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Old 01-24-2020, 03:11 AM   #4
GenoMax
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Location: East Coast USA

Join Date: Feb 2008
Posts: 7,077
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How much memory are you assigning to this job? Have these reads been scanned/trimmed before splitting?

Have you also looked at the output of these reports?
Code:
    scafstats=<file>    Write statistics on how many reads mapped to which scaffold to this file.
    refstats=<file>     Write statistics on how many reads were assigned to which reference to this file.
                        Unmapped reads whose mate mapped to a reference are considered assigned and will be counted.
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