[Blends-commit] [Git][blends-team/med][master] Revert "Update bio - substituted (most) recommendations with suggestions" -...

Andreas Tille gitlab at salsa.debian.org
Wed Jun 24 17:38:53 BST 2020 


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


Commits:
692d565f by Andreas Tille at 2020-06-24T18:37:21+02:00
Revert "Update bio - substituted (most) recommendations with suggestions" - this heavy change should be discussed first.  Please use the extra branch.

This reverts commit d272989338037be9ff8eb691a1ed8b8a2216c42d.

- - - - -


1 changed file:

- tasks/bio


Changes:

=====================================
tasks/bio
=====================================
@@ -371,7 +371,7 @@ Suggests: flexbar
 
 Suggests: blimps-utils
 
-Suggests: sift
+Recommends: sift
 
 Suggests: neobio
 
@@ -687,409 +687,409 @@ Suggests: fsm-lite
 
 Suggests: garli
 
-Suggests: gatb-core
+Recommends: gatb-core
 
-Suggests: gatk
+Recommends: gatk
 
-Suggests: genometester
+Recommends: genometester
 
-Suggests: genomethreader
+Recommends: genomethreader
 
-Suggests: genometools
+Recommends: genometools
 
-Suggests: gerp++
+Recommends: gerp++
 
-Suggests: gffread
+Recommends: gffread
 
-Suggests: grabix
+Recommends: grabix
 
-Suggests: graphlan
+Recommends: graphlan
 
-Suggests: graphmap2
+Recommends: graphmap2
 
-Suggests: gwama
+Recommends: gwama
 
-Suggests: gubbins
+Recommends: gubbins
 
-Suggests: haploview-cran-amap
+Recommends: haploview-cran-amap
 
-Suggests: harvest-tools
+Recommends: harvest-tools
 
-Suggests: hilive
+Recommends: hilive
 
-Suggests: hisat2
+Recommends: hisat2
 
-Suggests: hmmer2
+Recommends: hmmer2
 Remark: This older version of HMMER is used in some applications
  While Debian has HMMER 3 since some time there are users of
  HMMER 2 interested in having this old version available and
  thus the package is reintroduced.
 
-Suggests: htqc
+Recommends: htqc
 
-Suggests: idba
+Recommends: idba
 
-Suggests: idefix
+Recommends: idefix
 
-Suggests: igdiscover
+Recommends: igdiscover
 
-Suggests: indelible
+Recommends: indelible
 
-Suggests: insilicoseq
+Recommends: insilicoseq
 
-Suggests: iqtree
+Recommends: iqtree
 
-Suggests: iva
+Recommends: iva
 
-Suggests: jaligner
+Recommends: jaligner
 
-Suggests: jbrowse
+Recommends: jbrowse
 
-Suggests: jmodeltest
+Recommends: jmodeltest
 
-Suggests: kaptive, kleborate
+Recommends: kaptive, kleborate
 
-Suggests: kempbasu
+Recommends: kempbasu
 
-Suggests: kineticstools
+Recommends: kineticstools
 
-Suggests: kissplice
+Recommends: kissplice
 
-Suggests: kma
+Recommends: kma
 
-Suggests: kmerresistance
+Recommends: kmerresistance
 
-Suggests: kraken, kraken2
+Recommends: kraken, kraken2
 
-Suggests: lagan
+Recommends: lagan
 X-Category: Comparative genomics
 
-Suggests: lambda-align, lambda-align2
+Recommends: lambda-align, lambda-align2
 
-Suggests: lastz
+Recommends: lastz
 
-Suggests: leaff
+Recommends: leaff
 
-Suggests: ltrsift
+Recommends: ltrsift
 
-Suggests: lofreq
+Recommends: lofreq
 
-Suggests: kallisto
+Recommends: kallisto
 
-Suggests: khmer
+Recommends: khmer
 
-Suggests: kmer
+Recommends: kmer
 
-Suggests: radiant
+Recommends: radiant
 
-Suggests: lefse
+Recommends: lefse
 
-Suggests: lighter
+Recommends: lighter
 
-Suggests: lumpy-sv
+Recommends: lumpy-sv
 
-Suggests: mach-haplotyper
+Recommends: mach-haplotyper
 
-Suggests: macs
+Recommends: macs
 
-Suggests: macsyfinder
+Recommends: macsyfinder
 
-Suggests: maffilter
+Recommends: maffilter
 
-Suggests: mage2tab, tab2mage
+Recommends: mage2tab, tab2mage
 
-Suggests: malt
+Recommends: malt
 
-Suggests: manta
+Recommends: manta
 
-Suggests: mapdamage
+Recommends: mapdamage
 
-Suggests: martj
+Recommends: martj
 
-Suggests: mash
+Recommends: mash
 
-Suggests: progressivemauve
+Recommends: progressivemauve
 X-Category: Multiple genome alignment
 X-Importance: efficient
 
-Suggests: mauve-aligner
+Recommends: mauve-aligner
 
-Suggests: medaka
+Recommends: medaka
 
-Suggests: meme
+Recommends: meme
 License: non-free for commercial purpose (http://meme.nbcr.net/meme/COPYRIGHT.html)
 
-Suggests: meryl
+Recommends: meryl
 
-Suggests: metabit
+Recommends: metabit
 
-Suggests: metaphlan2
+Recommends: metaphlan2
 
-Suggests: metastudent
+Recommends: metastudent
 
 Suggests: metastudent-data, metastudent-data-2
 
-Suggests: microbegps
+Recommends: microbegps
 
-Suggests: mindthegap
+Recommends: mindthegap
 
-Suggests: miniasm
+Recommends: miniasm
 
-Suggests: minimac4
+Recommends: minimac4
 
-Suggests: minimap, minimap2
+Recommends: minimap, minimap2
 
-Suggests: mirtop
+Recommends: mirtop
 
-Suggests: molekel
+Recommends: molekel
 
-Suggests: mosaik-aligner
+Recommends: mosaik-aligner
 
-Suggests: mosdepth
+Recommends: mosdepth
 
-Suggests: mmseqs2
+Recommends: mmseqs2
 
-Suggests: mpsqed
+Recommends: mpsqed
 
 Suggests: mrs
 Remark: mrs might occupy a lot of space on users disk - so you want to avoid this package from the metapackage recommends
 
