<?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 CTD2Galaxy.-->
  <!--Proposed Tool Section: [Signal processing and preprocessing]-->
  <tool id="NoiseFilterGaussian" name="NoiseFilterGaussian" version="2.0.0">
    <description>Removes noise from profile spectra by using Gaussian filter (on uniform as well as non-uniform data).</description>
    <macros>
      <token name="@EXECUTABLE@">NoiseFilterGaussian</token>
      <import>macros.xml</import>
    </macros>
    <expand macro="references"/>
    <expand macro="stdio"/>
    <expand macro="requirements"/>
    <command>NoiseFilterGaussian

#if $param_in:
  -in $param_in
#end if
#if $param_out:
  -out $param_out
#end if
-threads \${GALAXY_SLOTS:-24}
#if $param_algorithm_gaussian_width:
  -algorithm:gaussian_width $param_algorithm_gaussian_width
#end if
#if $param_algorithm_ppm_tolerance:
  -algorithm:ppm_tolerance $param_algorithm_ppm_tolerance
#end if
#if $param_algorithm_use_ppm_tolerance:
  -algorithm:use_ppm_tolerance
#end if
#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_processOption:
  -processOption
  #if &quot; &quot; in str($adv_opts.param_processOption):
    &quot;$adv_opts.param_processOption&quot;
  #else
    $adv_opts.param_processOption
  #end if
#end if
    #if $adv_opts.param_force:
  -force
#end if
#end if
</command>
    <inputs>
      <param format="mzml" help="(-in) " label="input raw data file" name="param_in" optional="False" type="data"/>
      <param help="(-gaussian_width) " label="Use a gaussian filter width which has approximately the same width as your mass peaks (FWHM in m/z)" name="param_algorithm_gaussian_width" type="float" value="0.2"/>
      <param help="(-ppm_tolerance) &lt;br&gt;The higher the value, the wider the peak and therefore the wider the gaussian" label="Gaussian width, depending on the m/z position" name="param_algorithm_ppm_tolerance" type="float" value="10.0"/>
      <param checked="false" falsevalue="" help="(-use_ppm_tolerance) The gaussian is calculated in each step anew, so this is much slower" label="If true, instead of the gaussian_width value, the ppm_tolerance is used" name="param_algorithm_use_ppm_tolerance" optional="True" truevalue="-algorithm:use_ppm_tolerance" type="boolean"/>
      <expand macro="advanced_options">
        <param help="(-processOption) " label="Whether to load all data and process them in-memory or whether to process the data on the fly (lowmemory) without loading the whole file into memory first" name="param_processOption" optional="True" type="select" value="inmemory">
          <option value="inmemory">inmemory</option>
          <option value="lowmemory">lowmemory</option>
        </param>
        <param checked="false" falsevalue="" help="(-force) " label="Overwrite tool specific checks" name="param_force" optional="True" truevalue="-force" type="boolean"/>
      </expand>
    </inputs>
    <outputs>
      <data format="mzml" name="param_out"/>
    </outputs>
    <help>Removes noise from profile spectra by using Gaussian filter (on uniform as well as non-uniform data).


For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_NoiseFilterGaussian.html</help>
  </tool>