annotate obo2rdf.xml @ 0:7568445199b6 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/onto-toolkit commit 9422f839ae354d4c26b02d4494abdeaad518d0e6

<tool id="onto_tk_obo2rdf" name="Convert OBO to RDF" version="@VERSION@.0">
    <description></description>
    <macros>
        <import>onto_macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <command detect_errors="aggressive">
    obo2rdf.pl
        -f '$input'
        #if $url:
            -u '$url'
        #end if
        -n '$namespace'
        > '$output'
    </command>
    <inputs>
        <expand macro="input_ontology" />
        <param name="url" type="text" value="" optional="True" label="URL">
            <expand macro="sanitize_urls" />
        </param>
        <param name="namespace" type="text" value="" label="Namespace">
            <expand macro="sanitize_ids" />
        </param>
    </inputs>
    <outputs>
        <data format="rdf" name="output" />
    </outputs>
    <tests>
        <test>
            <param name="input" value="pre_cco_core.obo" ftype="obo"/>
            <param name="namespace" value="SBB"/>
            <output name="output" ftype="rdf">
                <assert_contents>
                    <has_text text="holds between distinct material continuants when one succeeds the other across a temporal divide" />
                </assert_contents>
            </output>
        </test>
    </tests>
    <help>
This tool transforms an OBO formatted ontology (such as the Gene Ontology) to RDF/XML.

    </help>
    <expand macro="citations" />
</tool>