-Suggests: mptp
+Recommends: mptp
 
-Suggests: mugsy
+Recommends: mugsy
 
-Suggests: multiqc
+Recommends: multiqc
 
-Suggests: murasaki | murasaki-mpi
+Recommends: murasaki | murasaki-mpi
 
-Suggests: mview
+Recommends: mview
 
-Suggests: nanocall
+Recommends: nanocall
 
-Suggests: nanook
+Recommends: nanook
 
-Suggests: nanopolish
+Recommends: nanopolish
 
-Suggests: nanolyse
+Recommends: nanolyse
 
-Suggests: nanofilt
+Recommends: nanofilt
 
-Suggests: nanoplot
+Recommends: nanoplot
 
-Suggests: nanosv
+Recommends: nanosv
 
-Suggests: ncbi-acc-download
+Recommends: ncbi-acc-download
 
-Suggests: ncbi-entrez-direct
+Recommends: ncbi-entrez-direct
 
-Suggests: ncbi-magicblast
+Recommends: ncbi-magicblast
 
-Suggests: ncbi-seg
+Recommends: ncbi-seg
 
-Suggests: nextsv
+Recommends: nextsv
 
-Suggests: ngila
+Recommends: ngila
 
-Suggests: ngmlr
+Recommends: ngmlr
 
-Suggests: ngsqctoolkit
+Recommends: ngsqctoolkit
 
-Suggests: nw-align
+Recommends: nw-align
 
-Suggests: oases
+Recommends: oases
 
-Suggests: obitools
+Recommends: obitools
 
-Suggests: oncofuse
+Recommends: oncofuse
 
-Suggests: optimir
+Recommends: optimir
 
-Suggests: optitype
+Recommends: optitype
 
-Suggests: paipline
+Recommends: paipline
 
-Suggests: python3-pairtools
+Recommends: python3-pairtools
 
-Suggests: pal2nal
+Recommends: pal2nal
 
-Suggests: paleomix
+Recommends: paleomix
 
-Suggests: paraclu
+Recommends: paraclu
 
-Suggests: parasail
+Recommends: parasail
 
-Suggests: parsinsert
+Recommends: parsinsert
 
-Suggests: parsnp
+Recommends: parsnp
 
-Suggests: partitionfinder
+Recommends: partitionfinder
 
-Suggests: patman
+Recommends: patman
 
-Suggests: patristic
+Recommends: patristic
 Language: Java
 
-Suggests: pbdagcon
+Recommends: pbdagcon
 
-Suggests: pbsuite
+Recommends: pbsuite
 
-Suggests: pbgenomicconsensus
+Recommends: pbgenomicconsensus
 
-Suggests: pbjelly, pbhoney
+Recommends: pbjelly, pbhoney
 
-Suggests: pbsim
+Recommends: pbsim
 
-Suggests: pcma
+Recommends: pcma
 Remark: Precondition for T-Coffee
  see http://wiki.debian.org/DebianMed/TCoffee
  .
  Check with authors about licensing, they adopted code from clustalw which is now
  free.  Thus a change might be possible
 
-Suggests: perm
+Recommends: perm
 
-Suggests: pftools
+Recommends: pftools
 
-Suggests: phast
+Recommends: phast
 
-Suggests: phipack
+Recommends: phipack
 
-Suggests: phybin
+Recommends: phybin
 
-Suggests: phylophlan
+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
 
-Suggests: phyloviz-core
+Recommends: phyloviz-core
 Remark: There are several plugins to package
  The download page http://www.phyloviz.net/wiki/plugins/ lists several plugins
  that should be packaged (single or as bundle) as well.
 
-Suggests: phyutility
+Recommends: phyutility
 
-Suggests: phyx
+Recommends: phyx
 
-Suggests: physamp
+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: pomoxis
+Recommends: pomoxis
 
-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
 
 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
 
 Suggests: python3-py2bit
 
-Suggests: python3-pybedtools
+Recommends: python3-pybedtools
 
-Suggests: python3-sqt
+Recommends: 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
+Recommends: 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
 
-Suggests: r-bioc-deseq2, 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
 
@@ -1103,7 +1103,7 @@ Suggests: r-cran-corrplot
 
 Suggests: r-cran-dynamictreecut
 
-Suggests: r-bioc-ebseq
+Recommends: r-bioc-ebseq
 
 Suggests: r-cran-forecast
 
@@ -1111,23 +1111,23 @@ Suggests: r-cran-gprofiler
 
 Suggests: r-cran-fitdistrplus
 
-Suggests: r-bioc-impute
+Recommends: r-bioc-impute
 
-Suggests: r-bioc-mergeomics
+Recommends: r-bioc-mergeomics
 
-Suggests: r-bioc-metagenomeseq, r-bioc-phyloseq
+Recommends: r-bioc-metagenomeseq, r-bioc-phyloseq
 
-Suggests: r-bioc-mofa
+Recommends: r-bioc-mofa
 
-Suggests: r-bioc-multiassayexperiment
+Recommends: r-bioc-multiassayexperiment
 
-Suggests: r-bioc-mutationalpatterns
+Recommends: r-bioc-mutationalpatterns
 
-Suggests: r-bioc-limma, 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-annotationhub, r-bioc-aroma.light, r-bioc-ensembldb,
 
@@ -1141,33 +1141,33 @@ 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
 
@@ -1175,92 +1175,92 @@ 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-bioc-tximport
 
