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

Andreas Tille gitlab at salsa.debian.org
Mon Jun 15 14:51:11 BST 2020



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


Commits:
11e553e5 by Andreas Tille at 2020-06-15T13:51:06+00:00
automatic update

- - - - -


2 changed files:

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


Changes:

=====================================
debian-med-tests.txt
=====================================
@@ -1,88 +1,90 @@
-Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
+Last-Update: Mon, 15 Jun 2020 13:42:03 +0000
 
  Source                        | Vote   |     Tasks                                           |                                 Tags                                 
 -------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk                         |    178 | {imaging,covid-19}                                  | 
- orthanc                       |     87 | {covid-19,imaging,practice}                         | 
- gdcm                          |     51 | {imaging-dev}                                       | 
- orthanc-wsi                   |     36 | {laboratory,imaging,practice,covid-19,oncology,his} | 
- htsjdk                        |     34 | {bio-dev}                                           | 
- dcm2niix                      |     26 | {imaging}                                           | 
- dicom3tools                   |     26 | {imaging}                                           | 
- dicomscope                    |     24 | {imaging}                                           | 
- gdcm                          |     22 | {covid-19,imaging}                                  | 
- gnumed-server                 |     17 | {covid-19,practice}                                 | 
+ dcmtk                         |    179 | {imaging,covid-19}                                  | 
+ orthanc                       |     90 | {covid-19,imaging,practice}                         | 
+ gdcm                          |     46 | {imaging-dev}                                       | 
+ orthanc-wsi                   |     36 | {covid-19,his,imaging,oncology,practice,laboratory} | 
+ htsjdk                        |     35 | {bio-dev}                                           | 
+ dcm2niix                      |     25 | {imaging}                                           | 
+ dicom3tools                   |     24 | {imaging}                                           | 
+ dicomscope                    |     23 | {imaging}                                           | 
+ gdcm                          |     19 | {covid-19,imaging}                                  | 
+ gnumed-server                 |     18 | {covid-19,practice}                                 | 
  ngs-sdk                       |     17 | {bio-dev}                                           | 
- insighttoolkit4               |     16 | {imaging-dev}                                       | 
- invesalius                    |     16 | {imaging}                                           | 
- minc-tools                    |     15 | {imaging}                                           | 
+ invesalius                    |     15 | {imaging}                                           | 
+ insighttoolkit4               |     14 | {imaging-dev}                                       | 
+ minc-tools                    |     14 | {imaging}                                           | 
  gdcm                          |     13 | {imaging-dev}                                       | 
- king                          |     12 | {imaging,typesetting}                               | 
  adun.app                      |     11 | {bio}                                               | 
+ jebl2                         |     11 | {bio-dev}                                           | 
  plastimatch                   |     11 | {imaging}                                           | 
- biosig4c++                    |     10 | {physics,imaging}                                   | 
- jebl2                         |     10 | {bio-dev}                                           | 
- openslide                     |     10 | {imaging}                                           | 
- pixelmed                      |     10 | {imaging}                                           | 
- vtk-dicom                     |     10 | {imaging}                                           | 
+ king                          |     10 | {typesetting,imaging}                               | 
+ biosig4c++                    |      9 | {imaging,physics}                                   | 
+ openslide                     |      9 | {imaging}                                           | 
+ pixelmed                      |      9 | {imaging}                                           | 
+ vtk-dicom                     |      9 | {imaging}                                           | 
  biojava-live                  |      8 | {bio-dev}                                           | 
+ librg-utils-perl              |      8 | {bio}                                               | 
  melting                       |      8 | {cloud,bio}                                         | 
  psychopy                      |      8 | {psychology}                                        | 
  dicompyler                    |      7 | {oncology}                                          | 
  fastlink                      |      7 | {cloud,bio}                                         | 
- librg-utils-perl              |      7 | {bio}                                               | 
  ncbi-seg                      |      7 | {bio}                                               | 
  ngs-sdk                       |      7 | {bio-dev}                                           | 
  orthanc-webviewer             |      7 | {imaging}                                           | 
  radiant                       |      7 | {bio}                                               | 
- sibsim4                       |      7 | {cloud,bio}                                         | 
+ sibsim4                       |      7 | {bio,cloud}                                         | 
  vsearch                       |      7 | {bio,covid-19}                                      | 
+ ampliconnoise                 |      6 | {cloud,bio}                                         | 
  biomaj3-cli                   |      6 | {cloud}                                             | 
  brig                          |      6 | {bio}                                               | 
  ea-utils                      |      6 | {bio}                                               | 
  ecopcr                        |      6 | {bio}                                               | 
- libminc                       |      6 | {imaging-dev}                                       | 
  maqview                       |      6 | {bio}                                               | 
- mipe                          |      6 | {bio,cloud}                                         | 
+ mipe                          |      6 | {cloud,bio}                                         | 
  obitools                      |      6 | {bio}                                               | 
