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Old 08-19-2010, 07:05 AM   #1
Albert Cheng
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Location: Boston

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Default Error: segment-based junction search failed with err = -9

Hi,

I get this error running tophat. I got this from only one of the job. Other jobs are successful. May I know how I could avoid that?

Error: segment-based junction search failed with err = -9

Thanks!
Albert
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Old 08-19-2010, 08:24 AM   #2
fkrueger
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I had the same error message today when I tried to align some human sequences that had been spiked into the phiX lane (around 5%). When I aligned the sequences to phiX first and ran tophat again with just the unmapped sequences it did work eventually.
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