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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/itsx.py (version : 3.1)
Command : /home/maria/workspace/git/FROGS/FROGS_master/test/../app/itsx.py --input-fasta res/04-filters.fasta --input-biom res/04-filters.biom --region ITS1 --nb-cpus 4 --out-abundance res/05-itsx.biom --summary res/05-itsx.html --log-file res/05-itsx.log --out-fasta res/05-itsx.fasta --out-removed res/05-itsx-excluded.tsv

########################################################################################################
# identifies ITS sequences and extracts the ITS region (parallelITSx.py version : 1.0.0 [ITSx 1.0.11])
Command:
	parallelITSx.py  -f res/04-filters.fasta -b res/04-filters.biom --nb-cpus 4 --its ITS1 -o res/05-itsx.fasta -m res/05-itsx-excluded.tsv -a res/05-itsx.biom --log-file res/1550052843.84_3916_ITSx.log

Execution:
	start: 13 Feb 2019 11:14:03
	end:   13 Feb 2019 11:14:15

Results:

# split res/04-filters.fasta in 3 fasta files
Results
	Wrote 29 records to res/1550052844.03_3921_04-filters.fasta_0
	Wrote 29 records to res/1550052844.03_3921_04-filters.fasta_1
	Wrote 28 records to res/1550052844.03_3921_04-filters.fasta_2

## Input file : 1550052844.03_3921_04-filters.fasta_0
## in working directory: res/1550052844.03_3921_1550052844.03_3921_04-filters.fasta_0
## ITSx command: ITSx -i /home/maria/workspace/git/FROGS/FROGS_master/test/res/1550052844.03_3921_04-filters.fasta_0 -o 1550052844.03_3921_04-filters --preserve T -t F --save_regions all
##Results
	nb full (removed): 0
	nb no_detections (removed): 0
	nb SSU (removed): 0
	nb ITS2 (removed): 0
	nb ITS1 (kept): 29
	nb LSU (removed): 0
	nb 5_8S (removed): 0

## Input file : 1550052844.03_3921_04-filters.fasta_1
## in working directory: res/1550052844.03_3921_1550052844.03_3921_04-filters.fasta_1
## ITSx command: ITSx -i /home/maria/workspace/git/FROGS/FROGS_master/test/res/1550052844.03_3921_04-filters.fasta_1 -o 1550052844.03_3921_04-filters --preserve T -t F --save_regions all
##Results
	nb full (removed): 0
	nb no_detections (removed): 0
	nb SSU (removed): 0
	nb ITS2 (removed): 0
	nb ITS1 (kept): 29
	nb LSU (removed): 0
	nb 5_8S (removed): 0

## Input file : 1550052844.03_3921_04-filters.fasta_2
## in working directory: res/1550052844.03_3921_1550052844.03_3921_04-filters.fasta_2
## ITSx command: ITSx -i /home/maria/workspace/git/FROGS/FROGS_master/test/res/1550052844.03_3921_04-filters.fasta_2 -o 1550052844.03_3921_04-filters --preserve T -t F --save_regions all
##Results
	nb full (removed): 0
	nb no_detections (removed): 0
	nb SSU (removed): 0
	nb ITS2 (removed): 0
	nb ITS1 (kept): 28
	nb LSU (removed): 0
	nb 5_8S (removed): 0


## Removes the observations after ITSx.