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  • Errors encountered while running Metasim

    Hi,

    I am using Metasim to simulate 454 reads. This is the 454 error model setting.
    Preset Name: 454
    Number Of Reads / Mate Pairs=5000
    Error Model=454

    454 Error Model Configuration=
    Number Of Cycles: 133 (~339 Base Pairs)
    Mate Pair Probability: 0.0
    Mate Pair Read Length: 20
    Remove Mate Pair Linker from Output: false
    Lognormal Distribution Mean: 0.23
    Lognormal Distribution Std. Deviation: 0.15
    Proportionality Constant for Std. Deviation: 0.15
    Scale Std. Deviation with Square Root of Mean: true
    Generate Signal Trace: false

    454 Error Model DNA Clone Parameters=
    Distribution: Normal
    Mean: 400.0
    2nd parameter: 20.0

    Combine All Files=false
    Uniform Sequence Weights=false
    Number Of Threads=1
    Write FastA=true
    Compress Output Files=true
    The Taxon profile is
    ### MetaSim taxon profile
    # 100 name "07-54825"
    100 taxid 1
    I run into this error (this is from the Simulator log file)
    Thu Sep 01 15:16:50 CEST 2011

    Simulating files:
    [11.mprf]

    Simulator Settings:
    Preset Name: 454
    Number Of Reads / Mate Pairs=5000
    Error Model=454

    454 Error Model Configuration=
    Number Of Cycles: 133 (~339 Base Pairs)
    Mate Pair Probability: 0.0
    Mate Pair Read Length: 20
    Remove Mate Pair Linker from Output: false
    Lognormal Distribution Mean: 0.23
    Lognormal Distribution Std. Deviation: 0.15
    Proportionality Constant for Std. Deviation: 0.15
    Scale Std. Deviation with Square Root of Mean: true
    Generate Signal Trace: false

    454 Error Model DNA Clone Parameters=
    Distribution: Normal
    Mean: 400.0
    2nd parameter: 20.0

    Combine All Files=false
    Uniform Sequence Weights=false
    Number Of Threads=1
    Write FastA=true
    Compress Output Files=true


    +++ File: 11.mprf +++
    java.lang.Exception: sequence file not found
    !!! FAILED !!!
    Please advise if I have missed anything in the settings or why this error possibly occurs.

    Thank you.

  • #2
    Hi sandhya!

    Could you fix the error exception raise from MetaSim?
    It's happening to me now, after using MetaSim almost a year.

    Thank you so much

    Bea

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