Mercurial > repos > gga > chado_expression_add_expression

comparison 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
parents da0367470173
children 546ea3a2a7f7
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4:da0367470173 5:a64f1f154f8c
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
8 <code file="chado.py"/> 8 <code file="chado.py"/>
9 <command detect_errors="aggressive"><![CDATA[ 9 <command detect_errors="aggressive"><![CDATA[
10 @AUTH@ 10 @START_PSQL@ &&
11 11
12 chakin expression add_expression 12 chakin expression add_expression
13 '$organism_id' 13 '$organism_id'
14 '$analysis_id' 14 '$analysis_id'
15 '$file_path' 15 '$file_path'
16 16
17 > '$results' 17 > '$results'
18
19 && @ZIP_PSQL@
18 ]]></command> 20 ]]></command>
19 <inputs> 21 <inputs>
22 <expand macro="psql_target"/>
20 <!-- arguments --> 23 <!-- arguments -->
21 <param argument="organism_id" type="select" dynamic_options="list_organisms()" label="Organism" /> 24 <param argument="organism_id" type="select" dynamic_options="list_organisms()" label="Organism" />
22 <param argument="analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" /> 25 <param argument="analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" />
23 <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" /> 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" />
24 27
25 <expand macro="wait_for"/> 28 <expand macro="wait_for"/>
26 </inputs> 29 </inputs>
27 <outputs> 30 <outputs>
28 <data format="txt" name="results"/> 31 <data format="txt" name="results"/>
32 <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
33 <filter>psql_target['method'] == "pgtools"</filter>
34 </data>
29 </outputs> 35 </outputs>
30 <help> 36 <help>
31 Add an expression matrix file to the database 37 Add an expression matrix file to the database
32 38
33 @HELP@ 39 @HELP@