annotate expression_add_expression.xml @ 6:546ea3a2a7f7 draft

planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit bc69ce09372c8c2701b726c326e671af279adb4d

<?xml version="1.0"?>
<tool id="expression_add_expression" name="Chado expression add" version="@WRAPPER_VERSION@.1">
    <description></description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <code file="chado.py"/>
    <command detect_errors="aggressive"><![CDATA[
@START_PSQL@ &&

chakin expression add_expression
'$organism_id'
'$analysis_id'
'$file_path'

 > '$results'

@ZIP_PSQL@
    ]]></command>
    <inputs>
        <expand macro="psql_target"/>
        <!-- arguments -->
        <param argument="organism_id" type="select" dynamic_options="list_organisms()" label="Organism" />
        <param argument="analysis_id" type="select" dynamic_options="list_analyses()"  label="Analysis" />
        <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" />

        <expand macro="wait_for"/>
    </inputs>
    <outputs>
        <data format="txt" name="results"/>
        <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
			<filter>psql_target['method'] == "pgtools"</filter>
		</data>
    </outputs>
    <help>
Add an expression matrix file to the database

@HELP@
    </help>
</tool>