| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_corr_axes/mothur_corr_axes/1.39.5.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_corr_axes/mothur_corr_axes/1.36.1.0 |
| mothur_corr_axes |
| 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
#if $input.source == "shared":
ln -s '$input.otu' input.otu.dat &&
#else
ln -s '$input.metadata' input.metadata.dat &&
#end if
echo 'corr.axes(
#if $input.source == "shared":
#if $input.otu.is_of_type("mothur.relabund"):
relabund=input.otu.dat,
#elif $input.otu.is_of_type("mothur.shared"):
shared=input.otu.dat,
#end if
#if $input.label:
label=$input.label,
#end if
#if $input.groups:
groups=${ str($input.groups).replace(",","-") },
#end if
#else:
metadata=input.metadata.dat,
#end if
method=$method,
axes=$axes,
numaxes=$numaxes
)'
| sed 's/ //g' ## mothur trips over whitespace
| mothur
| tee mothur.out.log
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
axes: amazon.square.pcoa.axes input|otu: amazon.an.shared input|source: shared savelog: True |
name: value name: value |
amazon.square.pcoa.axes amazon.an.shared value |
| Test-2 |
axes: amazon.square.pcoa.axes input|metadata: amazon.metadata input|source: metadata savelog: True |
name: value name: value |
amazon.square.pcoa.axes amazon.metadata value |
| Test-3 |
axes: amazon.square.pcoa.axes input|otu: amazon.an.relabund input|label: 0.05 input|groups: ['forest', 'pasture'] input|source: shared savelog: True |
name: value name: value |
amazon.square.pcoa.axes amazon.an.relabund value |