| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_phylotype/mothur_phylotype/1.39.5.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_phylotype/mothur_phylotype/1.36.1.0 |
| mothur_phylotype |
| 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 '$taxonomy' taxonomy.dat &&
ln -s '$name' name.dat &&
echo 'phylotype(
taxonomy=taxonomy.dat
#if $cutoff:
,cutoff=$cutoff
#end if
#if $name:
,name=name.dat
#end if
#if $label:
,label=${ str($label).replace(",","-") }
#end if
)'
| sed 's/ //g' ## mothur trips over whitespace
| mothur
| tee mothur.out.log
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
taxonomy: abrecovery.pds.wang.taxonomy savelog: True |
name: value name: value name: value name: value |
abrecovery.pds.wang.taxonomy value |
| Test-2 |
taxonomy: abrecovery.pds.wang.taxonomy label: ['1', '4', '5'] cutoff: 5 savelog: True |
name: value name: value name: value name: value |
abrecovery.pds.wang.taxonomy value |