[R-SIG-Mac] problem with some packages in R 2.6.0 alpha for Mac

[Kasper Daniel Hansen]

For Rgraphviz we need to know what version of Graphviz you are using  
and how you installed it.

Kasper

On Sep 16, 2007, at 10:26 AM, William Revelle wrote:

> Hi,
>
> The packages polycor and Rgraphviz have a bus error (and R crash)
> when running their examples under 2.6.0 alpha.  They both work
> perfectly well with 2.5.1.
>
>
> I have written John Fox about polycor and he reports that it works
> fine for Windows XP with R 2.6.0 alpha and suggests it is a Mac 2.6.0
> problem.
>
> Good luck and thanks for such a wonderful interface to such a
> wonderful program.
>
>
> Bill
>
>
> Below are the two error logs:
>
>
>    Using  a MacBook Pro:
> platform       i386-apple-darwin8.10.1
> arch           i386
> os             darwin8.10.1
> system         i386, darwin8.10.1
> status         alpha
> major          2
> minor          6.0
> year           2007
> month          09
> day            15
> svn rev        42871
> language       R
> version.string R version 2.6.0 alpha (2007-09-15 r42871)
>
>
> [Workspace restored from /Volumes/WR/bill/.RData]
>
>>  library(polycor)
> Loading required package: mvtnorm
>>  ?polychor
>>  set.seed(12345)
>>  data <- rmvnorm(1000, c(0, 0), matrix(c(1, .5, .5, 1), 2, 2))
>>  x <- data[,1]
>>  y <- data[,2]
>>  cor(x, y)  # sample correlation
> [1] 0.5285446
>>  x <- cut(x, c(-Inf, .75, Inf))
>>  y <- cut(y, c(-Inf, -1, .5, 1.5, Inf))
>>  polychor(x, y)  # 2-step estimate
>
> ---for polycor , running the  polychor demo
>
>
>   *** caught bus error ***
> address 0x0, cause 'non-existent physical address'
>
> Traceback:
>   1: .Fortran("mvtdst", N = as.integer(n), NU = as.integer(df), LOWER
> = as.double(lower),     UPPER = as.double(upper), INFIN =
> as.integer(infin), CORREL = as.double(corrF),     DELTA =
> as.double(delta), MAXPTS = as.integer(maxpts), ABSEPS =
> as.double(abseps),     RELEPS = as.double(releps), error =
> as.double(error), value = as.double(value),     inform =
> as.integer(inform), PACKAGE = "mvtnorm")
>   2: mvt(lower = lower, upper = upper, df = 0, corr = corr, delta =
> mean,     maxpts = maxpts, abseps = abseps, releps = releps)
>   3: pmvnorm(lower = c(row.cuts[i], col.cuts[j]), upper = c(row.cuts[i
> +     1], col.cuts[j + 1]), corr = R)
>   4: binBvn(rho, row.cuts, col.cuts)
>   5: f(arg, ...)
>   6: function (arg) f(arg, ...)(-0.23606797749979)
>   7: optimise(f, interval = c(-1, 1))
>   8: polychor(x, y)
>
> Possible actions:
> 1: abort (with core dump, if enabled)
> 2: normal R exit
> 3: exit R without saving workspace
> 4: exit R saving workspace
> Selection: polychor(x, y, ML=TRUE, std.err=TRUE)  # ML estimate
> Selection:
>
>
> --------------------------
> for Rgraphviz, running the graphviz demo
> restarted R 2.6.0,
> libary(Rgraphviz)
> _____________________________________
>
>>   V <- letters[1:10]
>>    M <- 1:4
>>    g1 <- randomGraph(V, M, .2)
>
>   *** caught bus error ***
> address 0xc, cause 'non-existent physical address'
>
> Traceback:
>   1: .Call("graph_is_adjacent", fromEdges, to, PACKAGE = "graph")
>   2: isAdjacent(graph, from, to)
>   3: isAdjacent(graph, from, to)
>   4: graph:::.verifyEdges(graph, from, to)
>   5: graph:::.getEdgeKeys(self, from, to)
>   6: `edgeData<-`(`*tmp*`, from = from, to = to, attr = "weight",
> value = c(1, 2, 2, 1, 1, 2, 1, 2, 1, 1, 1, 1))
>   7: `edgeData<-`(`*tmp*`, from = from, to = to, attr = "weight",
> value = c(1, 2, 2, 1, 1, 2, 1, 2, 1, 1, 1, 1))
>   8: graphNEL_init_edgeL_weights(.Object)
>   9: .local(.Object, ...)
> 10: initialize(value, ...)
> 11: initialize(value, ...)
> 12: new("graphNEL", nodes = V, edgeL = rval)
> 13: randomGraph(V, M, 0.2)
>
>
> -- 
> 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/
> Use R for statistics:                          http://personality- 
> project.org/r
>
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