-Suggests: r-cran-vegan
+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
 
-Suggests: r-cran-wgcna
+Recommends: r-cran-wgcna
 
-Suggests: r-other-ascat
+Recommends: r-other-ascat
 
-Suggests: readucks
+Recommends: readucks
 
-Suggests: recan
+Recommends: recan
 
-Suggests: relion-bin+gui | relion-bin+mpi+gui, relion-bin | relion-bin+mpi
+Recommends: relion-bin+gui | relion-bin+mpi+gui, relion-bin | relion-bin+mpi
 
-Suggests: rdp-alignment, rdp-readseq, rdp-classifier
+Recommends: rdp-alignment, rdp-readseq, rdp-classifier
 
-Suggests: reapr
+Recommends: reapr
 
-Suggests: repeatmasker-recon
+Recommends: repeatmasker-recon
 
-Suggests: repeatmasker
+Recommends: repeatmasker
 
-Suggests: resfinder
+Recommends: resfinder
 
-Suggests: roadtrips
+Recommends: roadtrips
 
-Suggests: roary
+Recommends: roary
 
-Suggests: roguenarok
+Recommends: roguenarok
 
-Suggests: rsat
+Recommends: rsat
 
-Suggests: rsem
+Recommends: rsem
 
-Suggests: sambamba
+Recommends: sambamba
 
-Suggests: samblaster
+Recommends: samblaster
 
-Suggests: salmon
+Recommends: salmon
 
-Suggests: samclip
+Recommends: samclip
 
-Suggests: sap
+Recommends: sap
 Remark: Precondition for T-Coffee
  see http://wiki.debian.org/DebianMed/TCoffee
 
-Suggests: scrappie
+Recommends: scrappie
 
-Suggests: scrm
+Recommends: scrm
 
-Suggests: seer
+Recommends: seer
 
-Suggests: segemehl
+Recommends: segemehl
 
-Suggests: sepp
+Recommends: sepp
 
-Suggests: seq-seq-pan
+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.
@@ -1272,195 +1272,195 @@ 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
 
-Suggests: sga
+Recommends: sga
 
-Suggests: shovill
+Recommends: shovill
 
-Suggests: signalalign
+Recommends: signalalign
 
-Suggests: sibelia
+Recommends: sibelia
 
-Suggests: sina
+Recommends: sina
 
-Suggests: sistr
+Recommends: sistr
 
-Suggests: situs
+Recommends: situs
 
-Suggests: sim4db
+Recommends: sim4db
 
-Suggests: skesa
+Recommends: skesa
 
-Suggests: smalt
+Recommends: smalt
 Remark: This can be regarded as successor of ssaha2
  This program is from the same author as ssaha2 and according to its author
  faster and more precise than ssaha2 (except for sequences > 2000bp).
 
-Suggests: smithwaterman
+Recommends: smithwaterman
 
-Suggests: smrtanalysis
+Recommends: smrtanalysis
 
-Suggests: snpeff
+Recommends: snpeff
 
-Suggests: snpomatic
+Recommends: snpomatic
 
-Suggests: solvate
+Recommends: solvate
 
-Suggests: sortmerna
+Recommends: sortmerna
 
-Suggests: snap-aligner
+Recommends: snap-aligner
 
-Suggests: sniffles
+Recommends: sniffles
 
-Suggests: sourmash
+Recommends: sourmash
 
-Suggests: spaced
+Recommends: spaced
 
-Suggests: spades
+Recommends: spades
 
-Suggests: spaln
+Recommends: spaln
 
-Suggests: sparta
+Recommends: sparta
 
-Suggests: sprai
+Recommends: sprai
 
-Suggests: srst2
+Recommends: srst2
 
-Suggests: ssaha
+Recommends: ssaha
 Remark: Successor for ssaha2 available: smalt
  The program smalt is from the same author is according to its author
  faster and more precise than ssaha2 (except for sequences > 2000bp)
 
-Suggests: sspace
+Recommends: sspace
 
-Suggests: ssw-align
+Recommends: ssw-align
 
-Suggests: staden
+Recommends: staden
 
-Suggests: stacks
+Recommends: stacks
 
-Suggests: strap, strap-base
+Recommends: strap, strap-base
 Language: Java
 
-Suggests: strelka
+Recommends: strelka
 
-Suggests: stringtie
+Recommends: stringtie
 
-Suggests: subread
+Recommends: subread
 
-Suggests: suitename
+Recommends: suitename
 
-Suggests: sumatra, sumaclust
+Recommends: sumatra, sumaclust
 
-Suggests: sumtrees
+Recommends: sumtrees
 
-Suggests: surankco
+Recommends: surankco
 
-Suggests: swarm
+Recommends: swarm
 
-Suggests: tacg
+Recommends: tacg
 X-Category: Motif detection
 X-Importance: powerful
 
-Suggests: tantan
+Recommends: tantan
 
-Suggests: thesias
+Recommends: thesias
 
-Suggests: tiddit
+Recommends: tiddit
 
-Suggests: toppred
+Recommends: toppred
 
-Suggests: transdecoder
+Recommends: transdecoder
 
-Suggests: tnseq-transit
+Recommends: tnseq-transit
 
-Suggests: tn-seqexplorer
+Recommends: tn-seqexplorer
 
-Suggests: toil
+Recommends: toil
 
-Suggests: tombo
+Recommends: tombo
 
-Suggests: tracetuner
+Recommends: tracetuner
 
-Suggests: transrate-tools
+Recommends: transrate-tools
 
-Suggests: treeview
+Recommends: treeview
 X-Category: Visualisation
 
 X-Recommends: treevolve
 X-Comment: Homepage of software vanished, packaging in SVN is obviosely stalled
  Feel free to delete the 'X-' in front if you intend to do something on this package
 
