Mercurial > repos > recetox > recetox_aplcms_compute_template

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planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 0873c036d734782d2647b0eea84cd1a0658f5e58
author recetox
date Wed, 19 Jul 2023 00:23:43 +0000
parents 7a4b9baff707
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7a4b9baff707 planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 199dd33897bacaeb194ce9f5239cc4752c92e4df
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1 <tool id="recetox_aplcms_compute_template" name="recetox-aplcms - compute template" version="@TOOL_VERSION@+galaxy1" profile="21.09">
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2 <description>compute retention time correction template feature table</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 <import>help.xml</import>
1f22ec2823af planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 506df2aef355b3791567283e1a175914f06b405a
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6 </macros>
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7 <edam_operations>
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8 <edam_operation>operation_3936</edam_operation>
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9 </edam_operations>
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10 <expand macro="annotation"/>
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11 <expand macro="creator"/>
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12 <expand macro="requirements"/>
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1f22ec2823af planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 506df2aef355b3791567283e1a175914f06b405a
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14 <command detect_errors="aggressive"><![CDATA[
1f22ec2823af planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 506df2aef355b3791567283e1a175914f06b405a
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15 Rscript -e 'source("${__tool_directory__}/utils.R")' -e 'source("${run_script}")'
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16 ]]></command>
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17 <configfiles>
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18 <configfile name="run_script"><![CDATA[
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19 #set filenames = str("', '").join([str($f) for $f in $files])
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20 feature_tables <- load_parquet_collection(c('$filenames'))
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22 template_features <- compute_template(feature_tables)
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24 save_data_as_parquet_file(template_features, '$output_file')
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25 ]]></configfile>
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26 </configfiles>
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28 <inputs>
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29 <param name="files" type="data_collection" collection_type="list" format="parquet" label="Input data"
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30 help="Table containing clustered features." />
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31 </inputs>
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33 <outputs>
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34 <data label="${tool.name} on ${on_string}" name="output_file" format="parquet" />
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35 </outputs>
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37 <tests>
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39 </tests>
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41 <help>
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42 <![CDATA[
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43 @COMPUTE_TEMPLATE_HELP@
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45 @GENERAL_HELP@
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47 ]]>
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48 </help>
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50 <expand macro="citations"/>
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51 </tool>