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

Andreas Tille (@tille) gitlab at salsa.debian.org
Fri Jul 23 14:42:27 BST 2021



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


Commits:
9f0aa269 by Andreas Tille at 2021-07-23T13:42:22+00:00
automatic update

- - - - -


2 changed files:

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


Changes:

=====================================
debian-med-tests.txt
=====================================
@@ -1,158 +1,146 @@
-Last-Update: Fri, 23 Jul 2021 01:42:04 +0000
+Last-Update: Fri, 23 Jul 2021 13:42:03 +0000
 
  Source                        | Vote   |     Tasks                                           |                                 Tags                                 
 -------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
- dcmtk                         |    166 | {covid-19,imaging}                                  | 
+ dcmtk                         |    170 | {covid-19,imaging}                                  | 
  orthanc                       |     93 | {imaging,covid-19,practice}                         | 
- orthanc-wsi                   |     50 | {imaging,practice,his,covid-19,oncology,laboratory} | 
- gdcm                          |     34 | {imaging-dev}                                       | 
- dicomscope                    |     31 | {imaging}                                           | 
- amide                         |     28 | {imaging}                                           | 
+ orthanc-wsi                   |     52 | {imaging,practice,his,covid-19,oncology,laboratory} | 
+ dicomscope                    |     32 | {imaging}                                           | 
+ gdcm                          |     30 | {imaging-dev}                                       | 
+ amide                         |     29 | {imaging}                                           | 
  dicom3tools                   |     26 | {imaging}                                           | 
- htsjdk                        |     25 | {bio-dev}                                           | 
- gdcm                          |     22 | {covid-19,imaging}                                  | 
- dcm2niix                      |     21 | {imaging}                                           | 
- odin                          |     19 | {imaging-dev,imaging}                               | 
- orthanc-webviewer             |     13 | {imaging}                                           | 
+ gdcm                          |     25 | {covid-19,imaging}                                  | 
+ htsjdk                        |     24 | {bio-dev}                                           | 
+ dcm2niix                      |     23 | {imaging}                                           | 
+ odin                          |     18 | {imaging-dev,imaging}                               | 
+ orthanc-webviewer             |     15 | {imaging}                                           | 
+ gnumed-server                 |     13 | {covid-19,practice}                                 | 
+ minc-tools                    |     13 | {imaging}                                           | 
+ pixelmed                      |     13 | {imaging}                                           | 
  gdcm                          |     12 | {imaging-dev}                                       | 
- gnumed-server                 |     12 | {covid-19,practice}                                 | 
- minc-tools                    |     12 | {imaging}                                           | 
- pixelmed                      |     12 | {imaging}                                           | 
  insighttoolkit4               |     11 | {imaging-dev}                                       | 
+ invesalius                    |     11 | {imaging}                                           | 
  ngs-sdk                       |     11 | {bio-dev}                                           | 
  dicomnifti                    |     10 | {imaging}                                           | 
- invesalius                    |     10 | {imaging}                                           | 
  nifticlib                     |     10 | {imaging}                                           | 
- adun.app                      |      8 | {bio}                                               | 
- libminc                       |      8 | {imaging-dev}                                       | 
  openslide                     |      8 | {imaging}                                           | 
  plastimatch                   |      8 | {imaging}                                           | 
- ngs-sdk                       |      7 | {bio-dev}                                           | 
- nifticlib                     |      7 | {imaging-dev}                                       | 
- dicompyler                    |      6 | {oncology}                                          | 
+ adun.app                      |      7 | {bio}                                               | 
+ libminc                       |      7 | {imaging-dev}                                       | 
+ mia                           |      7 | {imaging}                                           | 
+ nifti2dicom                   |      7 | {imaging}                                           | 
+ king                          |      6 | {imaging,typesetting}                               | 
  libdivsufsort                 |      6 | {bio-dev}                                           | 
- librg-utils-perl              |      6 | {bio}                                               | 
- mia                           |      6 | {imaging}                                           | 
- nifti2dicom                   |      6 | {imaging}                                           | 
+ ngs-sdk                       |      6 | {bio-dev}                                           | 
