Compiling problem:

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Hello fellows,

I'm currently developing an R package and having some trouble getting it to
install on Mac OS (the build process works fine on Windows 7 and Ubuntu 10).
The little prototype that I'm trying to get working compiles a large amount
of C++ code which is connected to R via Rcpp (0.8.2).  The C++ is compiled
using autoconfig scripts into a static library which is used in Makevars (in
the src directory).  Here is the relevant Makevars line (where libBrownie is
the static library just compiled):

PKG_LIBS=-s -L. -L./brownie_src -lBrownie -lR -lgsl -lgslcblas -lm
/opt/local/lib/R/library/Rcpp/lib/libRcpp.a

That sounds like a lot of trouble in itself (you should not include any R flags since that can break and -lR is not what's used on OS X; -s it bad as well and static libraries are better linked using their name since they have lower priority in -l). But it could be really anything including bugs in your package, so without the actual package I fear we can't help you much.
This step seems to work fine and if I run the ./configure script which is generated from the autoconfig file,
More trouble - you should never run configure by hand because it will likely use wrong settings (unless it is written such that it attempts to find R and run it to get flags)  - R CMD INSTALL is what you need to use so the correct architecture, compilers and flags are setup.

Cheers,
Simon
the library builds properly on Mac OS.
The problem manifests when installing the package:

** testing if installed package can be loaded

*** caught bus error ***
address 0x0, cause 'non-existent physical address'

Traceback:

1: dyn.load(file, DLLpath = DLLpath, ...)

2: library.dynam(lib, package, package.lib)

3: loadNamespace(package, c(which.lib.loc, lib.loc), keep.source =
keep.source)

4: doTryCatch(return(expr), name, parentenv, handler)

5: tryCatchOne(expr, names, parentenv, handlers[[1L]])

6: tryCatchList(expr, classes, parentenv, handlers)

7: 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 <- 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"))})

8: 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,
 deps)})

9: library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return =
TRUE)

10: withCallingHandlers(expr, packageStartupMessage = function(c)
invokeRestart("muffleMessage"))

11: suppressPackageStartupMessages(library(pkg_name, lib.loc = lib,
character.only = TRUE, logical.return = TRUE))

12: doTryCatch(return(expr), name, parentenv, handler)

13: tryCatchOne(expr, names, parentenv, handlers[[1L]])

14: tryCatchList(expr, classes, parentenv, handlers)

15: 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 <- 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"))})

16: try(suppressPackageStartupMessages(library(pkg_name, lib.loc = lib,
character.only = TRUE, logical.return = TRUE)))

17: do_install_source(pkg_name, instdir, pkg, desc)

18: do_install(pkg)

19: tools:::.install_packages()

aborting ...

/opt/local/lib/R/bin/INSTALL: line 34:  1357 Done                    echo
'tools:::.install_packages()'

     1358 Bus error               | R_DEFAULT_PACKAGES= LC_COLLATE=C
"${R_HOME}/bin/R" $myArgs --slave --args ${args}

I'm not really familiar with Mac OS at all so any direction would be great.
 Thanks!
Conrad

-- 
Conrad Stack
-----------------------
PSU Department of Biology
208 Mueller Lab
University Park, PA 16802
cell: 814.409.8310
email: conrad.stack at gmail.com

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