| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_shhh_flows/mothur_shhh_flows/1.39.5.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/mothur_shhh_flows/mothur_shhh_flows/1.36.1.0 |
| mothur_shhh_flows |
| 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 '$flow' flow.dat &&
ln -s '$prob.lookup' lookup.dat &&
## Mothur can't handle scientific notation (i.e. 1e-6)
#set mindelta_decimal = "{:.12f}".format(float($mindelta))
echo 'shhh.flows(
flow=flow.dat,
lookup=lookup.dat,
maxiter=$maxiter,
mindelta=$mindelta_decimal,
cutoff=$cutoff,
sigma=$sigma,
order=$order,
large=$large,
processors='\${GALAXY_SLOTS:-8}'
)'
| sed 's/ //g' ## mothur trips over whitespace
| mothur
| tee mothur.out.log
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
flow: mock.flow prob|lookup: LookUp_Titanium.pat prob|source: hist savelog: True |
name: value name: value name: value name: value name: value name: value |
mock.flow LookUp_Titanium.pat value |