[R-SIG-Mac] Mac GUI for 2.9.0 alpha and Rgraphviz

[Kasper Daniel Hansen]

What do you mean by "running R.app directly from the X11 window"?

We would also like to get some details on what version of Rgraphviz  
you are using as well as what version of Graphviz you are using and  
how you installed the two versions? graphvizVersion() might be useful.  
It might also be useful to update to the latest version of Rgraphviz  
in the devel branch of Bioconductor, it has version 1.21.9 and install  
it from source.

Kasper


On Mar 23, 2009, at 6:52 , William Revelle wrote:

> Dear Simon and other Mac Gui developers,
>
> I have been testing the psych package for 2.9.0 and have found an  
> unrelated  problem with the GUI when it is interacting with Rgraphviz.
>
> If I run R.app directly from the X11 window, I can load and run  
> Rgraphviz with no problem.
>
> But, when I try loading the Rgraphviz package by
>> library(Rgraphviz)  , the Gui crashes;
>
> *** caught segfault ***
> address 0x656c7574, cause 'memory not mapped'
>
> Traceback:
> 1: .Call("Rgraphviz_init", PACKAGE = "Rgraphviz")
> 2: fun(...)
> 3: doTryCatch(return(expr), name, parentenv, handler)
> 4: tryCatchOne(expr, names, parentenv, handlers[[1L]])
> 5: tryCatchList(expr, classes, parentenv, handlers)
> 6: tryCatch(expr, error = function(e) {    call <- conditionCall(e)  
> if (!is.null(call)) {        if (identical(call[[1L]],  
> quote(doTryCatch)))             call <- sys.call(-4L)        dcall  
> <- deparse(call)[1L]        prefix <- paste("Error in", dcall, ": ")  
> LONG <- 75L        msg <- conditionMessage(e)        sm <-  
> strsplit(msg, "\n")[[1L]]        if (14L + nchar(dcall, type = "w")  
> + nchar(sm[1L], type = "w") >             LONG)             prefix  
> <- paste(prefix, "\n  ", sep = "")    }    else prefix <- "Error : "  
> msg <- paste(prefix, conditionMessage(e), "\n", sep =  
> "") .Internal(seterrmessage(msg[1L]))    if (!silent &&  
> identical(getOption("show.error.messages"),         TRUE))  
> { cat(msg, file =  
> stderr())        .Internal(printDeferredWarnings()) }     
> invisible(structure(msg, class = "try-error"))})
> 7: try({    fun(...)    NULL})
> 8: runHook(".onLoad", package, env, package.lib, package)
> 9: loadNamespace(package, c(which.lib.loc, lib.loc), keep.source =  
> keep.source)
> 10: doTryCatch(return(expr), name, parentenv, handler)
> 11: tryCatchOne(expr, names, parentenv, handlers[[1L]])
> 12: tryCatchList(expr, classes, parentenv, handlers)
> 13: tryCatch(expr, error = function(e) {    call <- conditionCall(e)  
> if (!is.null(call)) {        if (identical(call[[1L]],  
> quote(doTryCatch)))             call <- sys.call(-4L)        dcall  
> <- deparse(call)[1L]        prefix <- paste("Error in", dcall, ": ")  
> LONG <- 75L        msg <- conditionMessage(e)        sm <-  
> strsplit(msg, "\n")[[1L]]        if (14L + nchar(dcall, type = "w")  
> + nchar(sm[1L], type = "w") >             LONG)             prefix  
> <- paste(prefix, "\n  ", sep = "")    }    else prefix <- "Error : "  
> msg <- paste(prefix, conditionMessage(e), "\n", sep =  
> "") .Internal(seterrmessage(msg[1L]))    if (!silent &&  
> identical(getOption("show.error.messages"),         TRUE))  
> { cat(msg, file =  
> stderr())        .Internal(printDeferredWarnings()) }     
> invisible(structure(msg, class = "try-error"))})
> 14: try({    ns <- loadNamespace(package, c(which.lib.loc, lib.loc),  
> keep.source = keep.source)    dataPath <- file.path(which.lib.loc,  
> package, "data")    env <- attachNamespace(ns, pos = pos, dataPath =  
> dataPath)})
> 15: library(Rgraphviz)
>
> my sessionInfo is
>
> R version 2.9.0 alpha (2009-03-21 r48181)
> i386-apple-darwin8.11.1
>
> locale:
> en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] psych_1.0-67
>
> R 2.8.1 GUI 1.27 Tiger build 32-bit (5372)
>
>
> (I have the identical problem with
> R.app GUI 1.28-devel (5355 Leopard build 32-bit),)
>
> In that this does not happen in the R.app itself, but with the Mac  
> Gui, I am reporting it here.
>
> Thanks again for the wonderful GUI.  My students who use PCs are  
> very jealous.
>
> Bill
>
>
>
> -- 
> William Revelle		http://personality-project.org/revelle.html
> Professor			http://personality-project.org/personality.html
> Department of Psychology             http://www.wcas.northwestern.edu/psych/
> Northwestern University	http://www.northwestern.edu/
> Attend  ISSID/ARP:2009               http://issid.org/issid.2009/
>
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