similar to: Compilation problems with R4.4.0

Hi all, I seem to be getting segfaults when attempting to build R 4.4.0 on RHEL 9.1 (5.14.0-162.23.1.el9_1.x86_64). Interestingly, it seems to build ok on Rocky 9.1 and 9.3. This is the trace: make[3]: Entering directory '/home/esteva.m/R/R-4.4.0/src/library/grDevices' building package 'grDevices' make[4]: Entering directory

Hi Ivan, An apology, I was away for quite a bit. To reproduce the setup: I have been using the default GCC in RHEL 9.1. gcc -v Using built-in specs. COLLECT_GCC=gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/11/lto-wrapper OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 Target: x86_64-redhat-linux Configured with: ../configure --enable-bootstrap --enable-host-pie

Dear Miguel Esteva, I couldn't get a Red Hat "ubi9" container to install enough dependencies to build R. Is there a way to reproduce your setup on a virtual machine somewhere? On Fri, 3 May 2024 00:42:43 +0000 Miguel Esteva via R-help <r-help at r-project.org> wrote: > *** caught segfault *** > > address 0x1801fa8f70, cause 'memory not mapped' > >

Hello, I'm trying to install KEGGSOAP with bioconductor but i'm facing this problem: /> biocLite("KEGGSOAP") BioC_mirror: http://bioconductor.org Using R version 2.15, BiocInstaller version 1.4.4. Installing package(s) 'KEGGSOAP' trying URL 'http://www.bioconductor.org/packages/2.10/bioc/src/contrib/KEGGSOAP_1.30.0.tar.gz' Content type

Hi, I have some surprising trouble installing the gputools package. This is a linux box running Fedora with an Nvidia GeForce GTX 260 card and R 2.12.1 I had gputools running on it for the past several months. Wanting to update to the newest version, I simply executed install.packages("gputools") from within R. This should mean that the problem isn't in the hardware or OS. Errors

Hi, I downloaded 2.8.1 and tried to compile it using gcc 3.4.6. (simple install, just ./configure, make, make check, make install) I found that it compiled and went through the tests fine. The foreign library, however, that seems to be segfaulting on me (see output below). I did see an old posting about a similar problem, but there was no resolution. Have other people experienced this at all?

Thank you! Installing openblas and then using ./configure --without-lapack --with-blas --enable-R-shlib ..got everything working. Does this need reporting upstream as a bug in R or lapack? I'm good now, but it might help others to get this fixed. Simon. -----Original Message----- From: Ivan Krylov <ikrylov at disroot.org> Sent: 08 May 2024 20:05 To: Simon Andrews

Thanks for the report, but unfortunately I cannot reproduce on my system (either macOS nor Linux, from the command line) to debug. Did you run this in the command line version of R? I would not be surprised to see such a crash if executed from a multi-threaded application, say from some GUI or frontend that runs multiple threads, or from some other R session where a third party library

This code actually happens to work for me on macOS, but I think in general you cannot rely on performing HTTP requests in fork clusters, i.e. with mclapply(). Fork clusters create worker processes by forking the R process and then _not_ executing another R binary. (Which is often convenient, because the new processes will inherit the memory image of the parent process.) Fork without exec is not

R Help List: Just curious if anyone has successfully built R on a SPARC platform running Sun Solaris 10 using the latest Sun Studio 12 set of compilers. If so, I would be interested in the compile flags that you used. I have tried several different builds of version 2.5.1, 2.6.0, and 2.6.1 using various different compile flags and I am able to compile and check, but for whatever reason, the

Hello all, (Thank for your reply) I have a web-application in Apache Tomcat, when i start R in this application, I used packe RSJava Code ROmegahatInterpreter interp; String [] rargs = {"--no-save"}; REvaluator e; interp = new ROmegahatInterpreter ( ROmegahatInterpreter.fixArgs(rargs),false ); e =new REvaluator (); Errors ================ R version 2.10.1 (2009-12-14)

Dear R List, I encountered a serious problem regarding the registration of ".C" when following the documentation "Writing R Extensions" that leads to a segmentation fault (tested on windows and mac os x). The registration mechanism for ".C" routines via R_registerRoutines and the R_CMethodDef structure has been enhanced recently with the addition of two fields, one

I recently noticed a change between R-3.3.3 and R-3.4.0 in the definition of the R_CMethodDef struct. typedef struct { const char *name; DL_FUNC fun; int numArgs; - R_NativePrimitiveArgType *types; - R_NativeArgStyle *styles; - } R_CMethodDef; I suspect this is the reason that packages installed by R-3.4.0 and loaded into R-3.3.3 will crash the

I have an R program I am attempting to use to generate some SVGs. I've been using the cairoDevice library. When running a session not connected to an X session (like if I'm sshed in), attempting "library(cairoDevice)" causes: *** caught segfault *** address 0x8, cause 'memory not mapped' Traceback: 1: .C("R_gtk_setEventHandler", PACKAGE =

Hello, I try to install pbdMPI. Compilation successful, but load fails with segfault. Is anyone can help me? R version 3.0.0 pbdMPI version 0.1-6 Intel compiler version 13.1.1 OpenMPI version 1.6.4-1 CPU Intel x86_64 # R CMD INSTALL pbdMPI_0.1-6.tar.gz .. .... checking for gcc... icc -std=gnu99 checking whether the C compiler works... yes checking for C compiler default output file name...

Hi all, I'm trying to use the package read.table within a foreach loop. I'm grabbing 500M rows of data at a time from two different files and then doing an aggregate/tapply like function in read.table after that. I had planned on doing a foreach loop 39 times at once for the 39 files I have, but obviously that won't work until I figure out why the segfault is occurring. The

I have an lapply function call that I want to parallelize. Below is a very simplified version of the code: url_base <- "https://cloud.r-project.org/src/contrib/" files <- c("A3_1.0.0.tar.gz", "ABC.RAP_0.9.0.tar.gz") res <- parallel::mclapply(files, function(s) download.file(paste0(url_base, s), s)) Instead of download a couple of files in parallel, I get a

Dear R community, I am using the R package `interval` in order to perform some modelling tests of the NPMLE convergence in the case of censoring. So all I am doing is drawing a sample from exponential distribution, making it a censored sample and computing the NPMLE of its distribution function. But when run on Linux Calculate 10.4 the program keeps crashing and reporting a segmentation fault

I am having difficulty installing the arm package and would be grateful if anyone could give some advice. I have updated my computer to a Mac OS X version 10.5.5 ( processor: 2 x 2.8 GHz Quad-Core Intel Xeon) and I have downloaded R version 2.8.0 I have downloaded the package arm, but when i try to install it, the following message is given in R: Loading required package: MASS Loading

In session of R, occour following bug's in de (data.entry) function. *** caught segfault *** address 0x2c, cause 'memory not mapped' Traceback: 1: dataentry(odata, as.list(Modes)) 2: de(..., Modes = Modes, Names = Names) 3: data.entry(posto, fecha, serie = registros, status) 4: onEditaSerie(serie, "serie") 5: function () serie <- onEditaSerie(serie,