- orthanc-dicomweb              |      6 | {covid-19,imaging}                                  | 
- phyutility                    |      6 | {cloud,bio}                                         | 
+ orthanc-dicomweb              |      6 | {imaging,covid-19}                                  | 
+ phyutility                    |      6 | {bio,cloud}                                         | 
  piler                         |      6 | {bio}                                               | 
- sigma-align                   |      6 | {bio,bio-phylogeny,cloud}                           | 
+ pymia                         |      6 | {imaging-dev}                                       | 
+ saint                         |      6 | {bio}                                               | 
+ sigma-align                   |      6 | {bio-phylogeny,bio,cloud}                           | 
  snap-aligner                  |      6 | {bio}                                               | 
- spread-phy                    |      6 | {bio-phylogeny,bio}                                 | 
+ spread-phy                    |      6 | {bio,bio-phylogeny}                                 | 
+ staden                        |      6 | {bio}                                               | 
  treeview                      |      6 | {bio,bio-phylogeny}                                 | 
  alter-sequence-alignment      |      5 | {bio}                                               | 
- ampliconnoise                 |      5 | {bio,cloud}                                         | 
- anfo                          |      5 | {cloud,bio}                                         | 
- arden                         |      5 | {cloud,bio}                                         | 
+ anfo                          |      5 | {bio,cloud}                                         | 
+ arden                         |      5 | {bio,cloud}                                         | 
  bandage                       |      5 | {bio}                                               | 
  beast-mcmc                    |      5 | {bio,bio-phylogeny}                                 | 
  biomaj3-daemon                |      5 | {bio}                                               | 
- bio-tradis                    |      5 | {bio,bio-dev}                                       | 
+ bio-tradis                    |      5 | {bio-dev,bio}                                       | 
+ clonalorigin                  |      5 | {bio}                                               | 
  delly                         |      5 | {bio,covid-19}                                      | 
  elastix                       |      5 | {imaging}                                           | 
  embassy-domainatrix           |      5 | {cloud,bio}                                         | 
- embassy-domalign              |      5 | {bio,cloud}                                         | 
- embassy-domsearch             |      5 | {bio,cloud}                                         | 
+ embassy-domalign              |      5 | {cloud,bio}                                         | 
+ embassy-domsearch             |      5 | {cloud,bio}                                         | 
  gatb-core                     |      5 | {bio}                                               | 
  king-probe                    |      5 | {bio}                                               | 
  lagan                         |      5 | {bio}                                               | 
- neobio                        |      5 | {cloud,bio}                                         | 
+ libminc                       |      5 | {imaging-dev}                                       | 
+ neobio                        |      5 | {bio,cloud}                                         | 
  nutsqlite                     |      5 | {tools}                                             | 
  orthanc-mysql                 |      5 | {imaging}                                           | 
  predictprotein                |      5 | {bio}                                               | 
+ pscan-chip                    |      5 | {bio}                                               | 
  pscan-tfbs                    |      5 | {bio}                                               | 
- pymia                         |      5 | {imaging-dev}                                       | 
  rdp-alignment                 |      5 | {bio}                                               | 
  rdp-readseq                   |      5 | {bio}                                               | 
- rtax                          |      5 | {cloud,bio}                                         | 
- saint                         |      5 | {bio}                                               | 
+ runcircos-gui                 |      5 | {bio}                                               | 
  seqsero                       |      5 | {bio}                                               | 
  sickle                        |      5 | {bio}                                               | 
- squizz                        |      5 | {cloud,bio}                                         | 
+ squizz                        |      5 | {bio,cloud}                                         | 
  stacks                        |      5 | {bio}                                               | 
- staden                        |      5 | {bio}                                               | 
  tracetuner                    |      5 | {bio}                                               | 
  transtermhp                   |      5 | {bio}                                               | 
  abacas                        |      4 | {bio,covid-19}                                      | 
@@ -95,8 +97,7 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  bitseq                        |      4 | {bio}                                               | 
  canu                          |      4 | {bio}                                               | 
  centrifuge                    |      4 | {covid-19,bio}                                      | 
- clonalframeml                 |      4 | {covid-19,bio}                                      | 
- clonalorigin                  |      4 | {bio}                                               | 
+ clonalframeml                 |      4 | {bio,covid-19}                                      | 
  daligner                      |      4 | {bio-ngs,bio}                                       | 
  dascrubber                    |      4 | {bio}                                               | 
  dazzdb                        |      4 | {bio}                                               | 
@@ -113,9 +114,11 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  librdp-taxonomy-tree-java     |      4 | {bio-dev}                                           | 
  maffilter                     |      4 | {bio}                                               | 
  mauve-aligner                 |      4 | {bio}                                               | 
- mhap                          |      4 | {bio,bio-ngs}                                       | 
