Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_rabund/mothur_get_rabund/1.39.5.0 (this tool) |
toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_rabund/mothur_get_rabund/1.36.1.0 |
mothur_get_rabund |
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 '$count' count.dat && ln -s '$otu' otu.dat && echo 'get.rabund( #if $label: label=${ str($label).replace(",","-") }, #end if #if $count: count=count.dat, #end if #if $otu.is_of_type("mothur.list"): list=otu.dat, #elif $otu.is_of_type("mothur.sabund"): sabund=otu.dat, #end if sorted=$sorted )' | sed 's/ //g' ## mothur trips over whitespace | mothur | tee mothur.out.log
Functional tests |
name | inputs | outputs | required files |
Test-1 |
otu: amazon.an.sabund label: ['0.03', '0.05'] savelog: True |
name: value name: value |
amazon.an.sabund value |
Test-2 |
otu: amazon.an.list savelog: True |
name: value name: value |
amazon.an.list value |