+ nifticlib                     |      6 | {imaging-dev}                                       | 
+ orthanc-dicomweb              |      6 | {covid-19,imaging}                                  | 
+ orthanc-postgresql            |      6 | {imaging}                                           | 
  oscar                         |      6 | {tools,data,practice}                               | 
- ea-utils                      |      5 | {bio}                                               | 
- jebl2                         |      5 | {bio-dev}                                           | 
- king                          |      5 | {imaging,typesetting}                               | 
- openslide                     |      5 | {imaging-dev}                                       | 
- orthanc-postgresql            |      5 | {imaging}                                           | 
+ dicompyler                    |      5 | {oncology}                                          | 
+ librg-utils-perl              |      5 | {bio}                                               | 
+ nifti2dicom                   |      5 | {imaging}                                           | 
+ salmid                        |      5 | {bio}                                               | 
  bart-view                     |      4 | {imaging}                                           | 
- biojava-live                  |      4 | {bio-dev}                                           | 
- blasr                         |      4 | {bio,bio-ngs}                                       | 
- melting                       |      4 | {cloud,bio}                                         | 
- nifti2dicom                   |      4 | {imaging}                                           | 
- orthanc-dicomweb              |      4 | {covid-19,imaging}                                  | 
- salmid                        |      4 | {bio}                                               | 
+ ea-utils                      |      4 | {bio}                                               | 
+ jebl2                         |      4 | {bio-dev}                                           | 
+ ngs-sdk                       |      4 | {bio-dev}                                           | 
+ openslide                     |      4 | {imaging-dev}                                       | 
+ orthanc-mysql                 |      4 | {imaging}                                           | 
  sight                         |      4 | {imaging}                                           | 
- beast-mcmc                    |      3 | {bio-phylogeny,bio}                                 | 
+ biojava-live                  |      3 | {bio-dev}                                           | 
+ blasr                         |      3 | {bio,bio-ngs}                                       | 
  busco                         |      3 | {bio,covid-19}                                      | 
- embassy-domainatrix           |      3 | {cloud,bio}                                         | 
- embassy-domalign              |      3 | {cloud,bio}                                         | 
- embassy-domsearch             |      3 | {bio,cloud}                                         | 
- lagan                         |      3 | {bio}                                               | 
  libsbml                       |      3 | {bio-dev}                                           | 
- ngs-sdk                       |      3 | {bio-dev}                                           | 
- obitools                      |      3 | {bio}                                               | 
- orthanc-mysql                 |      3 | {imaging}                                           | 
- pbdagcon                      |      3 | {bio}                                               | 
- phyutility                    |      3 | {bio,cloud}                                         | 
- piler                         |      3 | {bio}                                               | 
+ melting                       |      3 | {cloud,bio}                                         | 
  pymia                         |      3 | {imaging-dev}                                       | 
  salmon                        |      3 | {bio,covid-19}                                      | 
- tracetuner                    |      3 | {bio}                                               | 
+ stacks                        |      3 | {bio}                                               | 
  treeview                      |      3 | {bio-phylogeny,bio}                                 | 
- anfo                          |      2 | {bio,cloud}                                         | 
- biomaj3-cli                   |      2 | {cloud}                                             | 
- bitseq                        |      2 | {bio}                                               | 
+ beast-mcmc                    |      2 | {bio-phylogeny,bio}                                 | 
  blimps                        |      2 | {bio}                                               | 
- brig                          |      2 | {bio}                                               | 
- canu                          |      2 | {bio}                                               | 
- ecopcr                        |      2 | {bio}                                               | 
  elastix                       |      2 | {imaging}                                           | 
+ embassy-domainatrix           |      2 | {cloud,bio}                                         | 
+ embassy-domalign              |      2 | {cloud,bio}                                         | 
+ embassy-domsearch             |      2 | {bio,cloud}                                         | 
  emboss-explorer               |      2 | {bio}                                               | 
