comparison scpred_preprocess_data.xml @ 0:ec6d9a9fb273 draft

"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"

0:ec6d9a9fb273

<tool id="scpred_preprocess_data" name="Scpred pre-process" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
    <description>Pre-process input dataset (no train/test split)</description>
    <macros>
        <import>scpred_macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <command detect_errors="exit_code"><![CDATA[
        scpred_preprocess_data.R --input-sce-object "${input_sce_object}" --normalised-counts-slot "${norm_counts_slot}" --output-matrix-object "${output_mat_object}" --output-labels "${output_labels}" ]]></command>
    <inputs>
         <param type="data" name="input_sce_object" label="SCE object containing expression data" format="rdata" help="File with serialized SingleCellExperiment object that contains expression matrix" />
         <param type="text" name="norm_counts_slot" value="normcounts" label="Normalised counts slot" help="Slot containing normalised counts in input SCE object" />
    </inputs> 
    <outputs>
        <data name="output_mat_object" format="rdata" />
        <data name="output_labels" format="txt" />
    </outputs>
    <help><![CDATA[
    @HELP@
    
    @VERSION_HISTORY@
    ]]></help>
    <expand macro="citations" />
</tool>