[maker-devel] No genes predicted by Fgenesh in MAKER

[Carson Holt]

Also there is the chance that FgenesH has changed formats slightly for their output (it's happened a couple of times before), so if you are already running with a parameter file you purchased that could be the issues. Look at the STDERR report MAKER produces to see if FgenesH even ran and with what command.

—Carson



> On Mar 2, 2016, at 10:13 AM, Daniel Ence <dence at genetics.utah.edu> wrote:
> 
> Hi Chan, Fgenesh is a gene predictor that requires users to purchase parameter files from their company: http://www.softberry.com/ <http://www.softberry.com/>. If you didn’t give a Fgenesh file, then you won’t get any predictions. 
> 
> ~Daniel
> 
> 
> Daniel Ence
> Graduate Student
> Eccles Institute of Human Genetics
> University of Utah
> 15 North 2030 East, Room 2100
> Salt Lake City, UT 84112-5330
> 
>> On Mar 1, 2016, at 12:45 AM, Chan Kuang Lim <chankl at mpob.gov.my <mailto:chankl at mpob.gov.my>> wrote:
>> 
>> Dear MAKER developers,
>> 
>> I am using MAKER 2.31.8, with SNAP, AUGUSTUS and Fgenesh. I have tested my sequences, with many different parameters. MAKER output gives genes predicted by SNAP and AUGUSTUS, but no genes predicted by Fgenesh. I do not get any error message. The sequences FINISHED successful. May I know what are the possible mistake I have done?
>> 
>> Thank you.
>> 
>> Regards,
>> Chan KL
>> 
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