annotate analysis_get_analyses.xml @ 4:e7eae84daf94 draft

planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39

<?xml version="1.0"?>
<tool id="analysis_get_analyses" profile="16.04" name="Get analyses" version="@WRAPPER_VERSION@.0">
    <description>from Tripal</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements">
        <requirement type="package" version="1.5">jq</requirement>
    </expand>
    <expand macro="stdio"/>
    <command><![CDATA[

        @AUTH@

        tripaille analysis get_analyses

            #if $analysis_id:
              --analysis_id "$analysis_id"
            #end if
            #if $name:
              --name "$name"
            #end if
            #if $program:
              --program "$program"
            #end if
            #if $programversion:
              --programversion "$programversion"
            #end if
            #if $algorithm:
              --algorithm "$algorithm"
            #end if
            #if $sourcename:
              --sourcename "$sourcename"
            #end if
            #if $sourceversion:
              --sourceversion "$sourceversion"
            #end if
            #if $sourceuri:
              --sourceuri "$sourceuri"
            #end if
            #if $date_executed:
              --date_executed "$date_executed"
            #end if

            | jq -S . > $results
    ]]></command>
    <inputs>
        <param name="analysis_id" label="Analysis Id" argument="analysis_id" type="integer" optional="true" help="An analysis ID" />
        <param name="name" label="Name" argument="name" type="text" optional="true" help="analysis name" />
        <param name="program" label="Program" argument="program" type="text" optional="true" help="analysis program" />
        <param name="programversion" label="Programversion" argument="programversion" type="text" optional="true" help="analysis programversion" />
        <param name="algorithm" label="Algorithm" argument="algorithm" type="text" optional="true" help="analysis algorithm" />
        <param name="sourcename" label="Sourcename" argument="sourcename" type="text" optional="true" help="analysis sourcename" />
        <param name="sourceversion" label="Sourceversion" argument="sourceversion" type="text" optional="true" help="analysis sourceversion" />
        <param name="sourceuri" label="Sourceuri" argument="sourceuri" type="text" optional="true" help="analysis sourceuri" />
        <param name="date_executed" label="Date Executed" argument="date_executed" type="text" optional="true" help="analysis date_executed (yyyy-mm-dd)" />
    </inputs>
    <outputs>
        <data format="json" name="results" label="Tripal analyses" />
    </outputs>
    <tests>
        <test expect_failure="true">
            <param name="analysis_id" value="3" />

            <expand macro="test_result" />
        </test>
    </tests>
    <help><![CDATA[
        @HELP_OVERVIEW@

        **Get Analyses**

        With this tool, you can list analyses from the Tripal/Chado database.

        @HELP@
    ]]></help>
    <expand macro="citation"/>
</tool>