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Repeatmodeler Error (Error Index Out Of Bounds!)

Hi,

After 5 days repeatmodeler exited and reported the following error:

Program duration is 1296.0 sec = 21.6 min = 0.4 hr FastaDB::getSubstr - Error index out of bounds! (SeqID=gi|108459, offset=3358, length=47 actualSeqLen=3394)  at /usr/users/celldev/cockerj/repeatmodeler/RepeatModeler/RepeatModeler line 1624

Does anyone have any idea what the problem might be?

Thanks,

Jon.

repeatmasker error index
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written by jomaco jomaco

Did you ever solve this problem? I'm encountering something similar and am hoping there are answers out there.

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written by Dave Carlson Dave Carlson

Hi Dave. Not sure if this problem is properly resolved, but given the time it takes run RepeatModeler (only to find out it hasn't worked) my eventual solution was just to run ~30 duplicate jobs at the same time, and some of them worked.

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written by jomaco jomaco

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