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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>ConvertTSVToTraML</name>
    
    <shortDescription>
        Converts an OpenSWATH transition TSV file to a TraML file
    </shortDescription>
    
    <fullDescription>
        <intro><p>Converts an OpenSWATH transition TSV file to a TraML file</p>
		<p>
			<a href="http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_ConvertTSVToTraML.html">Web Documentation for ConvertTSVToTraML</a>
		</p>

        </intro>
        
		<option name="version">Version of the tool that generated this parameters file.</option>
		<option name="in_type">input file type -- default: determined from file extension or content
</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="retentionTimeInterpretation">How to interpret the provided retention time (the retention time column can either be interpreted to be in iRT, minutes or seconds)</option>
		<option name="override_group_label_check">Override an internal check that assures that all members of the same PeptideGroupLabel have the same PeptideSequence (this ensures that only different isotopic forms of the same peptide can be grouped together in the same label group). Only turn this off if you know what you are doing.</option>

    </fullDescription>
    
    <ports>
		<inPort index="0" name="in [tsv,csv,mrm]">Input OpenSWATH transition TSV file or SpectraST MRM file.#br# See http://www.openms.de/current_doxygen/html/UTILS_ConvertTSVToTraML.html for format. [tsv,csv,mrm]</inPort>
		<outPort index="0" name="out [TraML]">Output TraML file [TraML]</outPort>
 </ports>
    <views>
        <view index="0" name="ConvertTSVToTraML Std Output">The text sent to standard out during the execution of ConvertTSVToTraML.</view>
        <view index="1" name="ConvertTSVToTraML Error Output">The text sent to standard error during the execution of ConvertTSVToTraML. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)</view>
    </views>    
</knimeNode>