- fsm-lite                      |      2 | {bio}                                               | 
- gatb-core                     |      2 | {bio}                                               | 
  getdata                       |      2 | {bio}                                               | 
- ipig                          |      2 | {bio}                                               | 
- jellyfish1                    |      2 | {bio}                                               | 
- jmodeltest                    |      2 | {bio-phylogeny,bio}                                 | 
- libncl                        |      2 | {bio}                                               | 
- libpal-java                   |      2 | {bio-dev}                                           | 
- librdp-taxonomy-tree-java     |      2 | {bio-dev}                                           | 
- mauve-aligner                 |      2 | {bio}                                               | 
- metaphlan2                    |      2 | {bio}                                               | 
- mhap                          |      2 | {bio,bio-ngs}                                       | 
- nipype                        |      2 | {imaging-dev,imaging}                               | 
+ lagan                         |      2 | {bio}                                               | 
+ obitools                      |      2 | {bio}                                               | 
  orthanc-gdcm                  |      2 | {imaging}                                           | 
  papyrus                       |      2 | {imaging-dev}                                       | 
- perm                          |      2 | {cloud,bio}                                         | 
- prime-phylo                   |      2 | {cloud,bio}                                         | 
- rdp-classifier                |      2 | {bio}                                               | 
- rtax                          |      2 | {cloud,bio}                                         | 
- runcircos-gui                 |      2 | {bio}                                               | 
- saint                         |      2 | {bio}                                               | 
- sga                           |      2 | {bio}                                               | 
+ pbdagcon                      |      2 | {bio}                                               | 
+ phyutility                    |      2 | {bio,cloud}                                         | 
+ piler                         |      2 | {bio}                                               | 
  sift                          |      2 | {bio}                                               | 
- sprai                         |      2 | {bio}                                               | 
- stacks                        |      2 | {bio}                                               | 
  staden                        |      2 | {bio}                                               | 
- zalign                        |      2 | {cloud,bio}                                         | 
- arden                         |      1 | {cloud,bio}                                         | 
- assemblytics                  |      1 | {bio}                                               | 
- bio-tradis                    |      1 | {bio-dev,bio}                                       | 
+ tracetuner                    |      2 | {bio}                                               | 
+ anfo                          |      1 | {bio,cloud}                                         | 
+ biomaj3-cli                   |      1 | {cloud}                                             | 
+ bitseq                        |      1 | {bio}                                               | 
+ brig                          |      1 | {bio}                                               | 
+ canu                          |      1 | {bio}                                               | 
  cat-bat                       |      1 | {bio,covid-19}                                      | 
- clonalframeml                 |      1 | {covid-19,bio}                                      | 
- clonalorigin                  |      1 | {bio}                                               | 
  cufflinks                     |      1 | {cloud,bio}                                         | 
- delly                         |      1 | {bio,covid-19}                                      | 
- estscan                       |      1 | {bio}                                               | 
- fastml                        |      1 | {bio}                                               | 
- ghmm                          |      1 | {bio}                                               | 
+ ecopcr                        |      1 | {bio}                                               | 
+ fsm-lite                      |      1 | {bio}                                               | 
+ gatb-core                     |      1 | {bio}                                               | 
  gifticlib                     |      1 | {imaging-dev}                                       | 
- hinge                         |      1 | {bio}                                               | 
+ ipig                          |      1 | {bio}                                               | 
+ jellyfish1                    |      1 | {bio}                                               | 
+ jmodeltest                    |      1 | {bio-phylogeny,bio}                                 | 
  libmuscle                     |      1 | {bio-dev}                                           | 
+ libncl                        |      1 | {bio}                                               | 
+ libpal-java                   |      1 | {bio-dev}                                           | 
+ librdp-taxonomy-tree-java     |      1 | {bio-dev}                                           | 