-Suggests: trinityrnaseq
+Recommends: trinityrnaseq
 
-Suggests: uc-echo
+Recommends: uc-echo
 X-Category: NGS
 
-Suggests: ufasta
+Recommends: ufasta
 
-Suggests: umap-learn
+Recommends: umap-learn
 
-Suggests: umis
+Recommends: umis
 
-Suggests: unanimity
+Recommends: unanimity
 
-Suggests: unicycler
+Recommends: unicycler
 
-Suggests: varna
+Recommends: varna
 
-Suggests: varmatch
+Recommends: varmatch
 
-Suggests: varscan
+Recommends: varscan
 
-Suggests: vcfanno
+Recommends: vcfanno
 
-Suggests: vdjtools
+Recommends: vdjtools
 
-Suggests: vg
+Recommends: vg
 
-Suggests: vienna-rna
+Recommends: vienna-rna
 X-Category: Secondary structure of nucleic acids
 
-Suggests: virulencefinder
+Recommends: virulencefinder
 
-Suggests: vmatch
+Recommends: vmatch
 
-Suggests: vmd
+Recommends: vmd
 
-Suggests: vsearch
+Recommends: vsearch
 
-Suggests: vt
+Recommends: vt
 
-Suggests: yaha
+Recommends: yaha
 
-Suggests: yanagiba
+Recommends: yanagiba
 
-Suggests: yanosim
+Recommends: yanosim
 
-Suggests: canu
+Recommends: canu
 Remark: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
-Suggests: zalign
+Recommends: zalign
 
-Suggests: zodiac-zeden
+Recommends: zodiac-zeden
 Language: C, C++
 
-Suggests: discosnp, mapsembler2
+Recommends: discosnp, mapsembler2
 
-Suggests: dnaclust
+Recommends: dnaclust
 
-Suggests: r-cran-tcr, r-cran-tigger, r-cran-alakazam, r-cran-shazam, igor, r-cran-sdmtools, presto, changeo
+Recommends: r-cran-tcr, r-cran-tigger, r-cran-alakazam, r-cran-shazam, igor, r-cran-sdmtools, presto, changeo
 
-Suggests: ncbi-igblast
+Recommends: ncbi-igblast
 
 Suggests: python3-pyflow
 
-Suggests: pigx-rnaseq, pigx-scrnaseq
+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
 
-Suggests: copycat
+Recommends: copycat
 Homepage: http://www-ab.informatik.uni-tuebingen.de/software/copycat/welcome.html
 License: Use of the program is free for academic purposes at an academic institute. For all other uses, please contact the authors.
 Pkg-Description: fast access to cophylogenetic analyses
@@ -1471,7 +1471,7 @@ Pkg-Description: fast access to cophylogenetic analyses
  creation of customized host-parasite association data and the
  computation of phylogenetic host/parasite trees based on the NCBI taxonomy.
 
-Suggests: btk-core
+Recommends: btk-core
 Homepage: http://sourceforge.net/projects/btk/
 Responsible: Morten Kjeldgaard <mok at bioxray.au.dk>
 License: GPL
@@ -1482,7 +1482,7 @@ Pkg-Description: biomolecule Toolkit C++ library
  for common tasks in structural biology to facilitate the development of
  molecular modeling, design and analysis tools.
 
-Suggests: asap
+Recommends: asap
 Homepage: http://asap.ahabs.wisc.edu/software/asap/
 Responsible: Andreas Tille <tille at debian.org>
 License: GPL
@@ -1510,7 +1510,7 @@ Pkg-Description: organize the data associated with a genome
  inter-operable between sites.
 X-Category: Annotation
 
-Suggests: cactus
+Recommends: cactus
 Homepage: http://www.cactuscode.org/Community/Biology.html
 License: GPL
 Pkg-Description:
@@ -1524,7 +1524,7 @@ Pkg-Description:
  Metacomputing Toolkit, HDF5 parallel file I/O, the PETSc scientific library,
  adaptive mesh refinement, web interfaces, and advanced visualization tools.
 
-Suggests: contralign
+Recommends: contralign
 Homepage: http://contra.stanford.edu/contralign/
 License: Public Domain
 Pkg-Description: parameter learning framework for protein pairwise sequence alignment
@@ -1535,13 +1535,13 @@ Pkg-Description: parameter learning framework for protein pairwise sequence alig
  previously unseen sequences and avoid overfitting by controlling model
  complexity through regularization.
 
-Suggests: concavity
+Recommends: concavity
 
-Suggests: conservation-code
+Recommends: conservation-code
 
-Suggests: galaxy
+Recommends: galaxy
 
-Suggests: genographer
+Recommends: genographer
 Homepage: https://sourceforge.net/projects/genographer/
 License: GPL
 Pkg-Description: read data and reconstruct them into a gel image
@@ -1553,7 +1553,7 @@ Pkg-Description: read data and reconstruct them into a gel image
  The program is written in Java and uses the Java 1.3 API. Therefore,
  it should run on any machine that can run java.
 
-Suggests: phylographer
+Recommends: phylographer
 Homepage: http://www.atgc.org/PhyloGrapher/PhyloGrapher_Welcome.html
 License: GPL
 X-Category: Graphical representation of sequence conservation
@@ -1574,7 +1574,7 @@ Remark: Outdated upstream, better alternatives available
  The former packaging effort of this package was dropped.  It seems
  that http://cytoscape.org/ is a reasonable replacement.
 
-Suggests: phylowin
+Recommends: phylowin
 Homepage: http://pbil.univ-lyon1.fr/software/phylowin.html
 WNPP: 395840
 License: unknown
@@ -1599,14 +1599,14 @@ Remark: Issuer of previous ITP said:
  Probably it makes sense to remove this project from the prospective packages
  list.
 
-Suggests: phpphylotree
+Recommends: phpphylotree
 Homepage: http://www.bioinformatics.org/project/?group_id=372
 License: GPL
 Pkg-Description: draw phylogenetic trees
  PhpPhylotree is a web application that is able to draw phylogenetic trees.
  It produces an SVG (Scalable Vector Graphic) file from phylip/newick tree files.
 
