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planemo upload for repository https://github.com/geraldinepascal/FROGS-wrappers/tree/v3.1.0 commit 08296fc88e3e938c482c631bd515b3b7a0499647
author frogs
date Thu, 28 Feb 2019 10:14:49 -0500
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## Application
Software :/home/maria/workspace/git/FROGS/FROGS_master/test/../app/r_composition.py (version : 3.1)
Command : /home/maria/workspace/git/FROGS/FROGS_master/test/../app/r_composition.py --varExp EnvType --taxaRank1 Kingdom --taxaSet1 Bacteria --taxaRank2 Phylum --numberOfTaxa 9 --rdata res/14-phylo_import.Rdata --html res/15-phylo_composition.html --log-file res/15-phylo_composition.log

########################################################################################################
# Run 1 code Rmarkdown (Rscript version : [1] "R version 3.4.4 (2018-03-15)"
[1] "Rmarkdown version:  1.10"
[1] "Phyloseq version:  1.19.1")
Command:
	Rscript -e "rmarkdown::render('/home/maria/workspace/git/FROGS/FROGS_master/app/r_composition.Rmd',output_file='/home/maria/workspace/git/FROGS/FROGS_master/test/res/15-phylo_composition.html', params=list(data='/home/maria/workspace/git/FROGS/FROGS_master/test/res/14-phylo_import.Rdata', varExp='EnvType',taxaRank1='Kingdom',taxaSet1='Bacteria',taxaRank2='Phylum',numberOfTaxa=9, libdir ='/home/maria/workspace/git/FROGS/FROGS_master/lib/external-lib'), intermediates_dir='/home/maria/workspace/git/FROGS/FROGS_master/test/res')" 2> /home/maria/workspace/git/FROGS/FROGS_master/test/res/1549620133.12_23979_rmarkdown.stderr

Execution:
	start: 08 Feb 2019 11:02:16
	end:   08 Feb 2019 11:02:29

## Application
Software :/home/maria/workspace/git/FROGS/FROGS_master/test/../app/r_composition.py (version : 3.1)
Command : /home/maria/workspace/git/FROGS/FROGS_master/test/../app/r_composition.py --varExp EnvType --taxaRank1 Kingdom --taxaSet1 Bacteria --taxaRank2 Phylum --numberOfTaxa 9 --rdata res/14-phylo_import.Rdata --html res/15-phylo_composition.html --log-file res/15-phylo_composition.log

########################################################################################################
# Run 1 code Rmarkdown (Rscript version : [1] "R version 3.4.4 (2018-03-15)"
[1] "Rmarkdown version:  1.10"
[1] "Phyloseq version:  1.19.1")
Command:
	Rscript -e "rmarkdown::render('/home/maria/workspace/git/FROGS/FROGS_master/app/r_composition.Rmd',output_file='/home/maria/workspace/git/FROGS/FROGS_master/test/res/15-phylo_composition.html', params=list(data='/home/maria/workspace/git/FROGS/FROGS_master/test/res/14-phylo_import.Rdata', varExp='EnvType',taxaRank1='Kingdom',taxaSet1='Bacteria',taxaRank2='Phylum',numberOfTaxa=9, libdir ='/home/maria/workspace/git/FROGS/FROGS_master/lib/external-lib'), intermediates_dir='/home/maria/workspace/git/FROGS/FROGS_master/test/res')" 2> /home/maria/workspace/git/FROGS/FROGS_master/test/res/1549623016.41_25441_rmarkdown.stderr

Execution:
	start: 08 Feb 2019 11:50:19
	end:   08 Feb 2019 11:50:31