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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/tree.py (version : 3.1)
Command : /home/maria/workspace/git/FROGS/FROGS_master/test/../app/tree.py --nb-cpus 4 --input-otu res/04-filters.fasta --biomfile res/06-affiliation.biom --out-tree res/13-tree-mafft.nwk --html res/13-tree-mafft.html --log-file res/13-tree-mafft.log

Number of input OTUs sequences: 86

########################################################################################################
# Mafft multiple alignment. (mafft version : v7.407)
Command:
	mafft --maxiterate 1000 --globalpair --thread 4 res/04-filters.fasta > res/1550052877.76_4235_mafft_aligned.fasta 2> res/1550052877.76_4235_mafft.stderr

Execution:
	start: 13 Feb 2019 11:14:37
	end:   13 Feb 2019 11:15:14

########################################################################################################
# reconstruction a phylogenetic tree (FastTree version : 2.1.10)
Command:
	FastTree -nt -gtr res/1550052877.76_4235_mafft_aligned.fasta > res/1550052877.76_4235_fasttree.nwk 2> res/1550052877.76_4235_fasttree.stderr

Execution:
	start: 13 Feb 2019 11:15:14
	end:   13 Feb 2019 11:15:19

########################################################################################################
# root newick tree with phangorn R package midpoint function. (root_tree.R version : 1.0.0)
Command:
	root_tree.R res/1550052877.76_4235_fasttree.nwk res/13-tree-mafft.nwk

Execution:
	start: 13 Feb 2019 11:15:23
	end:   13 Feb 2019 11:15:25