Mercurial > repos > gga > chado_expression_add_expression

annotate expression_add_expression.xml @ 5:a64f1f154f8c draft

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planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 0b135f1ea2623ea68e41ac88e13d99e6b4ad8bea
author gga
date Mon, 08 Jul 2019 05:37:07 -0400
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children 546ea3a2a7f7
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1 <?xml version="1.0"?>
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2 <tool id="expression_add_expression" name="Chado expression add" version="@WRAPPER_VERSION@.0">
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3 <description></description>
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4 <macros>
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5 <import>macros.xml</import>
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6 </macros>
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7 <expand macro="requirements"/>
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8 <code file="chado.py"/>
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9 <command detect_errors="aggressive"><![CDATA[
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10 @START_PSQL@ &&
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12 chakin expression add_expression
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13 '$organism_id'
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14 '$analysis_id'
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15 '$file_path'
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17 > '$results'
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19 && @ZIP_PSQL@
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20 ]]></command>
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21 <inputs>
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22 <expand macro="psql_target"/>
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23 <!-- arguments -->
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24 <param argument="organism_id" type="select" dynamic_options="list_organisms()" label="Organism" />
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25 <param argument="analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" />
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26 <param name="file_path" label="Expression matrix" argument="file_path" type="data" format="tabular" help="Tabular file where columns are experimental conditions, and rows are features" />
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27
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28 <expand macro="wait_for"/>
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29 </inputs>
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30 <outputs>
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31 <data format="txt" name="results"/>
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32 <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
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33 <filter>psql_target['method'] == "pgtools"</filter>
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34 </data>
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35 </outputs>
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36 <help>
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37 Add an expression matrix file to the database
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39 @HELP@
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40 </help>
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41 </tool>