 |      3 | {bio,covid-19}                                      | 
+ tvc                           |      3 | {bio}                                               | 
  varscan                       |      3 | {bio}                                               | 
- velvetoptimiser               |      3 | {bio}                                               | 
  yaha                          |      3 | {bio}                                               | 
+ zalign                        |      3 | {cloud,bio}                                         | 
  biosig4c++                    |      2 | {physics,imaging-dev}                               | 
- cufflinks                     |      2 | {cloud,bio}                                         | 
+ cufflinks                     |      2 | {bio,cloud}                                         | 
+ dicompyler                    |      2 | {oncology}                                          | 
  getdata                       |      2 | {bio}                                               | 
  igor                          |      2 | {bio}                                               | 
  kma                           |      2 | {bio}                                               | 
  kmerresistance                |      2 | {bio}                                               | 
- libchado-perl                 |      2 | {bio-dev}                                           | 
  libgff                        |      2 | {bio-dev}                                           | 
  libsmithwaterman              |      2 | {bio}                                               | 
  mencal                        |      2 | {tools}                                             | 
- nutsqlite                     |      2 | {tools}                                             | 
+ ngs-sdk                       |      2 | {bio-dev}                                           | 
  qcumber                       |      2 | {bio}                                               | 
  scrm                          |      2 | {bio}                                               | 
  segemehl                      |      2 | {bio}                                               | 
  skesa                         |      2 | {bio}                                               | 
+ snap-aligner                  |      2 | {bio}                                               | 
  spaced                        |      2 | {bio}                                               | 
  srf                           |      2 | {bio-dev}                                           | 
  thesias                       |      2 | {bio,covid-19}                                      | 
- tree-puzzle                   |      2 | {bio-phylogeny,bio,cloud}                           | 
+ transrate-tools               |      2 | {bio}                                               | 
+ velvetoptimiser               |      2 | {bio}                                               | 
  atropos                       |      1 | {bio}                                               | 
- biosig4c++                    |      1 | {imaging-dev,physics}                               | 
+ biosig4c++                    |      1 | {physics,imaging-dev}                               | 
+ blimps                        |      1 | {bio}                                               | 
  ctn                           |      1 | {imaging-dev}                                       | 
  embassy-phylip                |      1 | {cloud,bio}                                         | 
- libbio-mage-utils-perl        |      1 | {bio-dev}                                           | 
+ libchado-perl                 |      1 | {bio-dev}                                           | 
  libctapimkt                   |      1 | {practice}                                          | 
  libsmithwaterman              |      1 | {bio-dev}                                           | 
  nanook                        |      1 | {bio}                                               | 
@@ -236,28 +235,30 @@ Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
  pilercr                       |      1 | {bio}                                               | 
  qrisk2                        |      1 | {practice}                                          | 
  samtools-legacy               |      1 | {bio-dev}                                           | 
- stringtie                     |      1 | {covid-19,bio}                                      | 
+ sift                          |      1 | {bio}                                               | 
+ stringtie                     |      1 | {bio,covid-19}                                      | 
  trace2dbest                   |      1 | {bio}                                               | 
+ tree-puzzle                   |      1 | {cloud,bio-phylogeny,bio}                           | 
  volpack                       |      1 | {imaging-dev}                                       | 
- acedb                         |      0 | {bio,cloud}                                         | 
- augur                         |      0 | {bio,covid-19}                                      | 
+ acedb                         |      0 | {cloud,bio}                                         | 
+ augur                         |      0 | {covid-19,bio}                                      | 
  bambamc                       |      0 | {bio-dev}                                           | 
  bbmap                         |      0 | {covid-19}                                          | 
- biobambam2                    |      0 | {bio-dev,covid-19,bio}                              | 
+ biobambam2                    |      0 | {covid-19,bio,bio-dev}                              | 
  biojava4-live                 |      0 | {bio-dev}                                           | 
  biosig4c++                    |      0 | {physics}                                           | 
  biosyntax                     |      0 | {bio}                                               | 
- blimps                        |      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}                                           | 
  htscodecs                     |      0 | {bio-dev,covid-19}                                  | 
  libbigwig                     |      0 | {bio-dev}                                           | 
  libbiod                       |      0 | {bio-dev}                                           | 
+ libbio-mage-utils-perl        |      0 | {bio-dev}                                           | 
  libbioparser-dev              |      0 | {bio-dev}                                           | 
  libbpp-core                   |      0 | {bio-dev}                                           | 
  libbpp-phyl                   |      0 | {bio-dev}                                           | 
@@ -270,7 +271,7 @@ Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
  libgenome                     |      0 | {bio-dev}                                           | 
  libgkarrays                   |      0 | {bio-dev}                                           | 
  libhmsbeagle                  |      0 | {bio-dev}                                           | 
- libics                        |      0 | {covid-19,imaging-dev}                              | 
+ libics                        |      0 | {imaging-dev,covid-19}                              | 
  libjloda-java                 |      0 | {bio-dev}                                           | 
  libmaus2                      |      0 | {bio-dev,covid-19}                                  | 
  libmems                       |      0 | {bio-dev}                                           | 
@@ -289,12 +290,12 @@ Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
  metastudent-data-2            |      0 | {bio}                                               | 
  mia                           |      0 | {imaging-dev}                                       | 
  miaviewit                     |      0 | {imaging-dev}                                       | 
- milib                         |      0 | {covid-19,bio-dev}                                  | 
+ milib                         |      0 | {bio-dev,covid-19}                                  | 
  mssstest                      |      0 | {tools}                                             | 
  murasaki                      |      0 | {bio}                                               | 
  ncbi-vdb                      |      0 | {bio-dev}                                           | 
  orthanc-imagej                |      0 | {imaging}                                           | 
- oscar                         |      0 | {data,practice,tools}                               | 
+ oscar                         |      0 | {tools,data,practice}                               | 
  pbcopper                      |      0 | {bio-dev}                                           | 
  pbseqlib                      |      0 | {bio-dev}                                           | 
  python-etelemetry             |      0 | {covid-19}                                          | 
@@ -307,16 +308,14 @@ Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
  sbmltoolbox                   |      0 | {bio-dev}                                           | 
  seqan                         |      0 | {bio-dev}                                           | 
  seq-gen                       |      0 | {bio}                                               | 
- sift                          |      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}                                       | 
  bustools                      |     -1 | {bio}                                               | 
- relion                        |     -1 | {bio}                                               | 
-(346 rows)
+(345 rows)
 


