[maker-devel] empty genome.ann/genome.dna

[Carson Holt]

Could you upload your control files and job input files here-->
http://weatherby.genetics.utah.edu/cgi-bin/mwas/bug.cgi

I'll take a look to see if there is any problem with your job's setup.  Also
what version of MAKER are you running?

--Carson


From:  Rebecca Harris <rbharris at uw.edu>
Date:  Monday, April 14, 2014 at 7:45 PM
To:  "maker-devel at yandell-lab.org" <maker-devel at yandell-lab.org>
Subject:  [maker-devel] empty genome.ann/genome.dna

Hi,

I recently set up MAKER on a new computer and am having trouble running a
dataset that was run successfully on a different computer. After MAKER is
finished, I ran gff3_merge and maker2zff and it returns empty genome.ann and
genome.dna files. I have tried installing older versions of dependencies and
have tinkered with the control files but I still can't figure out what the
issue is. The only difference I can find is that the .all.gff file from a
successfully run file has lines at the beginning of the file reporting the
success of exonerate. On the failing version of maker - these are not
reported - it just goes strait to fasta output. However, exonerate appears
to work successfully when run outside of the maker pipeline. Any help would
be greatly appreciated.

Thanks!
Rebecca
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