  libvistaio                    |      1 | {imaging-dev}                                       | 
- logol                         |      1 | {bio}                                               | 
+ mauve-aligner                 |      1 | {bio}                                               | 
+ metaphlan2                    |      1 | {bio}                                               | 
+ mhap                          |      1 | {bio,bio-ngs}                                       | 
  microbegps                    |      1 | {bio}                                               | 
+ nipype                        |      1 | {imaging-dev,imaging}                               | 
  orthanc-python                |      1 | {covid-19}                                          | 
  paraclu                       |      1 | {cloud,bio}                                         | 
- phast                         |      1 | {bio}                                               | 
+ perm                          |      1 | {cloud,bio}                                         | 
+ prime-phylo                   |      1 | {cloud,bio}                                         | 
  proalign                      |      1 | {bio,bio-phylogeny}                                 | 
- pscan-chip                    |      1 | {bio}                                               | 
- qcumber                       |      1 | {bio}                                               | 
- quorum                        |      1 | {bio}                                               | 
- rdp-alignment                 |      1 | {bio}                                               | 
+ rdp-classifier                |      1 | {bio}                                               | 
+ rtax                          |      1 | {cloud,bio}                                         | 
+ runcircos-gui                 |      1 | {bio}                                               | 
+ saint                         |      1 | {bio}                                               | 
  samblaster                    |      1 | {covid-19,bio}                                      | 
  samtools-legacy               |      1 | {bio-dev}                                           | 
+ sga                           |      1 | {bio}                                               | 
  sibsim4                       |      1 | {cloud,bio}                                         | 
- soapaligner                   |      1 | {bio}                                               | 
- soapsnp                       |      1 | {bio}                                               | 
  spaced                        |      1 | {bio}                                               | 
+ sprai                         |      1 | {bio}                                               | 
  spread-phy                    |      1 | {bio,bio-phylogeny}                                 | 
- suitename                     |      1 | {bio}                                               | 
- surankco                      |      1 | {bio}                                               | 
- tvc                           |      1 | {bio}                                               | 
- yaha                          |      1 | {bio}                                               | 
+ zalign                        |      1 | {cloud,bio}                                         | 
  acedb                         |      0 | {bio,cloud}                                         | 
+ arden                         |      0 | {cloud,bio}                                         | 
+ assemblytics                  |      0 | {bio}                                               | 
  atropos                       |      0 | {bio}                                               | 
  bambamc                       |      0 | {bio-dev}                                           | 
  bamkit                        |      0 | {bio,covid-19}                                      | 
  bbmap                         |      0 | {bio,covid-19}                                      | 
  biojava4-live                 |      0 | {bio-dev}                                           | 
  biosyntax                     |      0 | {bio}                                               | 
+ bio-tradis                    |      0 | {bio-dev,bio}                                       | 
  bmtk                          |      0 | {psychology}                                        | 
  bustools                      |      0 | {bio,covid-19}                                      | 
  camp                          |      0 | {imaging-dev}                                       | 
+ clonalframeml                 |      0 | {covid-19,bio}                                      | 
+ clonalorigin                  |      0 | {bio}                                               | 
  ctn                           |      0 | {imaging-dev}                                       | 
+ delly                         |      0 | {bio,covid-19}                                      | 
  dextractor                    |      0 | {bio,covid-19}                                      | 
  eegdev                        |      0 | {imaging-dev}                                       | 
  emmax                         |      0 | {bio}                                               | 
+ estscan                       |      0 | {bio}                                               | 
+ fastml                        |      0 | {bio}                                               | 
  fis-gtm                       |      0 | {his}                                               | 
  gatb-core                     |      0 | {bio-dev}                                           | 
+ ghmm                          |      0 | {bio}                                               | 
