[BioC] Problems with SVGAnnotation package

[Dan Tenenbaum]

Hi Kevin,



On Mon, Apr 29, 2013 at 2:10 PM, Kevin Ushey <kevinushey at gmail.com> wrote:
> Hi,
>
> I'm having trouble using the SVGAnnotation package with R 3.0.0. In
> particular, I'm unable to run any of the examples available at
> http://www.omegahat.org/SVGAnnotation/tests/examples.html ; these all
> worked AFAIK with R prior to 3.0.0. Here's some example output from trying
> to run the first example on the page:
>
>> ?SVGAnnotation
>> svg("pairs_link.svg", 14, 10)
>> pairs(mtcars[,1:3], cex = 2)
>> dev.off()
> RStudioGD
>         2
>>
>> doc = xmlParse("pairs_link.svg")
>> linkPlots(doc)
> Error in tmp[i] : invalid subscript type 'list'
>> saveXML(doc, "pairs_link.svg")
> [1] "pairs_link.svg"
>
> Note the error occuring with 'linkPlots(doc)'. Tracebacks suggest the error
> occurs in 'getPlotRegionNodes'; however, I am not familiar enough with the
> package to debug further.
>
>> sessionInfo()
> R version 3.0.0 (2013-04-03)
> Platform: x86_64-apple-darwin10.8.0 (64-bit)
>
> locale:
> [1] en_CA.UTF-8/en_CA.UTF-8/en_CA.UTF-8/C/en_CA.UTF-8/en_CA.UTF-8
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] SVGAnnotation_0.93-1 XML_3.95-0.2
>
> loaded via a namespace (and not attached):
> [1] tools_3.0.0
>
> Any insight would be helpful.
>

I recommend contacting
packageDescription("SVGAnnotation")$Maintainer
as this is not a Bioconductor package (it's not a CRAN package either).
Dan


> Thanks,
> -Kevin
>
>         [[alternative HTML version deleted]]
>
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