Thanks Jeremy,

I did what you suggested and now it no longer complains!

Not sure if I had edited datatypes_conf.xml but just copying the sample worked and let’s just hope I did not break any of my changes

Regards,

Thon

Thon deBoer Ph.D., Bioinformatics Guru
California, USA |p: +1 (650) 799-6839  |m:  thondeboer@me.com

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From: Jeremy Goecks [mailto:jeremy.goecks@emory.edu]
Sent: Thursday, August 22, 2013 11:11 AM
To: Anthonius deBoer
Cc: sam guerler; Galaxy-dev Galaxy-dev
Subject: Re: [galaxy-dev] Why does my trackster complain about not being able to display BED files?

Am I missing a converter?

Yes, you are missing the bed_to_bigwig converter. 

If you haven't made changes to your datatypes_conf.xml file, you can just copy datatypes_conf.xml.sample to datatypes_conf.xml to get the needed converters. 

If you've made changes to datatypes_conf.xml, you'll need to manually add the needed converters. We recently transitioned all the *_to_summary_tree converters to *_to_bigwig, so you'll want to remove the summary_tree converters and replace them with the bigwig converters.

And why would a BED file even needed to be converted?

Converter = indexer for visualizations. Datasets are indexed so that (a) aggregate (coverage) data is readily available when viewing a large region and (b) finding features in a small region (when zoomed in) is fast.

J.