search for: rf_initialize_r

Hi, I'm trying to understand (mostly from the R-exts manual) how to use the callbacks declared in Rinterface.h. As a first attempt, I'm trying to redefine ptr_R_WriteConsole in a very trivial manner. Here's my code: --------------- $ cat altr.c int Rf_initialize_R(int ac, char **av); #define R_INTERFACE_PTRS 1 #include <Rinterface.h> extern int R_running_as_main_program; static void my_R_WriteConsole(char *buf, int len) { printf("R<< %s", buf); } int main(int ac, char **av) { R_running_as_main_program = 1; ptr_R_WriteCon...

...ad successfully Reading ld.so.1 Reading libR.so Reading libRblas.so Reading libc.so.1 Reading libm.so.2 Reading libreadline.so.5 Reading libpcre.so.0.0.0 program terminated by signal SEGV (no mapping at the fault address) 0xfffffd7fff21fb50: strlen+0x0030: pcmpeqb (%rsi),%xmm0 Current function is Rf_initialize_R (optimized) 331 if(strlen(cmdlines) + strlen(*av) + 2 <= 10000) { dbx<1> where [1] strlen(0x0, 0x0, 0xffff, 0x0, 0xffff, 0x3), at 0xfffffd7fff21fb50 =>[2] Rf_initialize_R(ac = ???, av = ???) (optimized), at 0xfffffd7...

...he future, I changed my init fuction to: ---------- SNIP ---------------- void init_r() { SEXP aperm_function; /* this is our version of Rf_initEmbeddedR where we disable stack checking */ const char *init_argv[] = {"MyFront", "--vanilla", "--slave"}; Rf_initialize_R(sizeof (init_argv) / sizeof (init_argv[0]), (char**) init_argv); /* Disable stack limit checking since it is incompatible being loaded on a child thread */ R_CStackLimit = (uintptr_t)-1; R_Interactive = TRUE; /* Rf_initialize_R set this based on isatty */ setup_Rmainloop();...

...lude -I/usr/local/include -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector -Wl,-rpath=/usr/local/lib/gcc49 -isystem /usr/local/include -fno-strict-aliasing -c system.c -o system.o system.c: In function 'Rf_initialize_R': system.c:213:13: error: 'RLIM_SAVED_CUR' undeclared (first use in this function) if (lim == RLIM_SAVED_CUR || lim == RLIM_SAVED_MAX) ^ system.c:213:13: note: each undeclared identifier is reported only once for each function it appears in system.c:213:38: error: 'RL...

Hi everyone! I meet one problem when embedding R in C code, when I run the the R code in one child thread , it always print error info: Error: C stack usage is too close to the limit I also try to set R_CStackLimit = (uintptr_t)-1 to disable the C stack check as the R-exts doc say, but it still does not work, the error info still exist. Besides it is interesting that if i

...#39;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&quo...

...RestoreAction = StartupRestoreAction.NoRestore, NoRenviron = false }; rEngine.Initialize(rStartParams); // calls the R API R_SetParams, then setup_Rmainloop I gather that the following is hit in src/R-3.0.2/src/unix/system.c, in the function Rf_initialize_R: if (!R_Interactive && Rp->SaveAction != SA_SAVE && Rp->SaveAction != SA_NOSAVE) R_Suicide(_("you must specify '--save', '--no-save' or '--vanilla'")); I don't understand why it would complain if spawned by mpiexec and fine otherwi...

...; input; for (unsigned int i = 0; i < input.length(); ++i) { buf[i] = input[i]; buf[i+1] = '\n'; buf[i+2] = '\0'; if ((int)i >= buflen-3) break; } return input.length(); } extern "C" { #define R_INTERFACE_PTRS #include <Rinterface.h> int Rf_initialize_R(int ac, char **av); /* in ../unix/system.c */ extern int R_running_as_main_program; /* in ../unix/system.c */ } int main(int ac, char **av) { R_running_as_main_program = 1; Rf_initialize_R(ac, av); ptr_R_WriteConsoleEx = &R_WriteConsoleEx; ptr_R_WriteConsole = &R_WriteConsole;...

...o disable the C > stack check as the R-exts doc say, > but it still does not work, the error info still exist. > That is the way to do it (and other project use it successfully) - the fact that it doesn't work means that you probably do it at the wrong place (you must set it *after* Rf_initialize_R). Cheers, Simon ---------------------------------------- SNIP ------------------------------------------------------------------------------ my code is as follows ---------------------------------------- SNIP ------------------------------------------------------------------------------ void ini...

...error occurs: Fatal error: you must specify '--save', '--no-save' or '--vanilla' This is confusing becasue I believe I have set this by changing the startup parameters so that the no-save option is in use. I initialize R with the following collection of function calls: 1-Rf_initialize_R 2-R_SetParams 3-setup_Rmainloop At step 2 I pass in a structure that specifies the no-save option (as well as interactive=true, verbose=false), so I would expect it to be okay, but I still receive this error. Again, not at the terminal but only when run as a separate process. I gathered from this...

