Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_lefse/mothur_make_lefse/1.39.5.0 (this tool) |
toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_lefse/mothur_make_lefse/1.36.1.0 |
mothur_make_lefse |
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 '$otu' otu.dat && ln -s '$design' design.dat && ln -s '$constaxonomy' constaxonomy.dat && echo 'make.lefse( #if $otu.is_of_type("mothur.relabund"): relabund=otu.dat, #else shared=otu.dat, #end if #if $design: design=design.dat, #end if #if $constaxonomy: constaxonomy=constaxonomy.dat, #end if #if $label: label=${ str($label).replace(",","-") }, #end if scale=$scale )' | sed 's/ //g' ## mothur trips over whitespace | mothur | tee mothur.out.log
Functional tests |
name | inputs | outputs | required files |
Test-1 |
otu: amazon.an.shared savelog: True |
name: value name: value |
amazon.an.shared value |
Test-2 |
otu: amazon.an.relabund label: 0.18 design: toymothur.design2 savelog: True |
name: value name: value |
amazon.an.relabund toymothur.design2 value |