comparison ggplot_violin.xml @ 11:17b666467c32 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ggplot2 commit 6737c924917eea8c009c30d7f9917d5a341b9948

10:0e7290688b50

<tool id="ggplot2_violin" name="Violin plot w ggplot2" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
    <expand macro="bio_tools"/>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements">
        <requirement type="package" version="1.4.4">r-reshape2</requirement>
        <requirement type="package" version="2.1.0">r-svglite</requirement>
    </expand>
    <command detect_errors="exit_code"><![CDATA[

                <option value="cyan">Cyan</option>
                <option value="grey">Grey</option>
                <option value="gold">Gold</option>
            </param>
            <expand macro="transform" />
            <conditional name="scaling">
                <param name="plot_scaling" type="select" label="Axis scaling">
                    <option value="Automatic" selected="true">Automatic axis scaling</option>
                    <option value="Defined">User deined axis scales</option>
                </param>
                <when value="Automatic" />
                <when value="Defined">
                    <param name="yaxismin" type="integer" value="0" label="minimal range of y-axis" />
                    <param name="yaxismax" type="integer" value="3" label="maximal range of y-axis" />
                </when>
            </conditional>
            <expand macro="xy_scaling" />
            <expand macro="theme" />
            <expand macro="legend" />
        </section>
        <section name="out" title="Output Options" expanded="true">

    </inputs>
    <outputs>
        <expand macro="additional_output" />
    </outputs>
    <tests>
        <test>
            <param name="input1" value="mtcars.txt" ftype="tabular"/>
            <param name="additional_output_format" value="pdf" />
            <output name="output2" file="ggplot_violin_result1.pdf" compare="sim_size"/>
        </test>
    </tests>
    <help><![CDATA[
        Supply this tool with a text file with headers indicating the various groups to be plotted. This tool will sniff out each column with values that can be plotted and display the distribution of that data group. Note that columns may be excluded from this plot if they contain questionable characters.
    ]]></help>

11:17b666467c32

<tool id="ggplot2_violin" name="Violin plot w ggplot2" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="bio_tools"/>
    <expand macro="requirements">
        <requirement type="package" version="1.4.4">r-reshape2</requirement>
        <requirement type="package" version="2.1.0">r-svglite</requirement>
    </expand>
    <command detect_errors="exit_code"><![CDATA[

                <option value="cyan">Cyan</option>
                <option value="grey">Grey</option>
                <option value="gold">Gold</option>
            </param>
            <expand macro="transform" />
            <expand macro="xy_scaling" />
            <expand macro="theme" />
            <expand macro="legend" />
        </section>
        <section name="out" title="Output Options" expanded="true">

    </inputs>
    <outputs>
        <expand macro="additional_output" />
    </outputs>
    <tests>
        <test expect_num_outputs="2">
            <param name="input1" value="mtcars.txt" ftype="tabular"/>
            <param name="additional_output_format" value="pdf" />
            <output name="output2" file="ggplot_violin_result1.pdf" ftype="pdf" compare="sim_size"/>
        </test>
    </tests>
    <help><![CDATA[
        Supply this tool with a text file with headers indicating the various groups to be plotted. This tool will sniff out each column with values that can be plotted and display the distribution of that data group. Note that columns may be excluded from this plot if they contain questionable characters.
    ]]></help>