Miscellaneous |
Version lineage of this tool (guids ordered most recent to oldest) |
toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.39.5.0 (this tool) |
toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.36.1.0 |
mothur_count_seqs |
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 '$name' name.dat && #if $grouping.use == "yes": ln -s '$grouping.group' grouping.group.dat && #end if echo 'count.seqs( #if $grouping.use == "yes": group=grouping.group.dat, #if $grouping.groups: groups=${ str($grouping.groups).replace(",","-") }, #end if #end if name=name.dat )' | sed 's/ //g' ## mothur trips over whitespace | mothur | tee mothur.out.log
Functional tests |
name | inputs | outputs | required files |
Test-1 |
name: amazon.names savelog: True |
name: value name: value |
amazon.names value |
Test-2 |
name: amazon.names grouping|group: amazon.groups grouping|use: yes savelog: True |
name: value name: value |
amazon.names amazon.groups value |
Test-3 |
name: amazon.names grouping|group: amazon.groups grouping|groups: pasture grouping|use: yes savelog: True |
name: value name: value |
amazon.names amazon.groups value |
Test-4 |
name: amazon.names grouping|group: amazon.groups grouping|groups: ['pasture', 'forest'] grouping|use: yes savelog: True |
name: value name: value |
amazon.names amazon.groups value |