[Blends-commit] [Git][blends-team/med][master] Update python- to python3, some more recent packages

2019-08-22 Thread Steffen Möller 


Steffen Möller pushed to branch master at Debian Blends Team / med


Commits:
c85afb9d by Steffen Möller at 2019-08-22T12:55:26Z
Update python- to python3, some more recent packages

Some maybe better show up only on bio-dev
- - - - -


1 changed file:

- tasks/bio


Changes:

=
tasks/bio
=
@@ -50,7 +50,7 @@ Recommends: boxshade, fastx-toolkit, gff2aplot, muscle, 
sim4, sibsim4, tabix
 
 Suggest: tophat-recondition
 
-Recommends: maqview
+Recommends: maqview
 
 Recommends: blasr
 
@@ -258,8 +258,6 @@ Recommends: acedb-other
 
 Recommends: blixem, dotter, belvu
 
-Recommends: python-cogent
-
 Recommends: paml
 
 Recommends: velvetoptimiser
@@ -916,25 +914,33 @@ Recommends: psipred
 
 Recommends: pssh2
 
-Recommends: python3-pybel
+Suggests: python3-alignlib
+
+Recommends: python3-cogent
 
 Recommends: pycorrfit
 
 Recommends: pyscanfcs
 
-Recommends: python3-deeptools
+Recommends: python3-deeptools, python3-deeptoolsintervals
 
 Recommends: python3-geneimpacts
 
 Recommends: python3-gffutils
 
+Suggests: python3-loompy
+
+Recommends: python3-pybel
+
+Suggests: python3-py2bit
+
 Recommends: python3-pybedtools
 
 Recommends: python3-sqt
 
-Recommends: python-reaper
+Recommends: python3-reaper
 
-Recommends: python-treetime
+Recommends: python3-treetime
 
 Recommends: qcumber
 
@@ -1243,9 +1249,9 @@ Recommends: r-cran-tcr, r-cran-tigger, r-cran-alakazam, 
r-cran-shazam, igor, r-c
 
 Recommends: ncbi-igblast
 
-Suggests: python-pyflow
+Suggests: python3-pyflow
 
-Recommends: pigx-rnaseq
+Recommends: pigx-rnaseq, pigx-scrnaseq
 
 X-Mark: The information below needs to be checked whether it can be obtained 
from Vcs or needs to stay here
 
@@ -2598,7 +2604,7 @@ Pkg-Description: annotate genetic variants detected from 
diverse genomes
  "variants reduction" procedure, making it practical to handle hundreds
  of human genomes in a day.
 
-Recommends: python-orange
+Recommends: python3-orange
 License: GPLv3
 Homepage: http://orange.biolab.si/
 Pkg-URL: http://orange.biolab.si/debian/



View it on GitLab: 
https://salsa.debian.org/blends-team/med/commit/c85afb9d56a3ff1de5d54ac94c75f45ebdcb507d

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[Blends-commit] [Git][blends-team/med][master] Added a couple of recent R packages

2019-08-22 Thread Steffen Möller 


Steffen Möller pushed to branch master at Debian Blends Team / med


Commits:
dd57d389 by Steffen Möller at 2019-08-22T12:47:38Z
Added a couple of recent R packages
- - - - -


1 changed file:

- tasks/bio


Changes:

=
tasks/bio
=
@@ -300,10 +300,6 @@ Recommends: cd-hit
 
 Recommends: cufflinks
 
-Recommends: r-bioc-cummerbund
-
-Suggests: r-bioc-tximport
-
 Recommends: eigensoft
 
 Recommends: grinder
@@ -960,13 +956,11 @@ Recommends: r-bioc-rtracklayer, r-bioc-gviz, 
r-bioc-biostrings, r-bioc-annotate,
 
 Recommends: r-bioc-deseq2, r-bioc-dnacopy, r-bioc-geneplotter
 
-Suggests: r-cran-corrplot
-
-Recommends: r-bioc-impute
+Recommends: r-bioc-cummerbund
 
-Recommends: r-bioc-mergeomics
+Suggests: r-bioc-tximport
 
-Recommends: r-bioc-metagenomeseq, r-bioc-phyloseq
+Suggests: r-cran-corrplot
 
 Recommends: r-bioc-ebseq
 
@@ -974,6 +968,16 @@ Suggests: r-cran-forecast
 
 Suggests: r-cran-gprofiler
 
+Suggests: r-cran-fitdistrplus
+
+Recommends: r-cran-tsne
+
+Recommends: r-bioc-impute
+
+Recommends: r-bioc-mergeomics
+
+Recommends: r-bioc-metagenomeseq, r-bioc-phyloseq
+
 Recommends: r-bioc-limma
 
 Recommends: r-bioc-bitseq, r-bioc-pcamethods, r-cran-samr
@@ -1008,7 +1012,9 @@ Recommends: r-cran-pscbs
 
 Suggests: r-cran-boolnet
 
-Recommends: r-cran-seurat, r-cran-sctransform
+Suggests: r-cran-sctransform
+
+Recommends: r-cran-seurat
 
 Recommends: r-cran-seqinr
 



View it on GitLab: 
https://salsa.debian.org/blends-team/med/commit/dd57d389b52bc7e4d62e935bc11721aa8bb3903a

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https://salsa.debian.org/blends-team/med/commit/dd57d389b52bc7e4d62e935bc11721aa8bb3903a
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