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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <tool id="SpectraFilterWindowMower" name="SpectraFilterWindowMower" version="2.0.0">
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3 <description>Applies thresholdfilter to peak spectra.</description>
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4 <macros>
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5 <token name="@EXECUTABLE@">SpectraFilterWindowMower</token>
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6 <import>macros.xml</import>
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7 </macros>
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8 <expand macro="stdio"/>
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9 <expand macro="requirements"/>
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10 <command>SpectraFilterWindowMower
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11
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12 #if $param_in:
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13 -in $param_in
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14 #end if
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15 #if $param_out:
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16 -out $param_out
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17 #end if
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18 -threads \${GALAXY_SLOTS:-24}
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19 #if $param_algorithm_windowsize:
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20 -algorithm:windowsize $param_algorithm_windowsize
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21 #end if
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22 #if $param_algorithm_peakcount:
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23 -algorithm:peakcount $param_algorithm_peakcount
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24 #end if
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25 #if $param_algorithm_movetype:
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26 -algorithm:movetype
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27 #if " " in str($param_algorithm_movetype):
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28 "$param_algorithm_movetype"
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29 #else
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30 $param_algorithm_movetype
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31 #end if
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32 #end if
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33 #if $adv_opts.adv_opts_selector=='advanced':
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34 #if $adv_opts.param_force:
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35 -force
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36 #end if
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37 #end if
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38 </command>
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39 <inputs>
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40 <param name="param_in" type="data" format="mzml" optional="False" label="input file" help="(-in) "/>
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41 <param name="param_algorithm_windowsize" type="float" value="50.0" label="The size of the sliding window along the m/z axis" help="(-windowsize) "/>
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42 <param name="param_algorithm_peakcount" type="integer" value="2" label="The number of peaks that should be kept" help="(-peakcount) "/>
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43 <param name="param_algorithm_movetype" type="select" optional="True" value="slide" label="Whether sliding window (one peak steps) or jumping window (window size steps) should be used" help="(-movetype) ">
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44 <option value="slide">slide</option>
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45 <option value="jump">jump</option>
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46 </param>
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47 <expand macro="advanced_options">
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48 <param name="param_force" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
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49 </expand>
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50 </inputs>
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51 <outputs>
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52 <data name="param_out" format="mzml"/>
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53 </outputs>
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54 <help>**What it does**
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55
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56 Applies thresholdfilter to peak spectra.
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57
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58
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59 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_SpectraFilterWindowMower.html</help>
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60 <expand macro="references"/>
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61 </tool>
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