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Question: rtracklayer demo bug
0
gravatar for felix.ernst
4 weeks ago by
felix.ernst0 wrote:

Hello,

does anyone else have a problem using demo(targets) to have a look at the example in the rtracklayer package?

The error is given after chunk 6

> view <- browserView(session, range,
+                     hide = c("refGene", "mgcFullMrna", "intronEst"),
+                     dense = "knownGene", squish = "cons44way")
Error in normGenomeRange(range, object) :
  'range' should be a genome string, RangesList, GRanges or Seqinfo

range is an IRanges object an produced apparently by 

range <- ranges(targetTrack[top,]) * -10

The session is clean without any other packages loaded.

Thanks for any help and advice.

Felix

 

ADD COMMENTlink modified 4 weeks ago • written 4 weeks ago by felix.ernst0
1
gravatar for Michael Lawrence
4 weeks ago by
Michael Lawrence10.0k
United States
Michael Lawrence10.0k wrote:

I pushed a fix for this to the release and devel branches. It's an ancient demo, so it has code rotted a bit and has been broken like this for 2 years.

ADD COMMENTlink written 4 weeks ago by Michael Lawrence10.0k
0
gravatar for felix.ernst
4 weeks ago by
felix.ernst0 wrote:

Thanks a lot.

 

ADD COMMENTlink written 4 weeks ago by felix.ernst0
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