-Suggests: twain
+Recommends: twain
 Homepage: http://cbcb.umd.edu/software/pirate/twain/twain.shtml
 License: Open Source
 Pkg-Description: syntenic genefinder employing a Generalized Pair Hidden Markov Model
@@ -1629,7 +1629,7 @@ Pkg-Description: syntenic genefinder employing a Generalized Pair Hidden Markov
  Slides from a talk at Computational Genomics 2004 are now available.
 Remark: Computational Gene Finding (http://www.cbcb.umd.edu/software/)
 
-Suggests: rose
+Recommends: rose
 Homepage: http://www.cbcb.umd.edu/software/rose/Rose.html
 License: Open Source
 Pkg-Description: Region-Of-Synteny Extractor
@@ -1648,7 +1648,7 @@ Pkg-Description: Region-Of-Synteny Extractor
  boundaries of the output region.
 Remark: Computational Gene Finding (http://www.cbcb.umd.edu/software/)
 
-Suggests: glimmerhmm
+Recommends: glimmerhmm
 Homepage: http://www.cbcb.umd.edu/software/glimmerhmm/
 License: Artistic
 Pkg-Description: Eukaryotic Gene-Finding System
@@ -1663,7 +1663,7 @@ Pkg-Description: Eukaryotic Gene-Finding System
  user manual can be consulted here.
 Remark: Computational Gene Finding (http://www.cbcb.umd.edu/software/)
 
-Suggests: genezilla
+Recommends: genezilla
 Homepage: http://www.genezilla.org/
 License: Artistic
 Language: C++
@@ -1693,7 +1693,7 @@ Pkg-Description: eukaryotic gene finder
  for the comparative gene finder TWAIN.
 Remark: Computational Gene Finding (http://www.cbcb.umd.edu/software/)
 
-Suggests: exalt
+Recommends: exalt
 Homepage: http://www.cbcb.umd.edu/software/exalt/
 License: Artistic
 Pkg-Description: phylogenetic generalized hidden Markov model for predicting alternatively spliced exons
@@ -1707,7 +1707,7 @@ Pkg-Description: phylogenetic generalized hidden Markov model for predicting alt
  run on other species.
 Remark: Computational Gene Finding (http://www.cbcb.umd.edu/software/)
 
-Suggests: jigsaw
+Recommends: jigsaw
 Homepage: http://www.cbcb.umd.edu/software/jigsaw/
 License: Artistic
 Pkg-Description: gene prediction using multiple sources of evidence
@@ -1735,7 +1735,7 @@ Pkg-Description: gene prediction using multiple sources of evidence
  custom tracks in the UCSC Human Genome Browser
 Remark: Computational Gene Finding (http://www.cbcb.umd.edu/software/)
 
-Suggests: genesplicer
+Recommends: genesplicer
 Homepage: http://www.cbcb.umd.edu/software/GeneSplicer/
 License: Artistic
 Pkg-Description: computational method for splice site prediction
@@ -1779,7 +1779,7 @@ Pkg-Description: motif discovery tool
  On the other hand the SMILE author told us in private mail that he
  thinks that RISO is dead and SMILE continues to have some importance.
 
-Suggests: mummergpu
+Recommends: mummergpu
 Homepage: http://mummergpu.sourceforge.net/
 License: Artistic
 Pkg-Description: High-throughput sequence alignment using Graphics Processing Units
@@ -1807,7 +1807,7 @@ Pkg-Description: High-throughput sequence alignment using Graphics Processing Un
  technologies.
 Remark: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
-Suggests: amoscmp
+Recommends: amoscmp
 Homepage: http://amos.sourceforge.net/docs/pipeline/AMOScmp.html
 License: Artistic
 Pkg-Description: comparative genome assembly package
@@ -1836,7 +1836,7 @@ Pkg-Description: comparative genome assembly package
  modular open-source framework for assembly development.
 Remark: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
-Suggests: minimus
+Recommends: minimus
 Homepage: http://amos.sourceforge.net/docs/pipeline/minimus.html
 License: Artistic
 Pkg-Description: AMOS lightweight assembler
@@ -1869,7 +1869,7 @@ Pkg-Description: AMOS lightweight assembler
  develop a modular open-source framework for assembly development.
 Remark: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
-Suggests: catissuecore
+Ignore: catissuecore
 Homepage: https://cabig.nci.nih.gov/tools/catissuecore
 License: to be clarified, NCICB Open Source Project Site
 Pkg-Description: biospecimen inventory, tracking, and basic annotation
@@ -1928,7 +1928,7 @@ Pkg-Description: Transcript Annotation Prioritization and Screening System
 Remark: Found at
  http://gforge.nci.nih.gov/softwaremap/trove_list.php?form_cat=337
 
-Suggests: bambus
+Recommends: bambus
 Homepage: http://amos.sourceforge.net/docs/bambus/
 License: Artistic
 Pkg-Description: hierarchical approach to building contig scaffolds
@@ -1943,7 +1943,7 @@ Pkg-Description: hierarchical approach to building contig scaffolds
  integrated with the AMOS package (see http://amos.sourceforge.net/)
 Remark: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
-Suggests: gmv
+Recommends: gmv
 Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/index.php?GMV
 License: GPL
 Pkg-Description: comparative genome browser for Murasaki
@@ -1951,14 +1951,14 @@ Pkg-Description: comparative genome browser for Murasaki
  anchors from Murasaki, annotation data from GenBank files, and
  expression / prediction score from GFF files.
 
-Suggests: pyrophosphate-tools
+Recommends: pyrophosphate-tools
 Homepage: http://www-naweb.iaea.org/nafa/ipc/public/d4_pbl_6a.html
 License: not specified
 Pkg-Description: for assembling and searching pyrophosphate sequence data
  Simple tools for assembling and searching high-density picolitre
  pyrophosphate sequence data.
 
