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Question: Gviz IdeogramTrack fails if species has no band information
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gravatar for ari.loytynoja
3.6 years ago by
Finland
ari.loytynoja0 wrote:

With a previous version of Gviz I could plot an ideogram for dog: the ideogram had no bands but it showed the location of the region. With the new version I now get an error.

> packageVersion("Gviz")
[1] ‘1.11.12’
> idxTrack <- IdeogramTrack(genome = "canFam3", chromosome = "chr28")
Error in if (any(bnames == "")) bnames[bnames == ""] <- sprintf("band_%i",  :
  missing value where TRUE/FALSE needed

 

ADD COMMENTlink modified 3.6 years ago by florian.hahne@novartis.com1.6k • written 3.6 years ago by ari.loytynoja0
0
gravatar for florian.hahne@novartis.com
3.6 years ago by
Switzerland

Should be fixed in version 1.10.11. Thanks for reporting.

Florian

ADD COMMENTlink written 3.6 years ago by florian.hahne@novartis.com1.6k

Thanks!

I saw a similar issue being reported for human MT. I thought that the development version would already contain the fix (as shown above, I tried version 1.11.12) but it gives an error with dog and I therefore reported it again. 

Does it mean that the last number of release and development versions are not synced and 1.10.11 will be ahead of 1.11.12? 

ADD REPLYlink written 3.6 years ago by ari.loytynoja0
0
gravatar for florian.hahne@novartis.com
3.6 years ago by
Switzerland

Not really,

this was introduced by another fix that I did not test properly. The new fix will be available both in devel 1.11.13 and in prod 1.10.11.

ADD COMMENTlink written 3.6 years ago by florian.hahne@novartis.com1.6k
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