Re: [Gmod-ajax] When loading GTF track, Error, Data exceeds maximum string length (512MB)

[Garrett S. <ste...@gm...>]

Hi Hans,

Because GTF tracks do not have an index, JBrowse tries to load the whole
file, which in your case is too large to handle. I'd suggest converting
your GTF to GFF3 and then creating an index for it and using that for your
track. You can find more information about adding an indexed GFF3 track
here:
https://jbrowse.org/jb2/docs/quickstart_web/#adding-a-gff3-file-with-gff3tabix

Best,
Garrett

On Thu, Sep 21, 2023 at 3:04 PM Hans Vasquez-Gross <hva...@un...>
wrote:

> Hi All,
>
> I am loading a new genome reference, the Human T2T reference downloaded
> from NCBI. The alignment track data loads fine, but when I click on the GTF
> track, I get the error: Data exceeds maximum string length (512MB).  Any
> suggestion what could be the cause of this issue?
>
> You can see the installation here:
>
> https://biox.unr.edu/jbrowse2/Human_T2T/
>
> Thank you,
> -Hans
>
> --
>
>
>
> [image: signature_998258195]
>
> *Hans Vasquez-Gross, Ph.D*
>
> Bioinformatics Scientist,
> Nevada Bioinformatics Center
>
> https://www.unr.edu/bioinformatics
>
> hva...@un...
>
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