view trfBig.xml @ 0:e45bd0ffc1a4 draft default tip

planemo upload for repository https://github.com/remimarenco/trfBig commit 97fd3895fbafc69df1a1c4092f261ba23fc0bd0b-dirty

<tool id="trfBig" name="TrfBig" version="0.1.0">
    <description>trfBig - Mask tandem repeats on a big sequence file</description>
    <requirements>
        <requirement type="package" version="4.07b">trf</requirement>
        <!--<requirement type="package" version="324">ucsc-trfbig</requirement>-->
        <requirement type="package" version="1.0">trfBig</requirement>
    </requirements>
    <stdio>
        <exit_code range="1:" />
    </stdio>
    <command>
        trfBig -bedAt=$output $input /dev/null
    </command>
    <inputs>
        <param format="fasta" name="input" type="data" />
    </inputs>
    <outputs>
        <data format="bed" name="output" />
    </outputs>
    <help>
        This will repeatedly run trf to mask tandem repeats in infile
        and put masked results in outFile.  inFile and outFile can be .fa
        or .nib format. Outfile can be .bed as well. Sequence output is hard
        masked, lowercase.
    </help>
</tool>