[Rd] Crash in R using embedded.

Dirk Eddelbuettel edd at debian.org
Wed Feb 1 19:07:08 CET 2012

On 1 February 2012 at 10:24, Dave Pugmire wrote:
| Hi,
| I'm new to R, and am trying to embed R into another application.
| I'm calling gev.fit() from the ismev package, and it is crashing somewhere
| inside it.
| gdb is not catching it, and valgrind is not showing any memory corruption
| issues.
| I suspect it's memory corruption, because it doesn't crash in exactly the
| same spot each time.
| I'm running R 2.12.2 on a 64 bit linux (Ubuntu 10.04)
| Also, before I make the gev.fit() call, I save out the R state using
| "save.image(....)", then load the image file into a standalone R on the
| console, and call gev.fit(), and it works fine.
| So, it's something to do with my app, and the R.
| I'm looking for hints/ideas/tricks/etc for debugging this.
| I'm starting to put print statements into the R code, and into the C code
| in R (src/main/optim.c), but it hasn't shown me the source of the problem.
| Thanks!
| Here is the code I'm using to initialize:
| putenv("R_HOME=/apps/R/install/lib64/R");
| const char *R_argv[]= {"RInterfaceTest", "--gui=none", "--no-save",
| "--no-readline", "--silent"};
| Rf_initialize_R(sizeof(R_argv)/sizeof(R_argv[0]), const_cast<char
| **>(R_argv));
| setup_Rmainloop();
| ParseStatus status;
| SEXP cmdSexp, cmdexpr = R_NilValue;
| int error;
| string rcommand = "f<-file(paste(tempdir(), \"/Routput.txt\", sep = \"\"),
| open=\"wt+\")\nsink(f)\n";
| PROTECT(cmdSexp = allocVector(STRSXP, 1));
| SET_STRING_ELT(cmdSexp, 0, mkChar(rcommand.c_str()));
| cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilValue));
| for(int i = 0; i < length(cmdexpr); i++)
| {
|      R_tryEval(VECTOR_ELT(cmdexpr, i),NULL,&error);
|  }

FWIW I think both littler and RInside use a bit more legwork to initialize
the R engine they embed. The code is public, so you could look at that.

And/or you could of course just use RInside to make your life easier...


"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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