Hi Gordon, Please go ahead and send me your hub URL, and I will ask our engineers to help troubleshoot. We are working on providing better documentation of trackDb for track hubs, especially for multiWig container tracks.
-- Brooke Rhead UCSC Genome Bioinformatics Group On 5/4/12 3:29 PM, Assaf Gordon wrote: > Hello, > > We have a hub with several BigWig tracks, and we're having problems using "always zero" and "transparent mode". > > The goal is to create a view similar to the H3K27Ac Mark Encode > tracks (http://genome.ucsc.edu/cgi-bin/hgTrackUi?hgsid=263551753&c=chr21&g=wgEncodeRegMarkH3k27ac) . > > Our hub passes "hubCheck" without warnings and loads correctly on > the Genome Browser, but two problems remain: > > 1. "alwaysZero on" is ignored, the tracks do not always start at > zero (if the minimum value is higher than zero), although the hgTrackGUI does show "on" for "always show zero". > > 2. The tracks are shown in the correct color, but are solid and not transparent. > > The parent track is defined as: > === > track Foo > container multiWig > noInherit On > type bigWig > shortLabel +Foo > longLabel +Foo RNAseq data > visibility full > autoScale On > alwaysZero On > showSubtrackColorOnUi on > aggregate transparentOverlay > === > > Each sub-track is defined as: > === > track Foo_rep1_plus > bigDataUrl 112_rep1.bw > shortLabel Foo_rep1_plus > longLabel Foo_rep1_plus > parent Foo > type bigWig > autoScale On > alwaysZero On > color 159,159,159 > === > > I can share the hub URL off-list, if needed. > > > Any suggestions would be appreciated, > > Thanks, > -gordon > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
