Question

Gviz IdeogramTrack fails if species has no band information

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ari.loytynoja • 0

@ariloytynoja-7517

Last seen 4.5 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 • 1.5k views

ADD COMMENT • link updated 9.7 years ago by florian.hahne@novartis.com ★ 1.6k • written 9.7 years ago by ari.loytynoja • 0

score 0 · Answer 1 · 2015-03-26

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florian.hahne@novartis.com ★ 1.6k

@florianhahnenovartiscom-3784

Last seen 6.2 years ago

Switzerland

Should be fixed in version 1.10.11. Thanks for reporting.

Florian

ADD COMMENT • link 9.7 years ago florian.hahne@novartis.com ★ 1.6k

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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 • link 9.7 years ago ari.loytynoja • 0

score 0 · Answer 2 · 2015-03-26

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florian.hahne@novartis.com ★ 1.6k

@florianhahnenovartiscom-3784

Last seen 6.2 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 • link 9.7 years ago florian.hahne@novartis.com ★ 1.6k