comparison high_dim_visu.xml @ 2:701af13901fd draft default tip

planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/gsc_high_dimension_visualization commit ef87a68f9a33f8418699d97627eb5f49a5e2c4a6

1:8e6ce12edd90

<tool id="high_dimensions_visualisation" name="Generate PCA, tSNE and HCPC" version="0.9.5">
    <description>from highly dimensional expression data</description>
    <requirements>
        <requirement type="package" version="1.6.2=r35h6115d3f_0">r-optparse</requirement>
        <requirement type="package" version="1.42=r35h6115d3f_0">r-factominer</requirement>
        <requirement type="package" version="1.0.5">r-factoextra</requirement>
        <requirement type="package" version="0.15=r351he1b5a44_0">r-rtsne</requirement>
        <requirement type="package" version="0.4.7=r351h6115d3f_0">r-ggfortify</requirement>
        <requirement type="package" version="1.1.9=r351h0357c0b_0">r-clusterr</requirement>
        <!--<requirement type="package" version="1.11.6=r351hc070d10_0">r-data.table</requirement>-->
    </requirements>
    <stdio>
        <exit_code range="1:" level="fatal" description="Tool exception" />
    </stdio>
    <command detect_errors="exit_code"><![CDATA[ 

            <param name="coord" value="yes" />
            <param name="Rtsne_dims" value="3" />
            <param name="Rtsne_perplexity" value="10"/>
            <param name="Rtsne_theta" value="1" />
            <param name="Rtsne_normalize" value="FALSE" />
            <output name="pdf_out" file="tsne-2.nolabels.pdf" ftype="pdf" compare="sim_size" delta="500"/>
            <output name="table_coordinates" file="tsne-2.coord.tab" ftype="tabular" compare="sim_size" delta="500"/>
        </test>
    </tests>
    <help>

**What it does**

2:701af13901fd

<tool id="high_dimensions_visualisation" name="Generate PCA, tSNE and HCPC" version="0.9.6">
    <description>from highly dimensional expression data</description>
    <requirements>
        <requirement type="package" version="1.6.2=r35h6115d3f_0">r-optparse</requirement>
        <requirement type="package" version="1.42=r35h6115d3f_0">r-factominer</requirement>
        <requirement type="package" version="1.0.5">r-factoextra</requirement>
        <requirement type="package" version="0.15=r351he1b5a44_0">r-rtsne</requirement>
        <requirement type="package" version="0.4.7=r351h6115d3f_0">r-ggfortify</requirement>
        <requirement type="package" version="1.1.9=r351h0357c0b_0">r-clusterr</requirement>
        <requirement type="package" version="1.2.5=r35h6115d3f_0">r-polychrome</requirement>
    </requirements>
    <stdio>
        <exit_code range="1:" level="fatal" description="Tool exception" />
    </stdio>
    <command detect_errors="exit_code"><![CDATA[ 

            <param name="coord" value="yes" />
            <param name="Rtsne_dims" value="3" />
            <param name="Rtsne_perplexity" value="10"/>
            <param name="Rtsne_theta" value="1" />
            <param name="Rtsne_normalize" value="FALSE" />
            <output name="pdf_out" file="tsne-2.nolabels.pdf" ftype="pdf" compare="sim_size" delta="1000"/>
            <output name="table_coordinates" file="tsne-2.coord.tab" ftype="tabular" compare="sim_size" delta="1000"/>
        </test>
    </tests>
    <help>

**What it does**