Mercurial > repos > jjohnson > defuse
comparison defuse.xml @ 12:4fe2e80d4ae1 draft
planemo upload for repository https://github.com/jj-umn/galaxytools/tree/master/defuse commit 0eb27e6896eacbb49a979fa4b34c31859e7fb1a8-dirty
author | jjohnson |
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date | Tue, 03 May 2016 15:18:11 -0400 |
parents | b22f8634ff84 |
children | 3a4876d01c7e |
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11:b22f8634ff84 | 12:4fe2e80d4ae1 |
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82 <param name="positive_controls" type="data" format="txt" optional=true label="Defuse positive_controls" help=""/> | 82 <param name="positive_controls" type="data" format="txt" optional=true label="Defuse positive_controls" help=""/> |
83 --> | 83 --> |
84 <param name="reads_per_job" type="integer" value="1000000" optional="true" label="Number of reads for each job in split" /> | 84 <param name="reads_per_job" type="integer" value="1000000" optional="true" label="Number of reads for each job in split" /> |
85 </when> <!-- full --> | 85 </when> <!-- full --> |
86 </conditional> <!-- defuse_param --> | 86 </conditional> <!-- defuse_param --> |
87 <param name="breakpoints_bam" type="boolean" checked="true" truevalue="yes" falsevalue="no" label="Generate a Bam file for the fusions"/> | |
88 <param name="keep_output" type="boolean" checked="true" truevalue="yes" falsevalue="no" label="Save DeFuse working directory files" | 87 <param name="keep_output" type="boolean" checked="true" truevalue="yes" falsevalue="no" label="Save DeFuse working directory files" |
89 help="The defuse output working directory can be helpful for determining errors that may have occurred during the run, | 88 help="The defuse output working directory can be helpful for determining errors that may have occurred during the run, |
90 but they require considerable diskspace, and should be deleted and purged when no longer needed."/> | 89 but they require considerable diskspace, and should be deleted and purged when no longer needed."/> |
90 <param name="breakpoints_bam" type="boolean" checked="false" truevalue="yes" falsevalue="no" label="Generate a Bam file for the fusions"/> | |
91 <param name="do_get_reads" type="boolean" checked="false" truevalue="yes" falsevalue="no" label="Run get_reads on each cluster"/> | 91 <param name="do_get_reads" type="boolean" checked="false" truevalue="yes" falsevalue="no" label="Run get_reads on each cluster"/> |
92 </inputs> | 92 </inputs> |
93 <stdio> | 93 <stdio> |
94 <exit_code range="1:" level="fatal" description="Error Running Defuse" /> | 94 <exit_code range="1:" level="fatal" description="Error Running Defuse" /> |
95 </stdio> | 95 </stdio> |