comparison mergeMutationDatasets.xml @ 20:914bc8ee6222

Debugged the merge mutation data tool

19:371579dd9bc6

<tool id="mergeMutationDatasets" description="Merge two mutation datasets into a new dataset" name="mergeMutationData" version="0.0.1">
  <description>
    Given two mutation datasets, merge them to create a larger dataset with the mutations from both datasets. Output this larger dataset, along with a 2-column matrix indicating the source of each mutation
  </description>
  <command interpreter="python">
      mergeXenaMutation.py $outputC $outputSourceMatrix $errorLog  $inputA $inputB 

    <param type="text" name="labelForDatasetA"  label="Dataset A Label (optional)" optional="true"/>
    <param name="inputB" format="tabular" type="data" label="Mutation Dataset B"/> 
    <param type="text" name="labelForDatasetB"  label="Dataset B Label (optional)" optional="true"/>
 </inputs>
  <outputs>
    <data name="outputC" format="tabular" label="Merged Mutation Data"/>
    <data name="outputSourceMatrix" format="tabular" label="Mutation Data Sources"/> 
    <data name="errorLog" format="data" label="Execution Log"/>
  </outputs>
  <help>
    ***Merge Xena Mutation Datasets***

    Given two datasets of mutation data as formatted for the UCSC Xena Browser, merge them to produce a third dataset that is the union of the first two.  The new dataset will contain all mutations from either dataset. 

20:914bc8ee6222

<tool id="mergeMutationDatasets" description="Merge two mutation datasets into a new dataset" name="Merge Mutation Data" version="0.0.1">
  <description>
    Given two mutation datasets, merge them to create a larger dataset with the mutations from both datasets. Output this larger dataset, along with a 2-column matrix indicating the source of each mutation
  </description>
  <command interpreter="python">
      mergeXenaMutation.py $outputC $outputSourceMatrix $errorLog  $inputA $inputB 

    <param type="text" name="labelForDatasetA"  label="Dataset A Label (optional)" optional="true"/>
    <param name="inputB" format="tabular" type="data" label="Mutation Dataset B"/> 
    <param type="text" name="labelForDatasetB"  label="Dataset B Label (optional)" optional="true"/>
 </inputs>
  <outputs>
    <data name="errorLog" format="data" label="Execution Log"/>
    <data name="outputSourceMatrix" format="tabular" label="Mutation Data Sources"/> 
    <data name="outputC" format="tabular" label="Merged Mutation Data"/>
  </outputs>
  <help>
    ***Merge Xena Mutation Datasets***

    Given two datasets of mutation data as formatted for the UCSC Xena Browser, merge them to produce a third dataset that is the union of the first two.  The new dataset will contain all mutations from either dataset.