view fasta_to_star_index_converter.xml @ 18:d5a3b07f91c4 draft

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<tool id="vmap_rnaindex" name="VMap RNAIndex" version="1.0.0">
    <description>Creates a STAR index from a FASTA genome reference.</description>
    <requirements>
        <requirement type="package" version="2.3.0">STAR</requirement>
        <requirement type="package" version="0.1.19">samtools</requirement>
        <requirement type="package" version="1.0">virana_python</requirement>

    </requirements>
    <command interpreter="python">vmap_rnaindex.py --html_file $output --dir ${output.files_path} --index_dir ${output.files_path} --reference_file $input 2&gt;&amp;1 </command>
    
    <inputs>
        <param name="input" format="fasta" type="data" label="Fasta file" help="Fasta reference file to create the index for."/>
    </inputs>
    
    <outputs>
        <data name="output" format="star_index"/>
    </outputs>

</tool>