Error with newest ggplot2 version (2.2)

[ddiez]

I get an error when trying to plot a tree using the newest version of ggplot2 (2.2):

> library(ggtree)
> library(ape)
> tr <- rtree(10)
> ggtree(tr)
Error: StatTreeHorizontal was built with an incompatible version of ggproto.
Please reinstall the package that provides this extension.

[ddiez]

Installing ggtree from source seems to fix the problem.

[jrash]

Thanks, I was having the same issue and the fix worked for me too.

[danfulop]

@ddiez and @jrash which source? The stable source in bioconductor (v 1.0.21), the development source in bioconductor (v 1.7.3), or the source on GitHub in the master branch? Thanks!!

[ddiez]

@danfulop source means installing from source rather than the built binaries:

biocLite("ggtree", type = "source")

This will rebuild the package using the latest ggproto spec in ggplot2 and solve the problem.

[GuangchuangYu]

@danfulop The stable release version in bioconductor is 1.6.3.

For release version, pls always refer to https://bioconductor.org/packages/ggtree/.

Actually, if you visit old version (e.g. 1.0.21), the page will show you the following message:

This package is for version 3.1 of Bioconductor; 
for the stable, up-to-date release version, see ggtree.

[GuangchuangYu]

@ddiez I bump up the version to force BioC to re-build the tarball, see https://github.com/Bioconductor-mirror/ggtree/commit/68bfcfc37ca9b89a0ee1adf70f7ad2bc39964344.

[danfulop]

@ddiez Thanks for clarifying which source. ...and @GuangchuangYu thanks for pointing me to the proper bioconductor page; I didn't notice I was on an outdated BioC page.

[nick-youngblut]

I'm getting this same error when installing ggtree from with conda via conda install -c bioconda bioconductor-ggtree. Is the bioconda channel just not up-to-date?

My installed ggplot2 version is bioconda --> 2.2.0-r3.3.1_0 r

[GuangchuangYu]

don't use bioconda for r packages. most of them are out-dated.