Mercurial > repos > galaxyp > openms_mzmlsplitter

annotate MzMLSplitter.xml @ 1:91c81530303d draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 9a14ed1f2d3c9abdfb080251b3419dd9e0c52a14
author galaxyp
date Wed, 09 Aug 2017 09:29:01 -0400
parents 60b83eb38cd4
children 6caab3e848d2
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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
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3 <!--Proposed Tool Section: [Utilities]-->
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4 <tool id="MzMLSplitter" name="MzMLSplitter" version="2.2.0.1">
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5 <description>Splits an mzML file into multiple parts</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">MzMLSplitter</token>
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8 <import>macros.xml</import>
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9 </macros>
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10 <expand macro="references"/>
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11 <expand macro="stdio"/>
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12 <expand macro="requirements"/>
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13 <command>MzMLSplitter
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14
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15 #if $param_in:
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16 -in $param_in
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17 #end if
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18 #if $param_out:
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19 -out "$param_out"
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20 #end if
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21 #if $param_parts:
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22 -parts $param_parts
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23 #end if
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24 #if $param_size:
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25 -size $param_size
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26 #end if
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27 #if $param_unit:
1
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28 -unit
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29 #if " " in str($param_unit):
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30 "$param_unit"
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31 #else
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32 $param_unit
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33 #end if
0
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34 #end if
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35 #if $param_no_chrom:
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36 -no_chrom
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37 #end if
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38 #if $param_no_spec:
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39 -no_spec
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40 #end if
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41 #if $adv_opts.adv_opts_selector=='advanced':
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42 #if $adv_opts.param_force:
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43 -force
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44 #end if
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45 #end if
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46 &gt; $param_stdout
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47 </command>
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48 <inputs>
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49 <param name="param_in" type="data" format="mzml" optional="False" label="Input file" help="(-in) "/>
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50 <param name="param_out" type="text" size="30" label="Prefix for output files ('_part1of2.mzML' etc" help="(-out) will be appended; default: same as 'in' without the file extension)">
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51 <sanitizer>
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52 <valid initial="string.printable">
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53 <remove value="'"/>
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54 <remove value="&quot;"/>
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55 </valid>
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56 </sanitizer>
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57 </param>
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58 <param name="param_parts" type="integer" min="1" optional="True" value="1" label="Number of parts to split into (takes precedence over 'size' if set)" help="(-parts) "/>
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59 <param name="param_size" type="integer" min="0" optional="True" value="0" label="Approximate upper limit for resulting file sizes (in 'unit')" help="(-size) "/>
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60 <param name="param_unit" display="radio" type="select" optional="False" value="MB" label="Unit for 'size' (base 1024)" help="(-unit) ">
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61 <option value="KB">KB</option>
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62 <option value="MB" selected="true">MB</option>
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63 <option value="GB">GB</option>
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64 </param>
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65 <param name="param_no_chrom" display="radio" type="boolean" truevalue="-no_chrom" falsevalue="" checked="false" optional="True" label="Remove chromatograms, keep only spectra" help="(-no_chrom) "/>
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66 <param name="param_no_spec" display="radio" type="boolean" truevalue="-no_spec" falsevalue="" checked="false" optional="True" label="Remove spectra, keep only chromatograms" help="(-no_spec) "/>
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67 <expand macro="advanced_options">
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68 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
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69 </expand>
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70 </inputs>
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71 <outputs>
1
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72 <data name="param_stdout" format="txt" label="Output from stdout"/>
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73 </outputs>
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74 <help>Splits an mzML file into multiple parts
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75
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76
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77 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_MzMLSplitter.html</help>
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78 </tool>