[maker-devel] re-annotation

[Kymberlie Hallsworth-Pepin]

We are using v2.26. We recreated the gff3 file and I can now get gene 
predictions to show up using the pred_gff file as input for the gene set. 
The naming is not maintained with the map_forward=1 as I would expect, 
just the source field in the input gff file is added to the new maker 
name.  If I change the input to a model_gff file I still do not get 
predictions in the maker gff file.

thanks
Kym




On Tue, 12 Nov 2013, Carson Holt wrote:

> They should be maintained.  What version are you using?
>
> --Carson
>
>
> On 11/11/13 1:01 PM, "Kymberlie Hallsworth-Pepin"
> <kpepin at genome.wustl.edu> wrote:
>
>> Hi Carson,
>>
>> I am trying to take an existing gene set and update it using new
>> proteins.
>> I have the gene set in gff3 format - validated as ok - and have put it in
>> the model_gff line. I set the protein db to the new database and I set
>> the
>> map_forward=1 to maintain naming, but the output has no gene predictions
>> in it. I have tried setting keep_preds both 0 and 1. I have put the gff
>> file in both the pred_gff and model_gff and just in the pred_gff field,
>> but I still don't get any predictions maintained. Can you tell me what I
>> might be missing ?
>>
>> thanks
>> Kym
>>
>>
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