view galaxy-tools/biobank/utils/gdoize_ms.xml @ 0:ba6cf6ede027 draft default tip

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<tool id="vl_tools_gdoize_ms" name="VLUTILS.gdoize_ms">
  <description>
    Build missing GDOs for the selected markers set
  </description>
  <requirements>
    <requirement type="package">py_protobuff_cpp</requirement>
  </requirements>
  <command interpreter="bash">
    launcher.sh
    --interpreter=python
    --runner=gdoize_ms
    --logfile=${logfile}
    #if str($mset_label) != 'select_one'
      --markers-set-label=$mset_label
    #end if
    #if str($study) != 'select_one'
      --study-label=$study
    #end if
    --host=$__user_omero_host__
    --user=$__user_omero_user__
    --passwd=$__user_omero_password__
  </command>
  <inputs>
    <param name="study" type="select" label="Context study" ajax = "True" ajax-source = "galaxy/get/studies" sort="True"
            help="Choose from the already defined studies. See below.">
		<option value="select_one" selected="true">Select a study</option>
    </param>

    <param name="mset_label" type="select" label="SNP Markers Set"  ajax = "True" ajax-source = "galaxy/get/snp_marker_sets" sort="True"
	   help="Choose one of the already defined SNP Markers set.">
      <option value="select_one" selected="true">Select a SNP markers set</option>
    </param>
    
    <!-- ************************************************** -->
  </inputs>

  <outputs>
    <data format="txt" name="logfile" label="${tool.name}.log"/>
  </outputs>

  <help>
Iterate over all genotype data samples corresponding to the given
marker set; create a GDO table row for each genotpye data sample that
does not already have one.
  </help>
</tool>