[maker-devel] Quick question about re-annotation

[Daniel Standage]

Greetings!

I have a quick question about re-annotation with Maker. I have successfully
completed a Maker run, but now I would like to re-run Maker with some
additional EST evidence (from a related organism, aligned and in GFF3
format). I simply added the file to the *altest_gff* configuration setting
and re-ran Maker. However, from  the log messages it looked like Maker was
starting from scratch rather than using what had already been completed in
the initial run. Luckily, I had made a backup of the complete Maker data
structure, so I killed the job, deleted the data structure, and restored
from the backup.

Before I try to run this again, do I need to change any other configuration
settings to do this re-annotation? The stanza under *Re-annotation Using
MAKER Derived GFF3* looks relevant, but it is not clear to me which
settings need to be set.

Thanks!

--
Daniel S. Standage
Ph.D. Candidate
Bioinformatics and Computational Biology Program
Department of Genetics, Development, and Cell Biology
Iowa State University
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