Mercurial > repos > diego > rtg_investigator
view tools/rtg/cgsim.xml @ 1:8593828f91e7 default tip
Full galaxy wrapper
author | diego |
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date | Sat, 21 Apr 2012 21:36:15 -0400 |
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<tool id="rtg_cgsim" name="Simulate CG reads"> <description>with RTG cgsim</description> <command interpreter="bash">galaxy-rtg-wrapper.sh cgsim -t ${input.extra_files_path} #if $limit.sType == "numreads": -n $limit.n #else -c $limit.c #end if -m $m -M $M --seed $seed -o ${output.extra_files_path} >$output</command> <inputs> <param name="input" type="data" format="rtg_sdf" label="Source SDF"/> <param name="m" type="integer" value="350" label="Minimum fragment length" help=""/> <param name="M" type="integer" value="500" label="Maximum fragment length" help=""/> <conditional name="limit"> <param name="sType" type="select" label="Select read limit"> <option value="numreads">Fixed number of reads</option> <option value="coverage">Fixed coverage</option> </param> <when value="numreads"> <param name="n" type="integer" value="1000" label="Number of reads" help="Total number of reads"/> </when> <when value="coverage"> <param name="c" type="float" value="1" label="Coverage" help="Total coverage"/> </when> </conditional> <param name="seed" type="integer" label="Seed" value="42" help="Seed for the random number generator"/> </inputs> <outputs> <data format="rtg_sdf" name="output" /> </outputs> <help> This tool creates an SDF containing randomly generated CG reads. </help> </tool>