similar to: alloc

Hi all, Thanks to Prof. Ripley, Prof. Gentleman, and Simon Wood (did I miss anyone?). The problem seemed to have gone away. Everyone suggested using some malloc debugger (such as Electric Fence). All I did was following half of what BDR suggested below, i.e., changing all the S_alloc() calls to Calloc() and Free(). I didn't get to try efence, and the problem seems to have disappeared! As

Running on an Alpha machine which reports (uname -a) OSF1 bsdx01.bs.ehu.es V4.0 878 alpha and using the binary distribution put together by Albrecht Gebhardt (in http://cran.at.r-project.org/bin/osf/osf4.0/tar/alpha_ev5/) I obtain core dumps whenever I try to use package rpart. I have R REMOVE'd the rpart package, downloaded the source rpart_1.0-7.tar from CRAN and

I want to write a little stand-alone C program that calls R_alloc, but I get a segmentation fault: int main(int argc, char** argv){ double* d = (double *)R_alloc(2, sizeof(double)); // <- segmentation fault! return 0; } gdb reveals that sizeof(double) evaluated to 0: > R_alloc (nelem=2, eltsize=0) at memory.c:1649 so it results in the segfault later. This is how I compile my

Does anyone know what exactly S_alloc() does? (Yes, it's porting time again ...) Thanks, -k =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=- r-devel mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To:

Dear R-devel, Last week I got several responses to my question about debugging segfaults in my code (original post below). After I changed the S_alloc() calls to Calloc()/Free(), the symptom was gone, but I was told to keep looking. So I did: o Switched to Calloc/Free. Electric Fence did not find any problem. o Put assert(index < bound); assert(index >=0); everywhere in the C routine

Hi all, Could anyone point me to one or more examples in the R sources of a C function that is called without knowing in advance what will be the length (say) of the output vector? To make myself clearer, we have a C function that computes probabilities until their sum gets "close enough" to 1. Hence, the number of probabilities is not known in advance. I would like to have an

(Sorry for the cross-post--- I wasn't sure which list is more appropriate...) Hi everyone, I've run into segfaults when using my randomForest package on large dataset (e.g., 100 x 15200) and large number of trees (e.g., ntree=7000 and mtry=3000). I'm wondering if anyone can give me some hints on where to look for the problem. The randomForest package mainly consists of two things:

(Sorry for the cross-post--- I wasn't sure which list is more appropriate...) Hi everyone, I've run into segfaults when using my randomForest package on large dataset (e.g., 100 x 15200) and large number of trees (e.g., ntree=7000 and mtry=3000). I'm wondering if anyone can give me some hints on where to look for the problem. The randomForest package mainly consists of two things:

(I dithered a bit about whether this belongs on r-help (as part of it is a general R question) or r-devel (as it's a question relating to putting stuff on CRAN) but decided it might be of general enough interest to go on the former ) I am currently preparing an R library to estimate approximate posterior distributions for parameters in Generalised Linear Mixed Models by Gibbs Sampling

I am trying to write a C function to create a vector of integers that can be used by the R calling function. I do not know the size of the vector in the R calling function. (Well, actually, I have an upper limit on the size, but that is so large that R cannot allocate it. What I'm doing in the function is to do a sieving procedure, and the result will be small enough to fit into my

Happy 1999! I've been celebrating the holidays by (finally) getting to the port of our S+ NetCDF routines to R, which I'm trying to make into a library. At the moment, there are two issues I'd appreciate advice on: 1. Is support for mode "single" data planned anytime soon in R? A lot of our NetCDF files contain "single" data and having to coerce into

Full_Name: Dr. Hans A. Kestler Version: 1.8.1. OS: Linux, Win, Mac OSX Submission from: (NULL) (134.60.73.116) The code below produces after a different number of iterations i the following error: Error in optim(par = rep(0.5, length(edges)), loglik, method = "L-BFGS-B", : non-finite value supplied by optim This was reproducible on different machines (Mac G4 OSX, AMD Opteron

The current version of S_alloc in src/main/memory.c is char *S_alloc(long nelem, int eltsize) { unsigned int i, size; char *p = R_alloc(nelem, eltsize); for(i=0 ; i<size; i++) p[i] = 0; return p; } which segfaults because `size' is not initialized. I am not what the right fix is, adding size = nelem * eltsize; before the loop seems to work. As an aside ... I think the seed*

Hi, I have problems when calling fft_factor and fft_work directly in my C-code. Martin Maechler already told me that I should not do this -- anyway, the code works fine if the length of the vector is a multiple of 2,3,5. If the length of the vector has different form I get, in some cases, a segmentation fault when work and iwork are freed (I use C's malloc to allocate memory for work and

Hi, I just downloaded R for windows and subscribed to this list. I would like to know if it is possible to install an add-on package (e.g. spatial) in the Win95 version (0.61.1). Thank you, Pierre ======================================= Pierre Vernier Research Associate / GIS Coordinator Centre for Applied Conservation Biology Forest Sciences, UBC Phone 1: (604) 822-8288 Phone 2: (604)

Thanks to everyone who helped with my query---Professors Riply, Bates, Lumley, and Tim Keitt. I said <snip> > My worries are > > a) That I've used calloc rather than S_alloc throughout. Professors Bates and Ripley both pointed out that calloc should be replaced by Calloc and free by Free, which, I'll do. ---- I said: > b) That I've used the following

I am on Solaris 7, using R_1.7.1 developing packages for both Splus and R. We have a working R-package for haplo.score and now converting to haplo.stats. R CMD INSTALL -l /people/biostat3/sinnwell/Rdir/library haplo.stats_1.1.0.tar.gz works like a charm-- as comparable to our working version of haplo.score. But problems are when I'm loading the library within R. Within my package I have

Hi, I am having problems when trying to apply factor analysis in a covariance matrix, > factanal(covmat=strip1cmcd, factors=5, control=list(lower=0.0264)) Error in optim(start, FAfn, FAgr, method = "L-BFGS-B", lower = lower, : non-finite value supplied by optim In addition: Warning message: NaNs produced in: sqrt(diag(cv)) I have searched for possible solutions in

A non-text attachment was scrubbed... Name: not available Type: text Size: 722 bytes Desc: not available Url : https://stat.ethz.ch/pipermail/r-help/attachments/19990122/cea14ffd/attachment.pl

Allocating many small objects triggers numerous garbage collections as R grows its memory, seriously degrading performance. The specific use case is in creating a STRSXP of several 1,000,000's of elements of 60-100 characters each; a simplified illustration understating the effects (because there is initially little to garbage collect, in contrast to an R session with several packages