Update: I haven't run a memory checker, but what I did do is test binaries
compiled on the working OSX machine and they worked fine. So it's a compiler
problem most likely.
Working hypothesis: this is some flavor of the XCode 4.2 compiler problem I've
seen mentioned in a few other emails to this list, and some obscure difference
between the two machines makes it pop up on one and not the other.
I've got a reasonable workaround and am on a deadline so I'm unlikely to
investigate this further :).
Mike.
On Feb 8, 2012, at 9:28 AM, Dirk Eddelbuettel wrote:
>
> On 7 February 2012 at 15:47, Michael Shvartsman wrote:
> | Hi everyone -
> |
> | I'm running the same R/Rcpp codebase on about 8 machines, 4 of them OSX
> and 4 Ubuntu. Rcpp passes unit tests and my non-unittest code runs fine on 7
> of the 8 and gives sensible results, so I'm reasonably sure it's correct.
> However, test.NumericMatrix.cumsum gives me a segfault on the 8th machine, as
> does my own code (which does some indexing into, multiplying and summing of
> NumericVector's and NumericMatrix's). I am guessing / thinking that these
> might be related, which is why I am mentioning both.
> | The machine is a dual-hexacore Mac Pro box with OSX lion, Xcode 4.2, R
> 2.14.1. One of the functioning machines has slightly older hardware but the
> same version of OSX, same version of Xcode, and same version of R. I'm a bit
> at a loss. Unittest error reproduced below. My code just gives a 'memory not
> mapped' segfault. Any ideas of where else to look? Thanks,
>
> No good idea here. You seem to checked the obvious culprits. Maybe run a
> memory checker on that machine?
>
> Dirk
>
> |
> | Mike Shvartsman.
> |
> | ========== The unitTest segfault ===========
> | Executing test function test.NumericMatrix.cumsum ...
> | *** caught segfault ***
> | address 0x0, cause 'unknown'
> |
> | Traceback:
> | 1: .Primitive(".Call")(<pointer: 0x104c03f80>, x)
> | 2: funx(x)
> | 3: all.equal(target, current, tolerance = tolerance, ...)
> | 4: checkEquals(funx(x), t(apply(x, 1, cumsum)), msg = "cumsum")
> | 5: func()
> | 6: system.time(func())
> | 7: doTryCatch(return(expr), name, parentenv, handler)
> | 8: tryCatchOne(expr, names, parentenv, handlers[[1L]])
> | 9: tryCatchList(expr, classes, parentenv, handlers)
> | 10: 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", condition = e))})
> | 11: try(system.time(func()))
> | 12: .executeTestCase(funcName, envir = sandbox, setUpFunc = .setUp,
> tearDownFunc = .tearDown)
> | 13: .sourceTestFile(testFile, testSuite$testFuncRegexp)
> | 14: runTestSuite(testSuite)
> | aborting ...
> | Segmentation fault: 11
> | _______________________________________________
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> | Rcpp-devel@lists.r-forge.r-project.org
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>
> --
> "Outside of a dog, a book is a man's best friend. Inside of a dog, it is too
> dark to read." -- Groucho Marx
>
>
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