+ hinge                         |      0 | {bio}                                               | 
  htscodecs                     |      0 | {covid-19,bio-dev}                                  | 
  intake                        |      0 | {bio-dev,bio}                                       | 
  kmerresistance                |      0 | {bio}                                               | 
@@ -185,6 +173,7 @@ Last-Update: Fri, 23 Jul 2021 01:42:04 +0000
  libseqlib                     |      0 | {bio-dev}                                           | 
  libstatgen                    |      0 | {bio-dev}                                           | 
  libxdf                        |      0 | {imaging-dev}                                       | 
+ logol                         |      0 | {bio}                                               | 
  metastudent-data              |      0 | {bio}                                               | 
  metastudent-data-2            |      0 | {bio}                                               | 
  mia                           |      0 | {imaging-dev}                                       | 
@@ -199,6 +188,7 @@ Last-Update: Fri, 23 Jul 2021 01:42:04 +0000
  parallel-fastq-dump           |      0 | {covid-19}                                          | 
  pbcopper                      |      0 | {bio-dev}                                           | 
  pbseqlib                      |      0 | {bio-dev}                                           | 
+ phast                         |      0 | {bio}                                               | 
  pigx-rnaseq                   |      0 | {covid-19,bio}                                      | 
  pilercr                       |      0 | {bio}                                               | 
  pique                         |      0 | {bio}                                               | 
@@ -206,11 +196,15 @@ Last-Update: Fri, 23 Jul 2021 01:42:04 +0000
  plasmidid                     |      0 | {covid-19,bio}                                      | 
  plasmidseeker                 |      0 | {bio}                                               | 
  pplacer                       |      0 | {bio-phylogeny,covid-19,bio}                        | 
+ pscan-chip                    |      0 | {bio}                                               | 
  python-bcbio-gff              |      0 | {bio-dev}                                           | 
  python-seqcluster             |      0 | {bio-dev,covid-19}                                  | 
  python-wdlparse               |      0 | {bio-dev}                                           | 
  q2-sample-classifier          |      0 | {bio-dev,bio}                                       | 
+ qcumber                       |      0 | {bio}                                               | 
+ quorum                        |      0 | {bio}                                               | 
  rambo-k                       |      0 | {bio}                                               | 
+ rdp-alignment                 |      0 | {bio}                                               | 
  resfinder-db                  |      0 | {bio}                                               | 
  sambamba                      |      0 | {bio}                                               | 
  sbmltoolbox                   |      0 | {bio-dev}                                           | 
@@ -223,16 +217,22 @@ Last-Update: Fri, 23 Jul 2021 01:42:04 +0000
  skesa                         |      0 | {bio}                                               | 
  skewer                        |      0 | {bio}                                               | 
  smrtanalysis                  |      0 | {bio,covid-19}                                      | 
+ soapaligner                   |      0 | {bio}                                               | 
+ soapsnp                       |      0 | {bio}                                               | 
  spaln                         |      0 | {covid-19,bio}                                      | 
  srf                           |      0 | {bio-dev}                                           | 
+ suitename                     |      0 | {bio}                                               | 
+ surankco                      |      0 | {bio}                                               | 
  svim                          |      0 | {bio}                                               | 
  thesias                       |      0 | {bio,covid-19}                                      | 
  tophat-recondition            |      0 | {bio,covid-19}                                      | 
  trace2dbest                   |      0 | {bio}                                               | 
+ tvc                           |      0 | {bio}                                               | 
  varna                         |      0 | {bio}                                               | 
  varscan                       |      0 | {covid-19,bio}                                      | 
  vienna-rna                    |      0 | {covid-19,bio}                                      | 
  xdffileio                     |      0 | {imaging-dev}                                       | 
+ yaha                          |      0 | {bio}                                               | 
  yanagiba                      |      0 | {bio,covid-19}                                      | 
  mssstest                      |     -1 | {tools}                                             | 
  python-seqcluster             |     -1 | {bio}                                               | 


=====================================
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/9f0aa269dfe04c249e44a5b5c20088ef8f640731

-- 
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/9f0aa269dfe04c249e44a5b5c20088ef8f640731
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