On Sat, 10 Jun 2023 13:46:12 +0000 akshay kulkarni <akshay...@hotmail.com> wrote:
> What if I switch to Ubuntu? > I had a similar ( but not exactly the same) problem way back in 2018 > and switching to Ubuntu solved it. You shouldn't have to switch distros for problems like this one. What you need to switch is your OpenBLAS build: instead of using OpenBLAS built with OpenMP support (which isn't even the default when compiling OpenBLAS), use OpenBLAS built with pthreads support. It's also likely, but not 100% guaranteed, that setting OMP_NUM_THREADS=1 will avoid the issue by never starting any additional threads for OpenBLAS purposes. At least some documentation says that OPENBLAS_NUM_THREADS is ignored on OpenMP builds of OpenBLAS, you actually have to set OMP_NUM_THREADS=1 for it to take any effect. I know very little about RHEL, but it seems that you already have a pthreads build of OpenBLAS installed in /usr/lib64/libopenblasp-r0.3.15.so; you just need to adjust the path to the BLAS implementation used by R. If not, install the openblas-threads package. Can you use flexiblas <https://cran.r-project.org/bin/linux/fedora/#blaslapack-switching> to switch the BLAS implementation to OPENBLAS-THREADS? This should be possible by using the flexiblas R package or by setting environment variables <https://github.com/mpimd-csc/flexiblas#selecting-the-backend-at-runtime>. That said, I know for sure that on Debian and Ubuntu you get a choice between libopenblas0-openmp / libopenblas0-pthread / libopenblas0-serial, and installing any one of these packages except libopenblas0-openmp should avoid the problem. (And the thread limit should be set to 1 if you're running your tasks in parallel by other means.) -- Best regards, Ivan ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
