| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_venn/mothur_venn/1.39.5.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_venn/mothur_venn/1.36.1.0 |
| mothur_venn |
| 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 '$input.otu' input_otu.dat &&
echo 'venn(
#if $input.source == "shared":
shared=input_otu.dat,
nseqs=$nseqs,
permute=$permute,
#if $input.groups:
groups=${ str($input.groups).replace(",","-") },
#end if
#elif $input.source == "similarity":
list=input_otu.dat,
abund=$input.abund,
#end if
#if $input.label:
label=${ str($input.label).replace(",","-") },
#end if
#if $input.calc:
calc=${ str($input.calc).replace(",","-") },
#end if
fontsize=$fontsize,
sharedotus=$sharedotus
)'
| sed 's/ //g' ## mothur trips over whitespace
| mothur
| tee mothur.out.log
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input|otu: amazon.an.shared input|calc: ['sharedsobs', 'sharedchao'] input|groups: ['forest', 'pasture'] input|source: shared savelog: True |
name: value |
amazon.an.shared value |
| Test-2 |
input|otu: amazon.an.list input|calc: ['sobs', 'chao', 'ace'] input|source: similarity savelog: True |
name: value |
amazon.an.list value |