Repository revision
9:618bf5d295e7

Repository 'mothur_split_groups'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/mothur_split_groups

Split.groups tool metadata
Miscellaneous
Split.groups
Generates a fasta file for each group
mothur_split_groups
toolshed.g2.bx.psu.edu/repos/iuc/mothur_split_groups/mothur_split_groups/1.39.5.0
1.39.5.0
mothur "#help()" | sed '7q;d' | cut -d" " -f2
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/iuc/mothur_split_groups/mothur_split_groups/1.39.5.0 (this tool)
toolshed.g2.bx.psu.edu/repos/iuc/mothur_split_groups/mothur_split_groups/1.36.1.0
mothur_split_groups
Requirements (dependencies defined in the <requirements> tag set)
name version type
mothur 1.39.5 package
Additional information about this tool
set -o pipefail; export TERM=vt100; 

## create symlinks to input datasets
ln -s '$name' name.dat &&
ln -s '$count' count.dat &&
ln -s '$fasta' fasta.dat &&
ln -s '$group' group.dat &&

echo 'split.groups(
    #if $name:
        name=name.dat,
    #end if
    #if $groups:
        groups=${ str($groups).replace(",","-") },
    #end if
    #if $count:
        count=count.dat,
    #end if
    fasta=fasta.dat,
    group=group.dat
)'
| sed 's/ //g'  ## mothur trips over whitespace
| mothur
| tee mothur.out.log
    
None
False
Functional tests
name inputs outputs required files
Test-1 fasta: amazon.fasta
group: amazon.groups
savelog: True
name: value
amazon.fasta
amazon.groups
value