...S Options enabled: shared BLAS, R profiling, Java Recommended packages: yes Make ends after the gcc.. make . . . gcc -I. -I../../src/include -I../../src/include -I/usr/openwin/include -I/usr/local/include -DHAVE_CONFIG_H -g -O2 -c system.c -o system.o system.c: In function `Rf_initialize_R': system.c:144: parse error before `char' system.c:216: `localedir' undeclared (first use in this function) system.c:216: (Each undeclared identifier is reported only once system.c:216: for each function it appears in.) *** Error code 1 make: Fatal error: Command failed for target `syst...

...*info; setenv("R_HOME","/usr/lib/R",0); structRstart rp; Rstart Rp = &rp; R_setStartTime(); R_DefParams(Rp); Rp->R_Quiet = TRUE; Rp->RestoreAction = SA_RESTORE; Rp->SaveAction = SA_NOSAVE; R_SetParams(Rp); R_Interactive = TRUE; Rf_initialize_R(argc, argv); setup_Rmainloop(); R_ReplDLLinit(); info = R_getEmbeddingDllInfo(); R_registerRoutines(info, cMethods, callMethods, NULL, NULL); } int main (int argc, char** argv) { int i; initR(); r_exec("x <- function (f) { .Call(\"set_callback1\",f); }"...

...sing the same console based, interactive, "*** caught segfault ***" logic to execute. I was able to confirm that R_Interactive was set to TRUE in my PL/R session. It seems that Rf_initEmbeddedR() sets R_Interactive to TRUE and depends on the output of isatty() to change it to FALSE in Rf_initialize_R() if there is no tty. Unfortunately, the most common methods for starting Postgres leave the tty attached (stdout and stderr are directed to the log file). I ended up explicitly writing "R_Interactive = FALSE" just after running Rf_initEmbeddedR() -- is this a safe and reasonable thin...

...initely lost in loss record 18 of 36 ==5085== at 0x1B90659D: malloc (vg_replace_malloc.c:130) ==5085== by 0x8060C28: Putenv (Renviron.c:123) ==5085== by 0x8060DF2: process_Renviron (Renviron.c:181) ==5085== by 0x8060F31: process_system_Renviron (Renviron.c:203) ==5085== by 0x816068B: Rf_initialize_R (system.c:160) ==5085== by 0x805DA1A: main (Rmain.c:30) ==5085== ==5085== LEAK SUMMARY: ==5085== definitely lost: 436 bytes in 20 blocks. ==5085== possibly lost: 0 bytes in 0 blocks. ==5085== still reachable: 12983993 bytes in 6602 blocks. ==5085== suppressed: 0 bytes in 0 blo...

...nviron = 0; Rp->R_Interactive = (Rboolean)1; R_SetParams(Rp); R_SignalHandlers=0; if (!getenv("R_HOME")) { fprintf(stderr, "R_HOME is not set. Please set all required environment variables before running this program.\n"); return(-1); } int stat= Rf_initialize_R(argc,(char **) argv); if (stat<0) { fprintf(stderr,"Failed to initialize embedded R!:%d\n",stat); return(-2); } R_Outputfile = NULL; R_Consolefile = NULL; R_Interactive = (Rboolean)1; // ptr_R_ShowMessage = Re_ShowMessage; // ptr_R_WriteConsoleEx =Re_Writ...

...clude -DLIBICONV_PLUG -I/usr/local/include -isystem > /usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -pipe > -DLIBICONV_PLUG -fstack-protector -Wl,-rpath=/usr/local/lib/gcc49 > -isystem /usr/local/include -fno-strict-aliasing -c system.c -o system.o > system.c: In function 'Rf_initialize_R': > system.c:213:13: error: 'RLIM_SAVED_CUR' undeclared (first use in this > function) > if (lim == RLIM_SAVED_CUR || lim == RLIM_SAVED_MAX) > ^ > system.c:213:13: note: each undeclared identifier is reported only once > for each function it appears in &...

Hi all, I'm developing an application on Mac OS X Darwin which embeds R. However, the application always crashes due to the C stack checking. I know that R_CStackLimit can be set to -1 to disable the stack checking, but I don't know where to put the code "R_CStackLimit=-1". Please give some instructions. Thank you very much! Here is my compiler infomation: $g++ -v Using

Hello Everyone, I had posted the message below to the r-help listserv... >Recently I was given a Java servlet based web calculator that will >call R (libR.so to be exact) but I am having trouble trying to disable R >from requiring --save, --no-save or --vanilla... Is there any way to >build R on linux and disable R from asking --save, --no-save or --vanilla?? I received this

...check as the R-exts doc say, >> but it still does not work, the error info still exist. >> > > That is the way to do it (and other project use it successfully) - the > fact that it doesn't work means that you probably do it at the wrong > place (you must set it *after* Rf_initialize_R). > > Cheers, > Simon > ---------------------------------------- SNIP > ------------------------------------------------------------------------------ > > my code is as follows > > ---------------------------------------- SNIP > ----------------------------------------...

...names.o R_EditFiles platform.o R_getProcTime memory.o R_ExpandFileName Renviron.o R_OpenInitFile main.o R_getClockIncrement eval.o R_ReadConsole connections.o Rf_initialize_R Rmain.o call_dqags registration.o call_dqagi registration.o deflateEnd connections.o ptr_R_EditFile ../unix/libunix.a(edit.o) inflateEnd connections.o Rf_lcho...