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  • Lien
    Member
    • Dec 2009
    • 47
    #1

    defuse -d option

    Dear all,

    I'm trying to run defuse on an sge cluster where defuse was installed and used already by others.
    Below is the command I tried:
    sge defuse.pl -c /lspans0/config.txt -1 /lspans0/GC011094.R1.fastq -2 /lspans0/GC011094.R2.fastq -o /lspans0/defuse_out/

    Do I need to explicitly use the ' -s sge' option?
    In some places, people say that you should add the -d parameter (being the source_data_directory).
    Is this the case, or should the command work as I tried it? Then I would suspect that there is something wrong with the reference files that are being used.

    Thanks for any suggestions,
    Lien
    Tags: None
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