Repeatmodeler Error (Error Index Out Of Bounds!)

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11.0 years ago

jomaco ▴ 200

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 • 2.6k views

ADD COMMENT • link 11.0 years ago by jomaco ▴ 200

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

ADD REPLY • link 7.7 years ago by Dave Carlson ★ 1.7k

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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.

ADD REPLY • link 7.7 years ago by jomaco ▴ 200

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