[Blends-commit] [Git][blends-team/med][master] Revert "Update bio - recommends->suggests and added ref to Rsubread...

[Andreas Tille]

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


Commits:
b53ad025 by Andreas Tille at 2020-06-20T16:33:41+02:00
Revert "Update bio - recommends->suggests and added ref to Rsubread (BioConductor)" - the attempt should be finalised in branch demote-recommends first

This reverts commit 6f89da845718a91efc641291f65d0c3480750b07.

- - - - -


1 changed file:

- tasks/bio


Changes:

=====================================
tasks/bio
=====================================
@@ -397,7 +397,7 @@ Recommends: scythe
 
 Recommends: sickle
 
-Suggests: skewer
+Recommends: skewer
 
 Recommends: kmc
 
@@ -639,7 +639,7 @@ Recommends: fastqc
 
 Recommends: fastqtl
 
-Suggests: flappie
+Recommends: flappie
 
 Recommends: flash
 
@@ -697,7 +697,7 @@ Recommends: grabix
 
 Recommends: graphlan
 
-Suggests: graphmap2
+Recommends: graphmap2
 
 Recommends: gwama
 
@@ -860,13 +860,13 @@ Recommends: nanook
 
 Recommends: nanopolish
 
-Suggests: nanolyse
+Recommends: nanolyse
 
 Recommends: nanofilt
 
-Suggests: nanoplot
+Recommends: nanoplot
 
-Suggests: nanosv
+Recommends: nanosv
 
 Recommends: ncbi-acc-download
 
@@ -961,75 +961,75 @@ Recommends: phyx
 
 Recommends: physamp
 
-Suggests: picopore
+Recommends: picopore
 
-Suggests: piler
+Recommends: piler
 
-Suggests: pilercr
+Recommends: pilercr
 
-Suggests: pilon
+Recommends: pilon
 
-Suggests: pipasic, inspect, tide
+Recommends: pipasic, inspect, tide
 
-Suggests: pirs
+Recommends: pirs
 
-Suggests: placnet
+Recommends: placnet
 
-Suggests: plasmidid
+Recommends: plasmidid
 
-Suggests: plasmidseeker
+Recommends: plasmidseeker
 
-Suggests: plato
+Recommends: plato
 
-Suggests: plip
+Recommends: plip
 
-Suggests: poretools
+Recommends: poretools
 
-Suggests: porechop
+Recommends: porechop
 
-Suggests: pplacer
+Recommends: pplacer
 
-Suggests: prank
+Recommends: prank
 
-Suggests: predictprotein
+Recommends: predictprotein
 
-Suggests: proalign
+Recommends: proalign
 
-Suggests: prodigal
+Recommends: prodigal
 
-Suggests: prokka
+Recommends: prokka
 
-Suggests: proteinortho
+Recommends: proteinortho
 
-Suggests: prottest
+Recommends: prottest
 
-Suggests: psortb
+Recommends: psortb
 
-Suggests: pscan-tfbs, pscan-chip
+Recommends: pscan-tfbs, pscan-chip
 
-Suggests: psipred
+Recommends: psipred
 
-Suggests: pssh2
+Recommends: pssh2
 
-Suggests: pufferfish
+Recommends: pufferfish
 
 Suggests: python3-alignlib
 
-Suggests: python3-cogent
+Recommends: python3-cogent
 
-Suggests: pycorrfit
+Recommends: pycorrfit
 
-Suggests: pyscanfcs
+Recommends: pyscanfcs
 
-Suggests: python3-deeptools, python3-deeptoolsintervals
+Recommends: python3-deeptools, python3-deeptoolsintervals
 
-Suggests: python3-geneimpacts
+Recommends: python3-geneimpacts
 
-Suggests: python3-gffutils
+Recommends: python3-gffutils
 
 Suggests: python3-loompy
 
-Suggests: python3-pybel
+Recommends: python3-pybel
 
 Suggests: python3-pychopper
 
@@ -1037,51 +1037,47 @@ Suggests: python3-py2bit
 
 Recommends: python3-pybedtools
 
-Suggests: python3-ruffus
+Recommends: python3-sqt
 
-Suggests: python3-sqt
-
-Suggests: qtlreaper
+Recommends: qtlreaper
 
 Suggests: python3-tinyalign
 
-Suggests: python3-treetime
+Recommends: python3-treetime
 
-Suggests: purple
+Recommends: purple
 
-Suggests: pycoqc
+Recommends: pycoqc
 
-Suggests: qcat
+Recommends: qcat
 
-Suggests: qcumber
+Recommends: qcumber
 
-Suggests: quicktree
+Recommends: quicktree
 
-Suggests: qtltools
+Recommends: qtltools
 
-Suggests: qualimap
+Recommends: qualimap
 
-Suggests: quast
+Recommends: quast
 
-Suggests: quorum
+Recommends: quorum
 
-Suggests: ragout
+Recommends: ragout
 
-Suggests: rambo-k
+Recommends: rambo-k
 
-Suggests: rapmap
+Recommends: rapmap
 
 Suggests: r-bioc-ctc
 
-Suggests: r-bioc-cummerbund
-
-Suggests: r-bioc-rtracklayer, r-bioc-gviz, r-bioc-biostrings, r-bioc-annotate, r-bioc-genefilter
+Recommends: r-bioc-cummerbund
 
-Recommends: r-bioc-deseq2
+Recommends: r-bioc-rtracklayer, r-bioc-gviz, r-bioc-biostrings, r-bioc-annotate, r-bioc-genefilter
 
-Suggests: r-bioc-dnacopy, r-bioc-geneplotter
+Recommends: r-bioc-deseq2, r-bioc-dnacopy, r-bioc-geneplotter
 
