comparison multiqc.xml @ 28:31c42a2c02d3 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 7f250f4b9484eceef360ba62ef519c94b56c0b97

27:7591bce96601

        <import>bbduk_plugin.xml</import>
        <import>megahit_plugin.xml</import>
        <import>nonpareil_plugin.xml</import>
        <import>gtdbtk_plugin.xml</import>
        <import>sambamba_plugin.xml</import>
    </macros>
    <expand macro="bio_tools"/>
    <expand macro="requirements"/>
    <version_command>multiqc --version</version_command>
    <command detect_errors="aggressive">

            ln -s '$file' '$file_path' &&
            more $file &&
        #end for
    #end if
#end for

multiqc multiqc_WDir
--filename 'report'

#if str($title)

                    <param argument="ylab" label="Y axis label" type="text"/>
                    <param name="input" type="data" format="tabular,tsv" multiple="true" label="Data files"/>
                </when>
            </conditional>
        </repeat>
        <param name="title" type="text" value="" optional="true" label="Report title" help="It is printed as page header">
            <sanitizer invalid_char="">
                <valid initial="string.letters,string.digits">
                    <add value=","/>
                    <add value=":"/>

        <expand macro="bbduk_test"/>
        <expand macro="megahit_test"/>
        <expand macro="nonpareil_test"/>
        <expand macro="gtdbtk_test"/>
        <expand macro="sambamba_test"/>

        <!--expand macro="vcftools_test"/> Does not work, did it ever worked? -->

    </tests>
    <help><![CDATA[
**What it does**

28:31c42a2c02d3

        <import>bbduk_plugin.xml</import>
        <import>megahit_plugin.xml</import>
        <import>nonpareil_plugin.xml</import>
        <import>gtdbtk_plugin.xml</import>
        <import>sambamba_plugin.xml</import>
        <import>image_content_plugin.xml</import>
    </macros>
    <expand macro="bio_tools"/>
    <expand macro="requirements"/>
    <version_command>multiqc --version</version_command>
    <command detect_errors="aggressive">

            ln -s '$file' '$file_path' &&
            more $file &&
        #end for
    #end if
#end for

#if str($image_content_input) != "None"
    @IMAGE_CONTENT_COMMAND@
#end if

multiqc multiqc_WDir
--filename 'report'

#if str($title)

                    <param argument="ylab" label="Y axis label" type="text"/>
                    <param name="input" type="data" format="tabular,tsv" multiple="true" label="Data files"/>
                </when>
            </conditional>
        </repeat>
        <expand macro="image_content_form"/>
        <param name="title" type="text" value="" optional="true" label="Report title" help="It is printed as page header">
            <sanitizer invalid_char="">
                <valid initial="string.letters,string.digits">
                    <add value=","/>
                    <add value=":"/>

        <expand macro="bbduk_test"/>
        <expand macro="megahit_test"/>
        <expand macro="nonpareil_test"/>
        <expand macro="gtdbtk_test"/>
        <expand macro="sambamba_test"/>
        <!--expand macro="vcftools_test"/> Does not work, did it ever worked? -->

    </tests>
    <help><![CDATA[
**What it does**