=====================================
outdated_med-packages.txt
=====================================
@@ -1,4 +1,4 @@
-Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
+Last-Update: Sun, 05 Apr 2020 13:42:04 +0000
 
  source                        |             version             |        upstream_version         |                       uploaders                                             | Last uploader        |     Last uploaded      
 -------------------------------+---------------------------------+---------------------------------+-----------------------------------------------------------------------------+----------------------+------------------------
@@ -35,18 +35,19 @@ Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
  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                   | 13.5.20200326                   | Aaron M. Ucko                                                               | Aaron M. Ucko        | 2020-02-03 03:53:53+00
- pbgenomicconsensus            | 2.3.2                           | 2.3.3                           | Andreas Tille                                                               | Liubov Chuprikova    | 2019-04-07 15:33:36+00
+ ncbi-vdb                      | 2.10.3                          | 2.10.5                          | Andreas Tille                                                               | Andreas Tille        | 2020-02-24 21:12:17+00
  picard-tools                  | 2.18.25                         | 2.22.2                          | Andreas Tille,Charles Plessy,Olivier Sallou,Steffen Moeller,Vincent Danjean | Andreas Tille        | 2019-02-04 09:20:37+00
  plink2                        | 2.00~a3-200217                  | 200328                          | Dylan Aïssi                                                                | Dylan Aïssi         | 2020-02-19 06:19:18+00
  praat                         | 6.1.09                          | 6.1.10                          | Andreas Tille,Rafael Laboissière                                           | Rafael Laboissière  | 2020-01-31 12:19:41+00
  pynn                          | 0.7.5                           | 0.9.5                           | Michael Hanke,Yaroslav Halchenko                                            | Andreas Tille        | 2020-04-03 16:34:56+00
- python-bids-validator         | 1.2.4                           | 1.4.4                           | Yaroslav Halchenko                                                          | Yaroslav Halchenko   | 2019-08-17 19:00:11+00
+ python-bids-validator         | 1.2.4                           | 1.5.0                           | Yaroslav Halchenko                                                          | Yaroslav Halchenko   | 2019-08-17 19:00:11+00
  python-cgecore                | 1.5.3                           | 1.5.4                           | Andreas Tille                                                               | Steffen Moeller      | 2020-03-17 12:49:52+00
  python-colormap               | 1.0.2                           | 1.0.3                           | Andreas Tille                                                               | Andreas Tille        | 2019-12-06 16:51:43+00
  python-pbcore                 | 1.7.1+git20200313.41ba394       | 1.7.1+git20200326.ea0808a       | Andreas Tille                                                               | Steffen Moeller      | 2020-03-21 19:39:08+00
  python-pymummer               | 0.10.3                          | 0.11.0                          | Afif Elghraoui                                                              | Andreas Tille        | 2019-01-07 09:06:07+00
  python-schema-salad           | 5.0.20200220195218              | 5.0.20200302192450              | Michael R. Crusoe                                                           | Michael R. Crusoe    | 2020-02-27 19:19:53+00
  python-skbio                  | 0.5.5                           | 0.5.6                           | Andreas Tille,Kevin Murray,Tim Booth                                        | Michael R. Crusoe    | 2020-02-28 14:48:20+00
+ python-xopen                  | 0.8.4                           | 0.9.0                           | Andreas Tille                                                               | Steffen Moeller      | 2019-11-05 15:34:45+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-metadata                   | 2019.10.0                       | 2020.2.0                        | Liubov Chuprikova                                                           | Andreas Tille        | 2020-02-03 08:42:28+00
@@ -54,13 +55,14 @@ Last-Update: Sun, 05 Apr 2020 01:42:04 +0000
  resfinder-db                  | 0.0+git20191001.149209d         | 0.0+git20200318.d6f36d3         | 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                             | 5.0.2                           | 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
  sra-sdk                       | 2.9.3                           | 2.10.5                          | Andreas Tille,Charles Plessy                                                | Steffen Moeller      | 2018-10-23 20:40:02+00
  stacks                        | 2.52                            | 2.53                            | Andreas Tille,Tim Booth                                                     | Steffen Moeller      | 2020-03-26 02:50:13+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
  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
-(58 rows)
+(60 rows)
 
 
  source                        |   id   | severity  |                                                                                               title                                                                                               



View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/4085c990791a6aa54d144a256fe746e5347d20ba

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