+ mhap                          |      4 | {bio-ngs,bio}                                       | 
  microbegps                    |      4 | {bio}                                               | 
  mlv-smile                     |      4 | {cloud,bio}                                         | 
+ mptp                          |      4 | {bio}                                               | 
+ mrs                           |      4 | {bio}                                               | 
  murasaki                      |      4 | {bio}                                               | 
  openslide                     |      4 | {imaging-dev}                                       | 
  orthanc-postgresql            |      4 | {imaging}                                           | 
@@ -126,35 +129,32 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  prime-phylo                   |      4 | {bio,cloud}                                         | 
  proalign                      |      4 | {bio-phylogeny,bio}                                 | 
  probabel                      |      4 | {cloud,bio}                                         | 
- pscan-chip                    |      4 | {bio}                                               | 
  qrisk2                        |      4 | {practice}                                          | 
  quorum                        |      4 | {bio}                                               | 
  rambo-k                       |      4 | {bio}                                               | 
  rdp-classifier                |      4 | {bio}                                               | 
  relion                        |      4 | {bio}                                               | 
- runcircos-gui                 |      4 | {bio}                                               | 
- salmon                        |      4 | {bio,covid-19}                                      | 
+ rtax                          |      4 | {cloud,bio}                                         | 
+ salmon                        |      4 | {covid-19,bio}                                      | 
  scythe                        |      4 | {bio}                                               | 
  segemehl                      |      4 | {bio}                                               | 
  soapsnp                       |      4 | {bio}                                               | 
  surankco                      |      4 | {bio}                                               | 
- tnseq-transit                 |      4 | {bio,covid-19}                                      | 
+ tnseq-transit                 |      4 | {covid-19,bio}                                      | 
  yaha                          |      4 | {bio}                                               | 
- zalign                        |      4 | {cloud,bio}                                         | 
- blasr                         |      3 | {bio-ngs,bio}                                       | 
+ zalign                        |      4 | {bio,cloud}                                         | 
+ blasr                         |      3 | {bio,bio-ngs}                                       | 
  dwgsim                        |      3 | {bio}                                               | 
  elph                          |      3 | {bio}                                               | 
  fastml                        |      3 | {bio}                                               | 
  fsm-lite                      |      3 | {bio}                                               | 
  hinge                         |      3 | {bio}                                               | 
- jmodeltest                    |      3 | {bio-phylogeny,bio}                                 | 
+ jmodeltest                    |      3 | {bio,bio-phylogeny}                                 | 
  lamarc                        |      3 | {bio}                                               | 
  libdivsufsort                 |      3 | {bio-dev}                                           | 
  libpal-java                   |      3 | {bio-dev}                                           | 
  logol                         |      3 | {bio}                                               | 
  metaphlan2                    |      3 | {bio}                                               | 
- mptp                          |      3 | {bio}                                               | 
- mrs                           |      3 | {bio}                                               | 
  nanook                        |      3 | {covid-19,bio}                                      | 
  patman                        |      3 | {bio}                                               | 
  pbdagcon                      |      3 | {bio}                                               | 
@@ -167,9 +167,9 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  rampler                       |      3 | {bio}                                               | 
  repeatmasker-recon            |      3 | {bio}                                               | 
  roguenarok                    |      3 | {bio}                                               | 
- samblaster                    |      3 | {bio,covid-19}                                      | 
+ samblaster                    |      3 | {covid-19,bio}                                      | 
  scrm                          |      3 | {bio}                                               | 
- seqmagick                     |      3 | {bio,covid-19}                                      | 
+ seqmagick                     |      3 | {covid-19,bio}                                      | 
  soapaligner                   |      3 | {bio}                                               | 
  spaced                        |      3 | {bio}                                               | 
  sprai                         |      3 | {bio}                                               | 
@@ -178,9 +178,8 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  tvc                           |      3 | {bio}                                               | 
  velvetoptimiser               |      3 | {bio}                                               | 
  biosig4c++                    |      2 | {imaging-dev,physics}                               | 
- biosig4c++                    |      2 | {physics,imaging-dev}                               | 
  blimps                        |      2 | {bio}                                               | 
- busco                         |      2 | {covid-19,bio}                                      | 
+ busco                         |      2 | {bio,covid-19}                                      | 
  embassy-phylip                |      2 | {bio,cloud}                                         | 
  emboss-explorer               |      2 | {bio}                                               | 
  libsbml                       |      2 | {bio-dev}                                           | 
@@ -200,16 +199,16 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  murasaki                      |      1 | {bio}                                               | 
