comparison macros.xml @ 5:279ce0d93d53 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/DIMet commit b74312f0a6cb28e204f8633453e493fa0b2c89d8

4:5e379358c023

<macros>
    <token name="@TOOL_VERSION@">0.2.4</token>
    <token name="@VERSION_SUFFIX@">1</token>
    <token name="@EXECUTABLE@">pca</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">dimet</requirement>
        </requirements>
    </xml>

                        <remove value="&quot;"/>
                        <remove value="&apos;"/>
                    </valid>
                </sanitizer>
            </param>
            <repeat name="factor_list" title="Conditions" default="2" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the first specified condition is the reference). You have to load a metadata file prior to have access to condition list">
                <param name="condition" label="Condition" type="select" optional="false" multiple="false">
                    <options from_dataset="metadata_path">
                        <column name="condition" index="1"/>
                        <column name="value" index="1"/>
                        <filter type="unique_value" name="condition" column="condition"/>

                </sanitizer>
            </param>
        </repeat>
    </xml>
    <xml name="factor_list">
        <repeat name="factor_list" title="Conditions" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the first specified condition is the reference). You have to load a metadata file prior to have access to condition list">
            <param name="condition" label="Condition" type="select" optional="false" multiple="false">
                <options from_dataset="metadata_path">
                    <column name="condition" index="1"/>
                    <column name="value" index="1"/>
                    <filter type="unique_value" name="condition" column="condition"/>

        ln -s '$metadata_path' data/metadata.csv &&
    #end if
    #if $abundance_file:
        ln -s '$abundance_file' data/abundance.csv &&
    #end if
    ]]></token>
    <token name="@INIT_ENRICHMENT_PLOT@"><![CDATA[

    mkdir -p data &&

5:279ce0d93d53

<macros>
    <token name="@TOOL_VERSION@">0.2.4</token>
    <token name="@VERSION_SUFFIX@">2</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">dimet</requirement>
        </requirements>
    </xml>

                        <remove value="&quot;"/>
                        <remove value="&apos;"/>
                    </valid>
                </sanitizer>
            </param>
            <repeat name="factor_list" title="Conditions" default="2" min="2" max="2" help="Specify conditions to compare from metadata file (for each comparison, the last specified condition is the reference). You have to load a metadata file prior to have access to condition list">
                <param name="condition" label="Condition" type="select" optional="false" multiple="false">
                    <options from_dataset="metadata_path">
                        <column name="condition" index="1"/>
                        <column name="value" index="1"/>
                        <filter type="unique_value" name="condition" column="condition"/>

                </sanitizer>
            </param>
        </repeat>
    </xml>
    <xml name="factor_list">
        <repeat name="factor_list" title="Conditions" min="2" max="2" help="Specify conditions to be taken into account from metadata file (for each comparison, the last specified condition is the reference). You have to load a metadata file prior to have access to condition list">
            <param name="condition" label="Condition" type="select" optional="false" multiple="false">
                <options from_dataset="metadata_path">
                    <column name="condition" index="1"/>
                    <column name="value" index="1"/>
                    <filter type="unique_value" name="condition" column="condition"/>

        ln -s '$metadata_path' data/metadata.csv &&
    #end if
    #if $abundance_file:
        ln -s '$abundance_file' data/abundance.csv &&
    #end if
    #set $axisx = "condition"
    #if str( $output_options.bar_color ) == "condition":
        #set $axisx = "timepoint"
    #end if

    ]]></token>
    <token name="@INIT_ENRICHMENT_PLOT@"><![CDATA[

    mkdir -p data &&