R SVGAnnotation/XML parser fails with OS X generated SVG files

[skilpinen]

Not certain if anybody has noticed following issue but I have been tracking a bug somewhere between R SVGAnnotation library - R SVG plotting device - OS X.

For example:
library(SVGAnnotation)
doc<-svgPlot(
{plot(1:10,1:10,pch=19)})

and then
ax <- getAxesLabelNodes(doc)
=> fails:
Error in tmp[i] : invalid subscript type 'list'

This is because inside getPlotRegionNodes() R ends up indexing empty list with empty list (tmp[i]).

If I repeat the same in Debian Linux it works perfectly.

I tracked this issue down to potentially being caused by difference in SVG generated in Linux and OS X. That same svgPlot() command results in different SVG files. They look same if one looks them from browser for example, but inside there are differences. Linux version contains 3 clipPath elements while OS X version contains 0

sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-apple-darwin12.0.0/x86_64 (64-bit)

locale:
[1] fi_FI.UTF-8/fi_FI.UTF-8/fi_FI.UTF-8/C/fi_FI.UTF-8/C

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] SVGAnnotation_0.93-1 XML_3.95-0.1

[zz2liu]

I have the same problem with ubuntu 14.04, I have carefully checked the versions of R, SVGAnnotation and XML. It seems that the problem (empty list from getPlotRegionNodes() stems from the version of libxml2. Found no fix yet.