view long_reads_sampling.xml.backup @ 0:dd46956ff61f draft

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<tool id="long_reads_sampling" name="Create sample of long reads" version="0.1.0">
    <requirements>
        <requirement type="package">biopython</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        long_reads_sampling.py -i "$input1" -o "$output1" -l total_length -s seed
    ]]></command>
    <inputs>
        <param type="data" name="input1" format="fasta" />
    </inputs>
    <outputs>
        <data name="output1" format="fasta" />
    </outputs>
    <help><![CDATA[
        b'usage: long_reads_sampling.py [-h] [-i INPUT] [-o OUTPUT] [-l TOTAL_LENGTH]\n                              [-s SEED]\n\nCreate sample of long reads, instead of setting number of reads to be\nsampled,total length of all sampled sequences is defined\n\noptional arguments:\n  -h, --help            show this help message and exit\n  -i INPUT, --input INPUT\n                        file with long reads in fasta format (default: None)\n  -o OUTPUT, --output OUTPUT\n                        Output file name (default: None)\n  -l TOTAL_LENGTH, --total_length TOTAL_LENGTH\n                        total length of sampled output (default: None)\n  -s SEED, --seed SEED  random number generator seed (default: 123)\n'
    ]]></help>
    <citations>
    </citations>
</tool>