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

[Rebecca Harris]

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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