[Blends-commit] [Git][blends-team/med][master] Update bio - recommends->suggests and added ref to Rsubread (BioConductor)

Thu Jun 11 13:16:53 BST 2020


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


Commits:
6f89da84 by Steffen Möller at 2020-06-11T12:16:49+00:00
Update bio - recommends->suggests and added ref to Rsubread (BioConductor)

There are far too many recommended packages for a general "bio" metapackage. This needs to be cleaned up.
- - - - -


1 changed file:

- tasks/bio


Changes:

=====================================
tasks/bio
=====================================
@@ -951,119 +951,123 @@ Recommends: physamp
 
 Suggests: picopore
 
-Recommends: piler
+Suggests: piler
 
-Recommends: pilercr
+Suggests: pilercr
 
-Recommends: pilon
+Suggests: pilon
 
-Recommends: pipasic, inspect, tide
+Suggests: pipasic, inspect, tide
 
-Recommends: pirs
+Suggests: pirs
 
-Recommends: placnet
+Suggests: placnet
 
-Recommends: plasmidid
+Suggests: plasmidid
 
-Recommends: plasmidseeker
+Suggests: plasmidseeker
 
-Recommends: plato
+Suggests: plato
 
-Recommends: plip
+Suggests: plip
 
-Recommends: poretools
+Suggests: poretools
 
-Recommends: porechop
+Suggests: porechop
 
-Recommends: pplacer
+Suggests: pplacer
 
-Recommends: prank
+Suggests: prank
 
-Recommends: predictprotein
+Suggests: predictprotein
 
-Recommends: proalign
+Suggests: proalign
 
-Recommends: prodigal
+Suggests: prodigal
 
-Recommends: prokka
+Suggests: prokka
 
-Recommends: proteinortho
+Suggests: proteinortho
 
-Recommends: prottest
+Suggests: prottest
 
-Recommends: psortb
+Suggests: psortb
 
-Recommends: pscan-tfbs, pscan-chip
+Suggests: pscan-tfbs, pscan-chip
 
-Recommends: psipred
+Suggests: psipred
 
-Recommends: pssh2
+Suggests: pssh2
 
-Recommends: pufferfish
+Suggests: pufferfish
 
 Suggests: python3-alignlib
 
-Recommends: python3-cogent
+Suggests: python3-cogent
 
-Recommends: pycorrfit
+Suggests: pycorrfit
 
-Recommends: pyscanfcs
+Suggests: pyscanfcs
 
-Recommends: python3-deeptools, python3-deeptoolsintervals
+Suggests: python3-deeptools, python3-deeptoolsintervals
 
-Recommends: python3-geneimpacts
+Suggests: python3-geneimpacts
 
-Recommends: python3-gffutils
+Suggests: python3-gffutils
 
 Suggests: python3-loompy
 
-Recommends: python3-pybel
+Suggests: python3-pybel
 
 Suggests: python3-py2bit
 
 Recommends: python3-pybedtools
 
-Recommends: python3-sqt
+Suggests: python3-ruffus
 
-Recommends: qtlreaper
+Suggests: python3-sqt
+
+Suggests: qtlreaper
 
 Suggests: python3-tinyalign
 
-Recommends: python3-treetime
+Suggests: python3-treetime
 
-Recommends: purple
+Suggests: purple
 
-Recommends: pycoqc
+Suggests: pycoqc
 
-Recommends: qcat
+Suggests: qcat
 
-Recommends: qcumber
+Suggests: qcumber
 
-Recommends: quicktree
+Suggests: quicktree
 
-Recommends: qtltools
+Suggests: qtltools
 
-Recommends: qualimap
+Suggests: qualimap
 
-Recommends: quast
+Suggests: quast
 
-Recommends: quorum
+Suggests: quorum
 
-Recommends: ragout
+Suggests: ragout
 
-Recommends: rambo-k
+Suggests: rambo-k
 
-Recommends: rapmap
+Suggests: rapmap
 
 Suggests: r-bioc-ctc
 
-Recommends: r-bioc-cummerbund
+Suggests: r-bioc-cummerbund
+
+Suggests: r-bioc-rtracklayer, r-bioc-gviz, r-bioc-biostrings, r-bioc-annotate, r-bioc-genefilter
 
-Recommends: r-bioc-rtracklayer, r-bioc-gviz, r-bioc-biostrings, r-bioc-annotate, r-bioc-genefilter
+Recommends: r-bioc-deseq2
 
-Recommends: r-bioc-deseq2, r-bioc-dnacopy, r-bioc-geneplotter
+Suggests: r-bioc-dnacopy, r-bioc-geneplotter
 
-Recommends: r-bioc-geoquery
+Suggests: r-bioc-geoquery
 
 Suggests: r-bioc-tximport
 
@@ -1075,7 +1079,7 @@ Suggests: r-cran-corrplot
 
 Suggests: r-cran-dynamictreecut
 
-Recommends: r-bioc-ebseq
+Suggests: r-bioc-ebseq
 
 Suggests: r-cran-forecast
 
@@ -1083,23 +1087,27 @@ Suggests: r-cran-gprofiler
 
 Suggests: r-cran-fitdistrplus
 
-Recommends: r-bioc-impute
+Suggests: r-bioc-impute
+
+Suggests: r-bioc-mergeomics
+
+Suggests: r-bioc-metagenomeseq, r-bioc-phyloseq
 