  ngs-sdk                       |      1 | {bio-dev}                                           | 
  opensurgsim                   |      1 | {imaging-dev}                                       | 
- oscar                         |      1 | {tools,data,practice}                               | 
+ oscar                         |      1 | {data,practice,tools}                               | 
  python-scitrack               |      1 | {covid-19}                                          | 
  relion                        |      1 | {bio}                                               | 
  seqan                         |      1 | {bio-dev}                                           | 
  simpleitk                     |      1 | {imaging-dev}                                       | 
  volpack                       |      1 | {imaging-dev}                                       | 
  wtdbg2                        |      1 | {covid-19}                                          | 
- acedb                         |      0 | {cloud,bio}                                         | 
+ acedb                         |      0 | {bio,cloud}                                         | 
  atropos                       |      0 | {bio}                                               | 
- augur                         |      0 | {bio,covid-19}                                      | 
+ augur                         |      0 | {covid-19,bio}                                      | 
  bambamc                       |      0 | {bio-dev}                                           | 
  bbmap                         |      0 | {covid-19}                                          | 
  biojava4-live                 |      0 | {bio-dev}                                           | 
@@ -217,10 +216,10 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  biosyntax                     |      0 | {bio}                                               | 
  camp                          |      0 | {imaging-dev}                                       | 
  cufflinks                     |      0 | {bio,cloud}                                         | 
- drop-seq                      |      0 | {covid-19,bio}                                      | 
+ drop-seq                      |      0 | {bio,covid-19}                                      | 
  emmax                         |      0 | {bio}                                               | 
  fis-gtm                       |      0 | {his}                                               | 
- htscodecs                     |      0 | {bio-dev,covid-19}                                  | 
+ htscodecs                     |      0 | {covid-19,bio-dev}                                  | 
  ivar                          |      0 | {covid-19}                                          | 
  kma                           |      0 | {bio}                                               | 
  kmerresistance                |      0 | {bio}                                               | 
@@ -239,7 +238,7 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +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 | {covid-19,bio-dev}                                  | 
  libmems                       |      0 | {bio-dev}                                           | 
@@ -255,7 +254,7 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  miaviewit                     |      0 | {imaging-dev}                                       | 
  milib                         |      0 | {bio-dev,covid-19}                                  | 
  mssstest                      |      0 | {tools}                                             | 
- multiqc                       |      0 | {covid-19,bio}                                      | 
+ multiqc                       |      0 | {bio,covid-19}                                      | 
  ncbi-vdb                      |      0 | {bio-dev}                                           | 
  opencfu                       |      0 | {laboratory}                                        | 
  orthanc-imagej                |      0 | {imaging}                                           | 
@@ -265,7 +264,7 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  pilercr                       |      0 | {bio}                                               | 
  python-py2bit                 |      0 | {bio-dev,bio}                                       | 
  q2templates                   |      0 | {bio}                                               | 
- quicktree                     |      0 | {covid-19,bio,bio-phylogeny}                        | 
+ quicktree                     |      0 | {bio,bio-phylogeny,covid-19}                        | 
  relion                        |      0 | {bio-dev}                                           | 
  relion                        |      0 | {bio}                                               | 
  sambamba                      |      0 | {bio}                                               | 
@@ -275,16 +274,16 @@ Last-Update: Mon, 15 Jun 2020 01:42:03 +0000
  skesa                         |      0 | {bio}                                               | 
  skewer                        |      0 | {bio}                                               | 
  smrtanalysis                  |      0 | {bio,covid-19}                                      | 
- spaln                         |      0 | {covid-19,bio}                                      | 
+ spaln                         |      0 | {bio,covid-19}                                      | 
  srf                           |      0 | {bio-dev}                                           | 
- stringtie                     |      0 | {covid-19,bio}                                      | 
- thesias                       |      0 | {covid-19,bio}                                      | 
- tophat-recondition            |      0 | {covid-19,bio}                                      | 
+ stringtie                     |      0 | {bio,covid-19}                                      | 
+ thesias                       |      0 | {bio,covid-19}                                      | 
+ tophat-recondition            |      0 | {bio,covid-19}                                      | 
  varna                         |      0 | {bio}                                               | 
  varscan                       |      0 | {covid-19,bio}                                      | 
  vtk-dicom                     |      0 | {imaging-dev}                                       | 
- bustools                      |     -1 | {bio,covid-19}                                      | 
+ bustools                      |     -1 | {covid-19,bio}                                      | 
  flash                         |     -1 | {covid-19,bio}                                      | 
  pycoqc                        |     -1 | {bio,covid-19}                                      | 
-(313 rows)
+(312 rows)
 


=====================================
outdated_med-packages.txt
=====================================
The diff for this file was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/11e553e560652619a9aaec3db053ab309ebc1bb9

-- 
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