A couple questions:

(a) are you using a custom build? If so, does the build show the correct number 
of chromosomes?
(b) do you see any errors in the JavaScript console when trying to view the BAM 
file?

Thanks,
J.

On Oct 21, 2013, at 11:05 AM, "Berner, Thomas" <thomas.ber...@jki.bund.de> 
wrote:

> Hey guys,
>  
> we want to use trackster in our local galaxy instance (rev. 
> 10392:1ae95b3aa98d release_2013.08.12) and followed the instructions at 
> http://wiki.g2.bx.psu.edu/Learn/Visualization  .
>  
> We tested it with a custom Build of 96 sequences in a fasta file, where all 
> bams were mapped against before,  everything worked fine.
> But now we want to do the same for a much larger file (about 29.000 contigs) 
> and no graph is displayed at all, no matter which contig is used.
>  
> No error appears, only the graphs are missing.
>  
> Any ideas what this could be? We would be grateful for any advice.
>  
> Thanks
>  
> Thomas
> ---
>  
> Thomas Berner
>  
> Julius Kühn-Institut (JKI)
> - Federal Research Centre for Cultivated Plants - Erwin Baur-Straße 27
> 06484 Quedlinburg
> - Germany -
>  
> Phone: ++49  ( 0 ) 3946  47  562
> EMail: thomas.ber...@jki.bund.de
>  
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