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<!DOCTYPE knimeNode PUBLIC "-//UNIKN//DTD KNIME Node 2.0//EN" "http://www.knime.org/Node.dtd">
<knimeNode icon="generic_node.png" type="Manipulator">
    <name>FeatureLinkerLabeled</name>
    
    <shortDescription>
        Groups corresponding isotope-labeled features in a feature map.
    </shortDescription>
    
    <fullDescription>
        <intro><p>Groups corresponding isotope-labeled features in a feature map.</p>
		<p>
			<a href="http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_FeatureLinkerLabeled.html">Web Documentation for FeatureLinkerLabeled</a>
		</p>

        </intro>
        
		<option name="version">Version of the tool that generated this parameters file.</option>
		<option name="log">Name of log file (created only when specified)</option>
		<option name="debug">Sets the debug level</option>
		<option name="threads">Sets the number of threads allowed to be used by the TOPP tool</option>
		<option name="no_progress">Disables progress logging to command line</option>
		<option name="force">Overwrite tool specific checks.</option>
		<option name="test">Enables the test mode (needed for internal use only)</option>
		<option name="rt_estimate">If 'true' the optimal RT pair distance and deviation are estimated by fitting a gaussian distribution to the histogram of pair distance. Note that this works only datasets with a significant amount of pairs! If 'false' the parameters 'rt_pair_dist', 'rt_dev_low' and 'rt_dev_high' define the optimal distance.</option>
		<option name="rt_pair_dist">optimal pair distance in RT [sec] from light to heavy feature</option>
		<option name="rt_dev_low">maximum allowed deviation below optimal retention time distance</option>
		<option name="rt_dev_high">maximum allowed deviation above optimal retention time distance</option>
		<option name="mz_pair_dists">optimal pair distances in m/z [Th] for features with charge +1 (adapted to +2, +3, .. by division through charge)</option>
		<option name="mz_dev">maximum allowed deviation from optimal m/z distance
</option>
		<option name="mrm">this option should be used if the features correspond mrm chromatograms (additionally the precursor is taken into account)</option>

    </fullDescription>
    
    <ports>
		<inPort index="0" name="in [featureXML]">Input file [featureXML]</inPort>
		<outPort index="0" name="out [consensusXML]">Output file [consensusXML]</outPort>
 </ports>
    <views>
        <view index="0" name="FeatureLinkerLabeled Std Output">The text sent to standard out during the execution of FeatureLinkerLabeled.</view>
        <view index="1" name="FeatureLinkerLabeled Error Output">The text sent to standard error during the execution of FeatureLinkerLabeled. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)</view>
    </views>    
</knimeNode>
