comparison msconvert.xml.template @ 3:7e41529ee90c

added repo and tool dependencies

2:50e30fb68be2

  <!-- BEGIN_VERSION_DEFAULT -->
  <description>Convert and filter a mass spec peak list</description>
  <!-- END_VERSION_DEFAULT -->

  <command interpreter="python">
    msconvert_wrapper.py 
    --input=${input}
    #if hasattr($input, 'display_name')
    --input_name='${input.display_name}'
    #end if
    --output=${output} 
    ## BEGIN_VERSION_DEFAULT    
    --fromextension=${input.ext} 
    ## END_VERSION_DEFAULT

    ## BEGIN_VERSION_RAW
    --fromextension=RAW
    ## END_VERSION_RAW

    </data>
  </outputs>

  <requirements>
    <requirement type="package">proteowizard</requirement>    
  </requirements>

  <help>
**What it does**

3:7e41529ee90c

  <!-- BEGIN_VERSION_DEFAULT -->
  <description>Convert and filter a mass spec peak list</description>
  <!-- END_VERSION_DEFAULT -->

  <command interpreter="python">
    #set $ext = $input.ext
    #if $ext.startswith("m:")
    #set $ext = $ext[len("m:"):]
    #end if
    msconvert_wrapper.py 
    --input=${input}
    #if hasattr($input, 'display_name')
    --input_name='${input.display_name}'
    #end if
    --output=${output} 
    ## BEGIN_VERSION_DEFAULT    
    --fromextension=$ext
    ## END_VERSION_DEFAULT

    ## BEGIN_VERSION_RAW
    --fromextension=RAW
    ## END_VERSION_RAW

    </data>
  </outputs>

  <requirements>
    <requirement type="package">proteowizard</requirement>    
    <!-- BEGIN_VERSION_RAW -->
    <requirement type="platform">windows</requirement>
    <!-- END_VERSION_RAW -->    
  </requirements>

  <help>
**What it does**