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track not showing up in track selector

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Johannes Debler

unread,
Apr 28, 2024, 8:06:56 PM4/28/24
to apo...@lbl.gov
Hi,

I have a strange problem where a particular track is not showing up in the track selector on the left, but only in the 'Tracks' tab on the right, while the one that shows up in the 'Tracks' tab does not show up in the track selector. 
image.png
image.png

As you can see the 'mappings coverage' track only shows up in the track selector, but not in the 'Tracks' tab, while 'mappings alignments' does the opposite. 
This is how they look in the trackList.json file:

{
         "apollo" : {
            "permission" : {
               "level" : "private"
            }
         },
         "autoscale" : "local",
         "category" : "mappings coverage",
         "key" : "61-10 - illumina",
         "label" : "61-10 - illumina",
         "storeClass" : "JBrowse/Store/BigWig",
         "type" : "JBrowse/View/Track/Wiggle/XYPlot",
         "urlTemplate" : "mappings/61-10.mapped.to.Kewell.bam.bedgraph.bw"
      },
{
         "apollo" : {
            "permission" : {
               "level" : "private"
            }
         },
         "autoscale" : "local",
         "category" : "mappings alignments",
         "key" : "61-10 - illumina",
         "label" : "61-10 - illumina",
         "storeClass" : "JBrowse/Store/SeqFeature/CRAM",
         "type" : "JBrowse/View/Track/Alignments2",
         "urlTemplate" : "mappings/61-10.mapped.to.Kewell.cram"
      },


Johannes Debler

unread,
Apr 28, 2024, 8:10:04 PM4/28/24
to apo...@lbl.gov
Sorry, clicked around and sent this too early.

Any idea why this is happening? I've tried without the 'private' setting but the same thing occurs. I opened the instance in a different browser to see if it had to do with cached stuff but it's the same there.

Cheers,
Johannes
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