[Blends-commit] [Git][blends-team/med][master] Add non-categorised new packages

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Blends Team / med


Commits:
80b5cf7d by Andreas Tille at 2020-12-05T22:55:59+01:00
Add non-categorised new packages

- - - - -


7 changed files:

- tasks/bio
- tasks/bio-dev
- tasks/cloud
- tasks/covid-19
- tasks/imaging
- tasks/oncology
- tasks/psychology


Changes:

=====================================
tasks/bio
=====================================
@@ -35,7 +35,7 @@ Why:         Phylogenetic analysis (Non-free, thus only suggested).
 X-Comment: treetool is removed from Debian because it is not maintained upstream since
  1995 and cause the Xserver to freeze under Squeeze
 
-Recommends:     fastlink, loki, plink, plink1.9, r-cran-qtl, r-cran-genabel, gemma, bolt-lmm
+Recommends:     fastlink, loki, plink, plink1.9, plink2, r-cran-qtl, r-cran-genabel, gemma, bolt-lmm
 Why:         Genetics
 
 X-Begin-Category: Sequence alignments and related programs.
@@ -1004,6 +1004,8 @@ Recommends: phipack
 
 Recommends: phybin
 
+Recommends: phylonium
+
 Recommends: phylophlan
 Remark: usearch can not be replaced since vsearch does not work with proteins
  See https://lists.debian.org/debian-med/2016/05/msg00091.html
@@ -1027,6 +1029,8 @@ Recommends: pilercr
 
 Recommends: pilon
 
+Recommends: pinfish
+
 Recommends: pipasic, inspect, tide
 
 Recommends: pique
@@ -1315,7 +1319,7 @@ Recommends: readucks
 
 Recommends: recan
 
-Recommends: relion-bin+gui | relion-bin+mpi+gui, relion-bin | relion-bin+mpi
+Recommends: relion, relion-gui, relion-cuda, relion-gui-cuda
 
 Recommends: rdp-alignment, rdp-readseq, rdp-classifier
 
@@ -1327,6 +1331,8 @@ Recommends: repeatmasker
 
 Recommends: resfinder
 
+Suggests: resfinder-db
+
 Recommends: roadtrips
 
 Recommends: roary
@@ -1343,6 +1349,8 @@ Recommends: sambamba
 
 Recommends: samblaster
 
+Recommends: salmid
+
 Recommends: salmon
 
 Recommends: samclip
@@ -1392,12 +1400,16 @@ Suggests: seqcluster
 
 Recommends: sga
 
+Recommends: shasta
+
 Recommends: shovill
 
 Recommends: signalalign
 
 Recommends: sibelia
 
+Recommends: simka, simkamin
+
 Recommends: sina
 
 Recommends: sistr
@@ -1473,6 +1485,8 @@ Recommends: sumtrees
 
 Recommends: surankco
 
+Recommends: survivor
+
 Recommends: svim
 
 Recommends: swarm


=====================================
tasks/bio-dev
=====================================
@@ -77,6 +77,8 @@ Recommends: libace-perl
 
 Recommends: libbiococoa-dev
 
+Recommends: libcifpp-dev
+
 Recommends: libstaden-read-dev
 
 Recommends: libsrf-dev
@@ -392,7 +394,7 @@ Recommends: librelion-dev
 
 Recommends: libdivsufsort-dev
 
-Suggests: nim-kexpr, nim-lapper
+Recommends: nim-hts-dev, nim-kexpr-dev, nim-lapper-dev
 
 Recommends: bioclipse
 Homepage: http://www.bioclipse.net/
@@ -423,6 +425,10 @@ Recommends: python3-pbcore
 
 Recommends: python3-cobra
 
+Recommends: python3-pybigwig
+
+Recommends: python3-bcbio-gff
+
 Recommends: libtabixpp-dev
 
 Suggests: python3-networkx
@@ -447,6 +453,8 @@ Recommends: python3-pyvcf
 
 Recommends: python3-pyfaidx
 
+Recommends: python3-shasta
+
 Recommends: python3-sqt
 
 Recommends: python3-kineticstools
@@ -620,3 +628,5 @@ Recommends:  python3-nanoget
 Recommends: libopenmm-dev, libmmblib-dev
 
 Suggests: libconcurrentqueue-dev, libdynamic-dev, libatomicqueue-dev, libargs-dev
+
+Suggests: libsuma-dev


=====================================
tasks/cloud
=====================================
@@ -12,7 +12,7 @@ X-End-Category: Phylogenetic analysis
 
 X-Begin-Category: Genetics and genomics
 Recommends: alien-hunter, bagpipe, fastlink, loki, gasic, genometools, plink,
-            probabel, r-cran-qtl, r-other-mott-happy.hbrem
+            plink1.9, plink2, probabel, r-cran-qtl, r-other-mott-happy.hbrem
 X-End-Category: Genetics
 
 X-Begin-Category: Sequence alignments and related programs.


=====================================
tasks/covid-19
=====================================
@@ -265,6 +265,8 @@ Recommends: python3-pauvre
 
 Recommends: picopore
 
+Recommends: pinfish
+
 Recommends: pomoxis
 
 Recommends: poretools
@@ -472,7 +474,7 @@ Recommends: orthanc-dicomweb
 
 Recommends: paleomix
 
-Recommends: plink1.9
+Recommends: plink1.9, plink2
 
 Recommends: plip
 


=====================================
tasks/imaging
=====================================
@@ -37,6 +37,8 @@ Comment: removed from Debian and only available in Wheezy or snapshot.debian.org
 
 Recommends: gwyddion
 
+Recommends: nifti2dicom, qnifti2dicom
+
 Recommends: sofa-apps
 
 Recommends: python3-mvpa2
@@ -97,7 +99,7 @@ Recommends: crea
 
 Recommends: orthanc
 
-Suggests: orthanc-webviewer, orthanc-dicomweb, orthanc-imagej, orthanc-postgresql, orthanc-mysql
+Suggests: orthanc-webviewer, orthanc-dicomweb, orthanc-imagej, orthanc-postgresql, orthanc-mysql, orthanc-gdcm
 
 Recommends: teem-apps
 


=====================================
tasks/oncology
=====================================
@@ -27,4 +27,6 @@ Pkg-Description: tools for radiotherapy treatment planning
 
 Recommends: dicompyler
 
+Suggests: python3-dicompylercore
+
 Recommends: simrisc


=====================================
tasks/psychology
=====================================
@@ -23,8 +23,7 @@ Remark: r-cran-psy is orphaned upstream.
 
 Recommends: psychopy
 
-Suggests: python3-bmtk
-
+Suggests: python3-bmtk, python3-bids-validator
 
 Recommends: r-cran-psych
 



View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/80b5cf7d788b96a7fae127bdd78396d90d38c226

-- 
View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/80b5cf7d788b96a7fae127bdd78396d90d38c226
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/blends-commit/attachments/20201205/91b4e00e/attachment-0001.html>