[Bioc-devel] xcms build failure

[Dan Tenenbaum]

Hi Steffen,

On Sat, Nov 19, 2011 at 11:20 AM, Steffen Neumann <sneumann at ipb-halle.de> wrote:
> Hi,
>
> I am unsure why xcms fails to build (it seems it has never been built
> successfully on R-2.15-devel at all), there is a segfault
> in mt.test() on all architectures. I can't reproduce this
> here with a recent R-2.15 build. Is it mt.test(), or the data we pass?


There are a number of packages in the devel build report which fail to
build on all platforms, segfaulting on Linux and Mac OS.

I just tried building xcms with the most recent R-devel snapshot, and
got the same segfault.

We've been investigating this and will continue to do so.

Can you send me the sessionInfo() of the machine where you have been
able to build xcms successfully with a recent R-devel?

Thanks
Dan


>
> Any ideas ?
>
> Yours,
> Steffen
>
> *** caught segfault ***
> address 0x6, cause ‘memory not mapped’
>
> Traceback:
>  1: .C("get_stat", as.double(tmp$X), as.integer(tmp$m), as.integer(tmp$n),     as.integer(tmp$classlabel), as.double(na), teststat = double(tmp$m),     as.character(options), as.integer(extra), PACKAGE = "multtest")
>  2: mt.teststat(testval, testclab, ...)
>  3: .local(object, ...)
>  4: diffreport(xsgf, "ham4", "ham5", "example", eicmax = 4, h = 480,     w = 640)
>
>
> --
> IPB Halle                    AG Massenspektrometrie & Bioinformatik
> Dr. Steffen Neumann          http://www.IPB-Halle.DE
> Weinberg 3                   http://msbi.bic-gh.de
> 06120 Halle                  Tel. +49 (0) 345 5582 - 1470
>                                  +49 (0) 345 5582 - 0
> sneumann(at)IPB-Halle.DE     Fax. +49 (0) 345 5582 - 1409
>
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