-Suggests: figaro
+Recommends: figaro
 Homepage: http://amos.sourceforge.net/Figaro/Figaro.html
 License: Artistic
 Pkg-Description: novel vector trimming software
@@ -1971,7 +1971,7 @@ Pkg-Description: novel vector trimming software
  part of the AMOS suite.
 Remark: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
-Suggests: mirbase
+Recommends: mirbase
 Homepage: http://microrna.sanger.ac.uk/
 License: Public Domain
 WNPP: 420938
@@ -2017,7 +2017,7 @@ X-Pkg-Description: fast computation of maximal repeats in complete genomes
 X-Note: Code is not redistributable see mailing list discussion at
  http://lists.debian.org/debian-med/2012/07/msg00195.html
 
-Suggests: uniprime
+Recommends: uniprime
 Homepage: http://code.google.com/p/uniprime/
 License: GPL-3+
 Responsible: Charles Plessy <plessy at debian.org>
@@ -2033,7 +2033,7 @@ Pkg-Description: workflow-based platform for universal primer design
  generates successful cross-species primers that take into account the
  biological aspects of the PCR.
 
-Suggests: genetrack
+Recommends: genetrack
 Homepage: http://sysbio.bx.psu.edu/genetrack.html
 License: MIT
 Responsible: Charles Plessy <plessy at debian.org>
@@ -2043,7 +2043,7 @@ Pkg-Description: genomic data storage and visualization framework
  analyze data obtained via high-throughput rapid sequencing platforms such as
  the 454 and Solexa as well as tiling array data based on various platforms.
 
-Suggests: operondb
+Recommends: operondb
 Homepage: http://www.cbcb.umd.edu/cgi-bin/operons/operons.cgi
 License: to be clarified
 Pkg-Description: detect and analyze conserved gene pairs
@@ -2072,7 +2072,7 @@ Remark: Other sequence analysis tools (http://www.cbcb.umd.edu/software/);
  no info about license or downloadable code found, but tried to
  contact authors.
 
-Suggests: trnascan-se
+Recommends: trnascan-se
 
 Comment: If you stumble upon alfresco at
  http://www.sanger.ac.uk/Software/Alfresco/ - it seems outdated and
@@ -2085,7 +2085,7 @@ Comment: If you stumble upon angler at
  this is probably also not for us except somebody has real interest
  and volunteers to clarify the license.
 
-Suggests: cdna-db
+Recommends: cdna-db
 Homepage: http://www.sanger.ac.uk/Software/analysis/cdna_db/
 License: Artistic
 Pkg-Description: quality-control checking of finished cDNA clone sequences
@@ -2112,9 +2112,9 @@ Pkg-Description: quality-control checking of finished cDNA clone sequences
  dump cDNA clones sequences (such as those that passed the QC
  checking) from the cdna_db.
 
-Suggests: coot
+Recommends: coot
 
-Suggests: caftools
+Recommends: caftools
 
 Recommends: roche454ace2caf
 Homepage: http://genome.imb-jena.de/software/roche454ace2caf/
@@ -2143,7 +2143,7 @@ Remark: The BioLinux distribution http://envgen.nox.ac.uk/biolinux.html
  Format) or GAP4. This package includes tools to convert assemblies
  from Newbler's ace format for loading into a gap4 assembly.
 
-Suggests: big-blast
+Recommends: big-blast
 Homepage: ftp://ftp.sanger.ac.uk/pub/pathogens/software/artemis/extra/big_blast.pl
 License: not specified
 Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
@@ -2154,7 +2154,7 @@ Pkg-Description: Helper tool to run blast on large sequences
  containing the hits.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: estferret
+Recommends: estferret
 Homepage: http://legr.liv.ac.uk/EST-ferret/index.htm
 License: to be clarified
 Responsible: BioLinux - Bela Tiwari <btiwari at ceh.ac.uk>
@@ -2201,11 +2201,11 @@ Pkg-Description: processes, clusters and annotates EST data
  a MySQL database or web-browsable search tool.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: lamarc
+Recommends: lamarc
 
-Suggests: lucy
+Recommends: lucy
 
-Suggests: maxd
+Recommends: maxd
 Homepage: http://www.bioinf.man.ac.uk/microarray/maxd/
 License: Artistic
 Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
@@ -2223,9 +2223,9 @@ Pkg-Description: data warehouse and visualisation environment for genomic expres
   maxdSetup - installation management utility
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: mesquite
+Recommends: mesquite
 
-Suggests: migrate
+Recommends: migrate
 Homepage: http://popgen.scs.fsu.edu/Migrate-n.html
 License: to be clarified
 Responsible: BioLinux - Nathan S Haigh <n.haigh at sheffield.ac.uk>
@@ -2247,7 +2247,7 @@ Pkg-Description: estimation of population sizes and gene flow using the coalesce
  surfaces for all populations and all loci.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: msatfinder
+Recommends: msatfinder
 Homepage: http://www.genomics.ceh.ac.uk/msatfinder/
 License: GPL
 Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
@@ -2262,7 +2262,7 @@ Pkg-Description: identification and characterization of microsatellites in a com
  FASTA, EMBL and Swissprot formats are supported.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: oligoarrayaux
+Recommends: oligoarrayaux
 Homepage: http://dinamelt.bioinfo.rpi.edu/OligoArrayAux.php
 License: non-free (fre academical use)
 Responsible: BioLinux - Bela Tiwari <btiwari at ceh.ac.uk>
@@ -2289,7 +2289,7 @@ Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
  this and so it might make soem sense to list it here - further
  investigation is needed.
 
-Suggests: partigene
+Recommends: partigene
 Homepage: http://www.nematodes.org/bioinformatics/PartiGene/
 License: GPL
 Responsible: BioLinux - Bela Tiwari <btiwari at ceh.ac.uk>
@@ -2303,7 +2303,7 @@ Pkg-Description: generating partial gemomes
  (putative genes) which we term a partial genome.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: pfaat
+Recommends: pfaat
 Homepage: http://pfaat.sourceforge.net/
 License: GPL
 Responsible: BioLinux - Dan Swan <dswan at ceh.ac.uk>
@@ -2321,7 +2321,7 @@ Comment: priam
  project has only a "free as in beer" binary download - so this is not
  for us ...
 
