Gviz IdeogramTrack fails if species has no band information
2
0
Entering edit mode
@ariloytynoja-7517
Last seen 4.0 years ago
Finland

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

 
gviz ideogram • 1.3k views
ADD COMMENT •
0
Entering edit mode
@florianhahnenovartiscom-3784
Last seen 5.6 years ago
Switzerland

Should be fixed in version 1.10.11. Thanks for reporting.

Florian
ADD COMMENT •
0
Entering edit mode

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 REPLY •
0
Entering edit mode
@florianhahnenovartiscom-3784
Last seen 5.6 years ago
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 COMMENT •

Login before adding your answer.

Similar Posts
Loading Similar Posts
Traffic: 946 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6