| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_libshuff/mothur_libshuff/1.39.5.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_libshuff/mothur_libshuff/1.36.1.0 |
| mothur_libshuff |
| 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 '$dist' dist.dat &&
ln -s '$group' group.dat &&
echo 'libshuff(
phylip=dist.dat,
group=group.dat,
#if $groups:
groups=${ str($groups).replace(",","-") },
#end if
sim=$sim,
#if $form.form2 == "discrete":
step=$form.step,
#if $form.cutoff:
cutoff=$form.cutoff,
#end if
#end if
iters=$iters
)'
| sed 's/ //g' ## mothur trips over whitespace
| mothur
| tee mothur.out.log
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
dist: amazon.dist group: amazon.groups savelog: True |
name: value name: value name: value |
amazon.dist amazon.groups value |
| Test-2 |
dist: amazon.dist group: amazon.groups groups: ['forest', 'pasture'] form|step: 0.25 form|cutoff: 0.25 form|form2: discrete savelog: True |
name: value name: value name: value |
amazon.dist amazon.groups value |