At Wed, 30 Oct 2013 21:51:05 -0400, Jeremy Goecks wrote:
It turns out that your artificial test is a bit too artificial. In order to display a coverage plot, Trackster converts reads in a BAM to BigWig using a two step process:
(1) BAM to bedgraph; (2) bedgraph to bigwig
Your super simple example generates an empty file in step 1 because your single read does not map to Araly1, and the tool used in step 2 (bedGraphToBigWig) fails with the error that you're seeing. This is a corner-case bug, and I've create a card for this so you can track its resolution: https://trello.com/c/kMFUNawL
Hi Jeremy, Bjoern, Thanks for your help. Yes, my data file wasn't very good. I tried again with a more realistic sample, and it worked fine. Sorry for the noise. cheers, Simon