| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/khmer_filter_abundance/khmer_filter_abundance/3.0.0a3+galaxy3 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/khmer_filter_abundance/khmer_filter_abundance/3.0.0a3+galaxy2 |
| toolshed.g2.bx.psu.edu/repos/iuc/khmer_filter_abundance/khmer_filter_abundance/3.0.0a3+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/khmer_filter_abundance/khmer_filter_abundance/3.0.0a1.0 |
| toolshed.g2.bx.psu.edu/repos/iuc/khmer_filter_abundance/khmer_filter_abundance/2.0.0 |
| khmer_filter_abundance |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| khmer | 3.0.0a3 | package |
| Additional information about this tool |
set -u &&
#import re
mkdir input/ &&
#set gzip=""
#for $num, $input in enumerate($inputs)
ln -s '${input}' 'input/$re.sub("[^\w\-_.]", "_", $input.element_identifier).$input.ext' &&
#if str($input).endswith(".gz"):
#set gzip="--gzip"
#end if
#end for
mkdir output && cd output &&
filter-abund.py
--cutoff=${cutoff}
${variable_coverage}
--threads "\${GALAXY_SLOTS:-4}"
${input_countgraph_filename}
#for $num, $input in enumerate($inputs)
'../input/$re.sub("[^\w\-_.]", "_", $input.element_identifier).$input.ext'
#end for
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
inputs: test-abund-read-2.fa input_countgraph_filename: test-abund-read-2.oxlicg |
test-abund-read-2.fa test-abund-read-2.oxlicg |
|
| Test-2 |
inputs: test-abund-read-2.fa cutoff: 1 input_countgraph_filename: test-abund-read-2.oxlicg |
test-abund-read-2.fa test-abund-read-2.oxlicg |