Mercurial > repos > diego > rtg_investigator
diff tools/rtg/mapx.xml @ 1:8593828f91e7 default tip
Full galaxy wrapper
author | diego |
---|---|
date | Sat, 21 Apr 2012 21:36:15 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tools/rtg/mapx.xml Sat Apr 21 21:36:15 2012 -0400 @@ -0,0 +1,29 @@ +<tool id="rtg_mapx" name="MapX"> + <description>protein reads with rtg mapx</description> + <command interpreter="bash">galaxy-rtg-mapx-wrapper.sh $output1 $__new_file_path__ +mapx -t ${template.extra_files_path} +--repeat-freq ${repeat} +-i ${reads.extra_files_path} +--max-alignment-score $maxscore +</command> + <inputs> + <param name="template" type="data" format="rtg_sdf" label="Reference SDF"/> + <param name="reads" type="data" format="rtg_sdf" label="Reads SDF"/> + <param name="repeat" type="text" value="90%" label="Repeat frequency"> + <sanitizer sanitize="False"/> + </param> + + <param name="maxscore" type="text" value="10%" label="Maximum alignment score for reads (percentages do not work ATM)"> + <sanitizer sanitize="False"/> + </param> + + </inputs> + <outputs> + <data name="output1" format="tabular" /> + </outputs> + + <help> +This tool performs a NGS protein read mapping using rtg mapx + </help> + +</tool>