-Suggests: r-bioc-geoquery
+Recommends: r-bioc-geoquery
 
 Suggests: r-bioc-grohmm
 
@@ -1095,7 +1091,7 @@ Suggests: r-cran-corrplot
 
 Suggests: r-cran-dynamictreecut
 
-Suggests: r-bioc-ebseq
+Recommends: r-bioc-ebseq
 
 Suggests: r-cran-forecast
 
@@ -1103,27 +1099,23 @@ Suggests: r-cran-gprofiler
 
 Suggests: r-cran-fitdistrplus
 
-Suggests: r-bioc-impute
-
-Suggests: r-bioc-mergeomics
-
-Suggests: r-bioc-metagenomeseq, r-bioc-phyloseq
+Recommends: r-bioc-impute
 
-Suggests: r-bioc-mofa
+Recommends: r-bioc-mergeomics
 
-Suggests: r-bioc-multiassayexperiment
+Recommends: r-bioc-metagenomeseq, r-bioc-phyloseq
 
-Suggests: r-bioc-mutationalpatterns
+Recommends: r-bioc-mofa
 
-Suggests: r-bioc-limma
+Recommends: r-bioc-multiassayexperiment
 
-Recomends: r-bioc-edger
+Recommends: r-bioc-mutationalpatterns
 
-Suggests: r-bioc-bitseq, r-bioc-pcamethods, r-cran-samr
+Recommends: r-bioc-limma, r-bioc-edger
 
-Suggests: r-bioc-htsfilter
+Recommends: r-bioc-bitseq, r-bioc-pcamethods, r-cran-samr
 
-Suggests: r-bioc-rsubread
+Recommends: r-bioc-htsfilter
 
 Suggests: r-bioc-annotationhub, r-bioc-aroma.light, r-bioc-ensembldb,
 
@@ -1133,37 +1125,37 @@ Suggests: r-bioc-qusage
 
 Suggests: r-cran-qqman
 
-Suggests: r-cran-rotl
+Recommends: r-cran-rotl
 
 Suggests: r-cran-rentrez
 
-Suggests: r-cran-adegenet, r-cran-adephylo
+Recommends: r-cran-adegenet, r-cran-adephylo
 
-Suggests: r-cran-ape
+Recommends: r-cran-ape
 
 Suggests: r-cran-boolnet
 
-Suggests: r-cran-distory
+Recommends: r-cran-distory
 
-Suggests: r-cran-drinsight
+Recommends: r-cran-drinsight
 
-Suggests: r-cran-kaos
+Recommends: r-cran-kaos
 
 Suggests: r-cran-minerva
 
-Suggests: r-cran-metamix
+Recommends: r-cran-metamix
 
 Suggests: r-cran-optimalcutpoints
 
 Suggests: r-cran-parmigene
 
-Suggests: r-cran-phangorn
+Recommends: r-cran-phangorn
 
 Suggests: r-cran-pheatmap
 
-Suggests: r-cran-phytools
+Recommends: r-cran-phytools
 
-Suggests: r-cran-pscbs
+Recommends: r-cran-pscbs
 
 Suggests: r-cran-rsgcc
 
@@ -1171,29 +1163,31 @@ Suggests: r-bioc-savr
 
 Suggests: r-cran-sctransform
 
-Suggests: r-cran-seurat
+Recommends: r-cran-seurat
 
-Suggests: r-cran-seqinr
+Recommends: r-cran-seqinr
 
-Suggests: r-cran-spp
+Recommends: r-cran-spp
 
-Suggests: r-bioc-tfbstools, r-bioc-cner
+Recommends: r-bioc-tfbstools, r-bioc-cner
 
-Suggests: r-cran-treescape
+Recommends: r-cran-treescape
 
-Suggests: r-cran-tsne
+Recommends: r-cran-tsne
 
-Suggests: r-cran-vegan
+Suggests: r-bioc-tximport
+
+Recommends: r-cran-vegan
 
-Suggests: r-cran-webgestaltr
+Recommends: r-cran-webgestaltr
 
-Suggests: r-other-apmswapp
+Recommends: r-other-apmswapp
 
-Suggests: r-other-hms-dbmi-spp
+Recommends: r-other-hms-dbmi-spp
 
 Recommends: r-cran-wgcna
 
-Suggests: r-other-ascat
+Recommends: r-other-ascat
 
 Recommends: readucks
 
@@ -1235,26 +1229,26 @@ Remark: Precondition for T-Coffee
 
 Recommends: scrappie
 
-Suggests: scrm
+Recommends: scrm
 
-Suggests: seer
+Recommends: seer
 
-Suggests: segemehl
+Recommends: segemehl
 
-Suggests: sepp
+Recommends: sepp
 
 Recommends: seq-seq-pan
 Remark: Needs blat which is not re-distributable
 
-Suggests: seqmagick
+Recommends: seqmagick
 
-Suggests: seqprep
+Recommends: seqprep
 
-Suggests: seqsero
+Recommends: seqsero
 
-Suggests: seqtk
+Recommends: seqtk
 
-Suggests: sequenceconverter.app
+Recommends: 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.
@@ -1266,17 +1260,17 @@ 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.
 
-Suggests: seqwish
+Recommends: seqwish
 
-Suggets: sga
+Recommends: sga
 
 Recommends: shovill
 
-Suggests: sibelia
-
 Recommends: signalalign
 
-Suggests: sina
+Recommends: sibelia
+
+Recommends: sina
 
 Recommends: sistr
 
@@ -1337,7 +1331,7 @@ Recommends: stacks
 Recommends: strap, strap-base
 Language: Java
 
-Suggests: strelka
+Recommends: strelka
 
 Recommends: streamz
 



View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/b53ad025ca39f6e3093630b1e065cf391b024a04

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