-Suggests: prot4est
+Recommends: prot4est
 Homepage: http://xyala.cap.ed.ac.uk/bioinformatics/prot4EST/index.shtml
 License: GPL
 Responsible: BioLinux - Bela Tiwari <btiwari at ceh.ac.uk>
@@ -2333,7 +2333,7 @@ Pkg-Description: EST protein translation suite
  translating ESTs.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: qtlcart
+Recommends: qtlcart
 Homepage: http://statgen.ncsu.edu/qtlcart/
 License: GPL
 Responsible: BioLinux - Dan Swan <dswan at ceh.ac.uk>
@@ -2346,7 +2346,7 @@ Pkg-Description: map quantitative traits using a map of molecular markers
  simulation studies of experiments.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: rbs-finder
+Recommends: rbs-finder
 Homepage: http://www.genomics.jhu.edu/RBSfinder/
 License: not specified
 Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
@@ -2363,7 +2363,7 @@ Pkg-Description: find ribosome binding sites(RBS)
  http://nbc11.biologie.uni-kl.de/docbook/doc_userguide_bioinformatics_server/chunk/ch01s06.html
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: splitstree
+Recommends: splitstree
 Homepage: http://www-ab.informatik.uni-tuebingen.de/software/splitstree3/welcome.html
 License: to be clarified
 Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
@@ -2395,7 +2395,7 @@ Pkg-Description: Analyzing and Visualizing Evolutionary Data
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
 
-Suggests: taverna
+Recommends: taverna
 Homepage: http://taverna.sourceforge.net/
 License: LGPL
 Responsible: BioLinux - Bela Tiwari <btiwari at ceh.ac.uk>
@@ -2420,7 +2420,7 @@ Pkg-Description: designing and executing myGrid workflows for bioinformatics
  collaboration with the open source community.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: taxinspector
+Recommends: taxinspector
 Homepage: http://nebc.nox.ac.uk/projects/taxinspector.html
 License: Artistic + other free licenses
 Responsible: BioLinux - Tim Booth <tbooth at ceh.ac.uk>
@@ -2431,7 +2431,7 @@ Pkg-Description: browser for entries in the NCBI taxonomy
  and Pedro, but also has a standalone mode.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: tetra
+Recommends: tetra
 Homepage: http://www.megx.net/tetra/
 License: free academic
 Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
@@ -2449,16 +2449,16 @@ Remark: for the Linux version
  Linux version might happen when REALbasic's Linux IDE is more mature.
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: trace2dbest
+Recommends: trace2dbest
 
-Suggests: estscan
+Recommends: estscan
 Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html
 
-Suggests: profit
+Recommends: profit
 WNPP: 525428
 Remark: The authors need to change the license, still.
 
-Suggests: obo-edit
+Recommends: obo-edit
 Homepage: http://www.geneontology.org
 X-Comment: Find the license here [1] and [2].
  [1] http://geneontology.svn.sourceforge.net/viewvc/geneontology/java/oboedit/tags/2.2/release_resources/LICENSE?revision=4863&view=markup
@@ -2470,7 +2470,7 @@ Pkg-Description: editor for biological ontologies
  and part-of relations. Amongst the databases cureated by this tool
  is the GeneOntology.
 
-Suggests: phagefinder
+Recommends: phagefinder
 Homepage: http://phage-finder.sourceforge.net/
 License: GPL
 Language: Perl
@@ -2491,11 +2491,11 @@ Pkg-Description: heuristic computer program to identify prophage regions within
  will facilitate future studies on the biology and evolution of these prophages by providing
  a level of microbial genome annotation that was previously void.
 
-Suggests: compclust
+Recommends: compclust
 X-Category: Genomics; Clustering analysis (+GUI)
 Pkg-URL: http://woldlab.caltech.edu/compclust/debian_install.shtml
 
-Suggests: treebuilder3d
+Recommends: treebuilder3d
 Homepage: http://www.bcgsc.ca/platform/bioinfo/software/treebuilder
 License: GPL
 Language: Java
@@ -2508,7 +2508,7 @@ Pkg-Description: viewer of SAGE and other types of gene expression data
  analyzing differences in expression profiles of SAGE libraries, serves as an
  alternative to Venn diagrams.
 
-Suggests: excavator
+Recommends: excavator
 Homepage: http://csbl.bmb.uga.edu/downloads/excavator/
 License: GPL
 Language: Java
@@ -2531,44 +2531,44 @@ Pkg-Description: gene expression data clustering
   * numerical comparison between different clustering results of the same data set
   * runnable on command line as well as through a Java GUI
 
-Suggests: treetime
+Recommends: treetime
 Homepage: http://treetime.linhi.com/
 License: GPL
 Pkg-Description: Bayesian sampling of phylogenetic trees from molecular data
  TreeTime is controlled by input files in nexus format and does
  bayesian sampling of phylogenetic trees from these data.
 
