Tagged with #2.4
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As reported here:
http://gatkforums.broadinstitute.org/discussion/comment/4114#Comment_4114

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.

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