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Update qsub scripts to use an optional OUTDIR #6

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arkal opened this issue Jun 9, 2020 · 0 comments

Contributor

arkal commented Jun 9, 2020

Something like

INDIR = dirname(input_file)

if output_is_file
    if OUTDIR
        place output in OUTDIR
    else
        place output in INDIR
elif output_is_directory
    if OUTDIR
        if OUTDIR exists
            move output to OUTDIR/SAMPLE_TOOLNAME_results
        else
            move output to OUTDIR
    else
        move output to INDIR/SAMPLE_TOOLNAME_results

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