annotate QCImporter.xml @ 7:0798f2fa6c1f draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5

<?xml version='1.0' encoding='UTF-8'?>
<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
<!--Proposed Tool Section: [Utilities]-->
<tool id="QCImporter" name="QCImporter" version="2.3.0">
  <description>Imports tables with quality control parameters into qcml files.</description>
  <macros>
    <token name="@EXECUTABLE@">QCImporter</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="references"/>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command detect_errors="aggressive"><![CDATA[QCImporter

#if $param_in:
  -in $param_in
#end if
#if $param_table:
  -table $param_table
#end if
#if $param_mapping:
  -mapping $param_mapping
#end if
#if $param_out:
  -out $param_out
#end if
#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_force:
  -force
#end if
#end if
]]></command>
  <inputs>
    <param name="param_in" type="data" format="qcml" optional="True" label="Input qcml file" help="(-in) "/>
    <param name="param_table" type="data" format="tabular" optional="False" label="The table containing the additional qp values in the columns" help="(-table) First row is considered containing the header. The target run or set names/ids are indicated by column &quot;raw data file&quot;, so each row after the header will contain the values of qps for that run. (csv without &quot;!)"/>
    <param name="param_mapping" type="data" format="tabular" optional="False" label="The mapping of the table header to the according qp cvs, also in csv format" help="(-mapping) The first row is considered containing the headers as in the table. The second row is considered the according qp cv accessions. (csv without &quot;!)"/>
    <expand macro="advanced_options">
      <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
    </expand>
  </inputs>
  <outputs>
    <data name="param_out" format="qcml"/>
  </outputs>
  <help>Imports tables with quality control parameters into qcml files.


For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_QCImporter.html</help>
</tool>