Hello fellow Macs,
I’m hoping to ask your help. I’m an R user with MacOSX Sierra (v10.12.3) and I
am encountering R (v3.3.3) crash problems loading a specific package for
genetic analysis: WGCNA
(https://cran.r-project.org/web/packages/WGCNA/index.html
<https://cran.r-project.org/web/packages/WGCNA/index.html>). I’ve contacted the
authors of the package and they suggested someone here might know something.
Basically the package installs fine, but loading the library causes immediate
crash with the following error output:
>
>> library("WGCNA")
> Loading required package: dynamicTreeCut
> Loading required package: fastcluster
>
> Attaching package: ‘fastcluster’
>
> The following object is masked from ‘package:stats’:
>
> hclust
>
>
> *** caught segfault ***
> address 0x18, cause 'memory not mapped'
>
> Traceback:
> 1: dyn.load(file, DLLpath = DLLpath, ...)
> 2: library.dynam(lib, package, package.lib)
> 3: loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
> 4: namespaceImport(ns, loadNamespace(i, c(lib.loc, .libPaths()),
> versionCheck = vI[[i]]), from = package)
> 5: loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
> 6: namespaceImport(ns, loadNamespace(i, c(lib.loc, .libPaths()),
> versionCheck = vI[[i]]), from = package)
> 7: loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
> 8: namespaceImport(ns, loadNamespace(i, c(lib.loc, .libPaths()),
> versionCheck = vI[[i]]), from = package)
> 9: loadNamespace(package, lib.loc)
> 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]] w <- 14L +
> nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w))
> w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type =
> "b") if (w > LONG) prefix <- paste0(prefix, "\n ") }
> else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e),
> "\n") .Internal(seterrmessage(msg[1L])) if (!silent &&
> identical(getOption("show.error.messages"), TRUE)) { cat(msg,
> file = stderr()) .Internal(printDeferredWarnings()) }
> invisible(structure(msg, class = "try-error", condition = e))})
> 14: try({ attr(package, "LibPath") <- which.lib.loc ns <-
> loadNamespace(package, lib.loc) env <- attachNamespace(ns, pos = pos,
> deps)})
> 15: library("WGCNA”)
Is anyone here perhaps familiar with this issue or something similar on OSX
Sierra?
Any suggestions would be much appreciated.
Thanks very much,
Billie
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