-Suggests: abacas
+Recommends: abacas
 
-Suggests: profnet-bval, profnet-chop, profnet-con, profnet-isis, profnet-md, profnet-norsnet, profnet-prof, profnet-snapfun
+Recommends: profnet-bval, profnet-chop, profnet-con, profnet-isis, profnet-md, profnet-norsnet, profnet-prof, profnet-snapfun
 
-Suggests: profphd-net, profphd-utils
+Recommends: profphd-net, profphd-utils
 
-Suggests: profphd
+Recommends: profphd
 
-Suggests: abyss
+Recommends: abyss
 
-Suggests: ampliconnoise
+Recommends: ampliconnoise
 
-Suggests: disulfinder
+Recommends: disulfinder
 
-Suggests: circos, runcircos-gui
+Recommends: circos, runcircos-gui
 
-Suggests: populations
+Recommends: populations
 
-Suggests: raccoon
+Recommends: raccoon
 
-Suggests: racon, spoa, rampler
+Recommends: racon, spoa, rampler
 
-Suggests: librg-utils-perl
+Recommends: librg-utils-perl
 
-Suggests: snap
+Recommends: snap
 
-Suggests: pyvcf, vcftools
+Recommends: pyvcf, vcftools
 
-Suggests: beads
+Recommends: beads
 
-Suggests: x-tandem-pipeline
+Recommends: x-tandem-pipeline
 Homepage: http://pappso.inra.fr/bioinfo/xtandempipeline/
 License: GPL
 Language: Java
@@ -2593,7 +2593,7 @@ Pkg-Description: peptide/protein identification from MS/MS mass spectra
 
 Suggests: maude
 
-Suggests: forge
+Recommends: forge
 Homepage: http://combiol.org/forge/
 License: Apache 2.0
 Pkg-Description: genome assembler for mixed read types
@@ -2617,7 +2617,7 @@ Remark: Competitor to MIRA2 and wgs-assembler
  This package was requested by William Spooner <whs at eaglegenomics.com> as
  a competitor to MIRA2 and wgs-assembler.
 
-Suggests: metarep
+Recommends: metarep
 License: MIT
 Homepage: http://www.jcvi.org/metarep/
 Pkg-Description: JCVI Metagenomics Reports
@@ -2650,7 +2650,7 @@ X-Pkg-Description: MEtaGenome ANalyzer
  projects. In consequence, there is a dramatic increase in the volume of
  sequence data to be analyzed.
 
-Suggests: arachne
+Recommends: arachne
 Homepage: http://www.broadinstitute.org/crd/wiki/index.php/Arachne
 License: free
 Pkg-Description: toolkit for Whole Genome Shotgun Assembly
@@ -2669,7 +2669,7 @@ Pkg-Description: toolkit for Whole Genome Shotgun Assembly
  numerous modules, to analyze, visualize and manipulate assemblies. New
  and improved algorithms are becoming available on a regular basis.
 
-Suggests: maker2
+Recommends: maker2
 Homepage: http://www.yandell-lab.org/software/maker.html
 License: GPL / Artistic
 Pkg-Description: annotate genomes and create genome databases
@@ -2689,7 +2689,7 @@ Pkg-Description: annotate genomes and create genome databases
  especially useful for emerging model organism projects with minimal
  bioinformatics expertise and computer resources
 
-Suggests: rmblast
+Recommends: rmblast
 Homepage: http://tandem.bu.edu/trf/trf.html
 License: Same as blast2
 Pkg-Description: RepeatMasker compatible version of the standard NCBI BLAST
@@ -2703,7 +2703,7 @@ Pkg-Description: RepeatMasker compatible version of the standard NCBI BLAST
  scoring. Cross_match is Phil Green's seeded smith-waterman search algorithm.
  Support for cross_match-like masklevel filtering.
 
-Suggests: e-hive
+Recommends: e-hive
 Homepage: http://www.ensembl.org/info/docs/eHive/index.html
 License: Not specified
 Pkg-Description: distributed processing system based on 'autonomous agents'
@@ -2713,14 +2713,14 @@ Pkg-Description: distributed processing system based on 'autonomous agents'
  to codify any program, algorithm, or parallel processing job control system.
  It is not bound to any processing 'farm' system and can be adapted to any GRID.
 
-Suggests: cmap
+Recommends: cmap
 Homepage: http://gmod.org/wiki/CMap
 License: Not specified
 Pkg-Description: view comparisons of genetic and physical maps
  CMap is a web-based tool that allows users to view comparisons of genetic and
  physical maps. The package also includes tools for curating map data.
 
-Suggests: gbrowse-syn
+Recommends: gbrowse-syn
 Homepage: http://gmod.org/wiki/GBrowse_syn
 License: Not specified
 Pkg-Description: Generic Synteny Browser
@@ -2733,7 +2733,7 @@ Pkg-Description: Generic Synteny Browser
  later). Working examples can be seen at TAIR and WormBase.
 
 
-Suggests: tripal
+Recommends: tripal
 Homepage: http://tripal.info/
 License: GPL ( as Drupal a derivative )
 Pkg-Description: collection of Drupal modules for genomic research
@@ -2748,14 +2748,14 @@ Pkg-Description: collection of Drupal modules for genomic research
  databases are projects of the Main Bioinformatics Laboratory at Washington
  State University
 
-Suggests: genemark
+Recommends: genemark
 Homepage: http://exon.biology.gatech.edu/
 License: Academic License Agreement
 Pkg-Description: family of gene prediction programs
  A family of gene prediction programs developed at Georgia Institute of
  Technology, Atlanta, Georgia, USA.
 
-Suggests: annovar
+Recommends: annovar
 Homepage: http://www.openbioinformatics.org/annovar/
 License: Open Source for non-profit
 Pkg-Description: annotate genetic variants detected from diverse genomes
@@ -2791,7 +2791,7 @@ Pkg-Description: annotate genetic variants detected from diverse genomes
  "variants reduction" procedure, making it practical to handle hundreds
  of human genomes in a day.
 
-Suggests: python3-orange
+Recommends: python3-orange
 License: GPLv3
 Homepage: http://orange.biolab.si/
 Pkg-URL: http://orange.biolab.si/debian/
@@ -2802,7 +2802,7 @@ Pkg-Description: Data mining framework
  techniques. It can be used through a nice and intuitive user interface
  or, for more advanced users, as a module for Python programming language.
 
-Suggests: tigr-glimmer-mg
+Recommends: tigr-glimmer-mg
 
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html



View it on GitLab: https://salsa.debian.org/blends-team/med/-/commit/692d565fd0df6bfcd631edbfb12b6abb16507fd9

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