-Recommends: r-bioc-mergeomics
+Suggests: r-bioc-mofa
 
-Recommends: r-bioc-metagenomeseq, r-bioc-phyloseq
+Suggests: r-bioc-multiassayexperiment
 
-Recommends: r-bioc-mofa
+Suggests: r-bioc-mutationalpatterns
 
-Recommends: r-bioc-multiassayexperiment
+Suggests: r-bioc-limma
 
-Recommends: r-bioc-mutationalpatterns
+Recomends: r-bioc-edger
 
-Recommends: r-bioc-limma, r-bioc-edger
+Suggests: r-bioc-bitseq, r-bioc-pcamethods, r-cran-samr
 
-Recommends: r-bioc-bitseq, r-bioc-pcamethods, r-cran-samr
+Suggests: r-bioc-htsfilter
 
-Recommends: r-bioc-htsfilter
+Suggests: r-bioc-rsubread
 
 Suggests: r-bioc-annotationhub, r-bioc-aroma.light, r-bioc-ensembldb,
 
@@ -1109,37 +1117,37 @@ Suggests: r-bioc-qusage
 
 Suggests: r-cran-qqman
 
-Recommends: r-cran-rotl
+Suggests: r-cran-rotl
 
 Suggests: r-cran-rentrez
 
-Recommends: r-cran-adegenet, r-cran-adephylo
+Suggests: r-cran-adegenet, r-cran-adephylo
 
-Recommends: r-cran-ape
+Suggests: r-cran-ape
 
 Suggests: r-cran-boolnet
 
-Recommends: r-cran-distory
+Suggests: r-cran-distory
 
-Recommends: r-cran-drinsight
+Suggests: r-cran-drinsight
 
-Recommends: r-cran-kaos
+Suggests: r-cran-kaos
 
 Suggests: r-cran-minerva
 
-Recommends: r-cran-metamix
+Suggests: r-cran-metamix
 
 Suggests: r-cran-optimalcutpoints
 
 Suggests: r-cran-parmigene
 
-Recommends: r-cran-phangorn
+Suggests: r-cran-phangorn
 
 Suggests: r-cran-pheatmap
 
-Recommends: r-cran-phytools
+Suggests: r-cran-phytools
 
-Recommends: r-cran-pscbs
+Suggests: r-cran-pscbs
 
 Suggests: r-cran-rsgcc
 
@@ -1147,31 +1155,31 @@ Suggests: r-bioc-savr
 
 Suggests: r-cran-sctransform
 
-Recommends: r-cran-seurat
+Suggests: r-cran-seurat
 
-Recommends: r-cran-seqinr
+Suggests: r-cran-seqinr
 
-Recommends: r-cran-spp
+Suggests: r-cran-spp
 
-Recommends: r-bioc-tfbstools, r-bioc-cner
+Suggests: r-bioc-tfbstools, r-bioc-cner
 
-Recommends: r-cran-treescape
+Suggests: r-cran-treescape
 
-Recommends: r-cran-tsne
+Suggests: r-cran-tsne
 
 Suggests: r-bioc-tximport
 
-Recommends: r-cran-vegan
+Suggests: r-cran-vegan
 
-Recommends: r-cran-webgestaltr
+Suggests: r-cran-webgestaltr
 
-Recommends: r-other-apmswapp
+Suggests: r-other-apmswapp
 
-Recommends: r-other-hms-dbmi-spp
+Suggests: r-other-hms-dbmi-spp
 
 Recommends: r-cran-wgcna
 
-Recommends: r-other-ascat
+Suggests: r-other-ascat
 
 Recommends: recan
 
@@ -1209,26 +1217,26 @@ Recommends: sap
 Remark: Precondition for T-Coffee
  see http://wiki.debian.org/DebianMed/TCoffee
 
-Recommends: scrm
+Suggests: scrm
 
-Recommends: seer
+Suggests: seer
 
-Recommends: segemehl
+Suggests: segemehl
 
-Recommends: sepp
+Suggests: sepp
 
 Recommends: seq-seq-pan
 Remark: Needs blat which is not re-distributable
 
-Recommends: seqmagick
+Suggests: seqmagick
 
-Recommends: seqprep
+Suggests: seqprep
 
-Recommends: seqsero
+Suggests: seqsero
 
-Recommends: seqtk
+Suggests: seqtk
 
-Recommends: sequenceconverter.app
+Suggests: sequenceconverter.app
 Remark: Formerly part of Debian as biococoa.app but removed
  The package was part of Debian under the name biococoa.app which is confusing
  because biococoa is actually a library for working with sequences under GNUstep.
@@ -1240,13 +1248,13 @@ Remark: Formerly part of Debian as biococoa.app but removed
  newer versions are needed to work under Linux try to convince upstream to
  support GNUstep.
 
-Recommends: seqwish
+Suggests: seqwish
 
-Recommends: sga
+Suggets: sga
 
-Recommends: sibelia
+Suggests: sibelia
 
-Recommends: sina
+Suggests: sina
 
 Recommends: sistr
 



View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/6f89da845718a91efc641291f65d0c3480750b07

-- 
View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/6f89da845718a91efc641291f65d0c3480750b07
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/20200611/e63a97a5/attachment-0001.html>
