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
Thon deBoer Ph.D., Bioinformatics Guru
California, USA |p: +1 (650) 799-6839 |m: <mailto:thondeb...@me.com>
Public profile on <http://www.linkedin.com/pub/thon-de-boer/1/1ba/a5b/>
From: Jeremy Goecks [mailto:jeremy.goe...@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
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.
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