[R] some general advice sought on the use of gctorture()
laurent.franckx at vito.be
Fri Apr 24 15:49:31 CEST 2015
I have bumped into the dreaded 'segfault' error type when running some C++ code using .Call().
I have already undertaken several attempts to debug the C++ code with gdb(), but until now I have been unable to pinpoint the origin of the problem. There are two elements that I think are puzzling (a) this .Call() has worked fine for about three years, for a variety of data (b) the actual crash occurs at random points during the execution of the function (well, random from a human eye's point of view).
>From what I understand in the "R extensions" manual, the actual problem may have been around for a while before the actual call to the C++ code. As recommended in the manual, I am now using gctorture() to try to pinpoint the origins of the problem. I can, alas, only confirm that gctorture() has an enormous impact on execution time, even for operations that are normally executed within the blink of an eye. From what I have seen until now, executing all the R code before the crash with gctorture(TRUE) could take months.
I suppose then that the best way to proceed would be to proceed backward from the point where the crash occurs when gctorture(FALSE).
I have tried to find some concrete examples of good practices in the use of gctorture() to identify memory problems in R, but most of what I have found on the web is simply a copy of the help page. Does anybody know more concrete and elaborated examples that could give an indication on how to best proceed further?
Laurent Franckx, PhD
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