[maker-devel] Unable to train SNAP

[Carson Holt]

The maker2zff script has a number of thresholds that must be reached to avoid filtering all models. If you don’t have protein evidence in the dataset for example, then that filter may always be failing. You may just want to turn all filters off with the -n option as previously suggested.

—Carson





> On Jan 5, 2017, at 3:07 AM, Oleg Lovky <olegl at volcani.agri.gov.il> wrote:
> 
> Hello,
>  
> I’m running Maker (2.31.8) with a genome and mRNA evidence (est2genome=1) containing ~50k reads (length ranges from 70 to 12000).
> However, I’m not getting transcript and proteins fasta files at all, despite Maker not giving any errors and everything is listed as finished in the datastore log file.
> Furthermore, when trying to use maker2zff I’m getting empty genome.ann and genome.dna files.
>  
> Please advise.
>  
> Regards,
>  
> Oleg Lovky, MSc.
> Research Engineer
> Institute of Plant Sciences
> ARO, Volcani Center
> Cell: 054-4870319
> <image001.png>
>  
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