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Old 09-01-2011, 05:29 AM   #1
sandhya
Member
 
Location: India

Join Date: Sep 2010
Posts: 11
Default Errors encountered while running Metasim

Hi,

I am using Metasim to simulate 454 reads. This is the 454 error model setting.
Quote:
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
Quote:
### MetaSim taxon profile
# 100 name "07-54825"
100 taxid 1
I run into this error (this is from the Simulator log file)
Quote:
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.
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Old 09-14-2017, 11:01 PM   #2
beacamara
Junior Member
 
Location: Madrid, Spain

Join Date: May 2015
Posts: 3
Default

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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