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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <tool id="PTPredict" name="PTPredict" version="1.12.0">
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3 <description>predicts the likelihood of peptides to be proteotypic via svm_model which is trained by PTModel</description>
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4 <macros>
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5 <token name="@EXECUTABLE@">PTPredict</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>PTPredict
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11
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12 -in ${param_in}
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13 -out ${param_out}
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14 -svm_model ${param_svm_model}
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15 -max_number_of_peptides ${param_max_number_of_peptides}
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16 -threads \${GALAXY_SLOTS:-24}
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17 </command>
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18 <inputs>
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19 <param name="param_in" type="data" format="idXML" optional="False" label="input file " help="(-in)"/>
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20 <param name="param_svm_model" type="data" format="txt" optional="False" label="svm model in libsvm format (can be produced by PTModel)" help="(-svm_model)"/>
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21 <param name="param_max_number_of_peptides" type="integer" value="100000" label="the maximum number of peptides considered at once (bigger number will lead to faster results but needs more memory).#br#" help="(-max_number_of_peptides)"/>
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22 </inputs>
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23 <outputs>
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24 <data name="param_out" label="output file#br#" format="idXML"/>
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25 </outputs>
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26 <help>**What it does**
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27
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28 predicts the likelihood of peptides to be proteotypic via svm_model which is trained by PTModel
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29
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30
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31 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_PTPredict.html
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32
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33 @REFERENCES@
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34 </help>
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35 </tool>
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