view fasta_to_bwa_index_converter.xml @ 44:a8b31d446fec draft default tip

updated vhom regions with multiple hit file input and adapted visualization

<tool id="vmap_dnaindex" name="Virana DNAIndex" version="1.0.0">
    <description>Creates a BWA index from a FASTA reference file.</description>
    <requirements>
        <requirement type="package" version="0.7.4">bwa</requirement>
        <requirement type="package" version="0.1.19">samtools</requirement>
        <requirement type="package" version="1.0">virana_python</requirement>

    </requirements>
    <command interpreter="python">vmap_dnaindex.py --html_file $output --index_dir ${output.files_path} --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="bwa_index"/>
    </outputs>

</tool>