| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_otulabels/mothur_remove_otulabels/1.39.5.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_otulabels/mothur_remove_otulabels/1.36.1.0 |
| mothur_remove_otulabels |
| 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 '$infile.otu' infile.otu.dat &&
ln -s '$accnos' accnos.dat &&
echo 'remove.otulabels(
#if $infile.otu.is_of_type("mothur.cons.taxonomy"):
constaxonomy=infile.otu.data,
#end if
#if $infile.otu.is_of_type("mothur.otu.corr"):
otucorr=infile.otu.dat,
#end if
#if $infile.otu.is_of_type("mothur.axes"):
corraxes=infile.otu.dat,
#end if
#if $infile.otu.is_of_type("mothur.list"):
list=infile.otu.dat,
#end if
#if $infile.otu.is_of_type("mothur.shared"):
shared=infile.otu.dat,
#end if
#if $infile.intype == "in_shared" and $infile.label:
label=${ str($infile.label).replace(",","-") },
#end if
accnos=accnos.dat
)'
| sed 's/ //g' ## mothur trips over whitespace
| mothur
| tee mothur.out.log
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
accnos: amazon.accnos.otulabels infile|otu: amazon.an.list infile|label: 0.22 infile|intype: in_shared savelog: True |
name: value name: value |
amazon.accnos.otulabels amazon.an.list value |
| Test-2 |
accnos: amazon.accnos.otulabels infile|otu: amazon.pcoa.axes infile|intype: in_other savelog: True |
name: value name: value |
amazon.accnos.otulabels amazon.pcoa.axes value |