## Bug in HaplotypeCaller 2.4-7 : "Bad likelihoods detected"

### Posted by Geraldine_VdAuwera on 7 Mar 2013 (6)

If you encounter this bug too, please don't post a new question about it. Feel free to comment in this thread to let us know you have also had the same problem.

Thank you for your patience while we work to fix this issue.

### Update: the "Bad likelihoods detected error" is fixed in the latest version.

#### giorgiopea

Geraldine, I've encountered this issue, but I've seen this announcement just a moment too late and made my post at [http://gatkforums.broadinstitute.org/discussion/comment/4114#Comment_4114](http://gatkforums.broadinstitute.org/discussion/comment/4114#Comment_4114) My apologies! Giorgio

#### Geraldine_VdAuwera

Don't worry about it. FYI we are working on a solution to the problem; we'll post updates in this thread.

#### Geraldine_VdAuwera

Update: we have a theoretical fix for the "Bad likelihoods detected error" and are now working on implementing it.

#### andrewseverin

I also have this error for this version ##### ERROR A GATK RUNTIME ERROR has occurred (version 2.4-7-g5e89f01): ##### ERROR ##### ERROR Please visit the wiki to see if this is a known problem ##### ERROR If not, please post the error, with stack trace, to the GATK forum ##### ERROR Visit our website and forum for extensive documentation and answers to ##### ERROR commonly asked questions http://www.broadinstitute.org/gatk ##### ERROR ##### ERROR MESSAGE: Bad likelihoods detected: 0.24761105283431561

#### andrewseverin

I don't know if you have fixed this yet but I have the error in this version too. version nightly-2013-03-18-g9bf9a4a

#### Geraldine_VdAuwera

This should be fixed in the very latest version, 2.4-9, which came out this morning I believe.

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