OpenBLAS in R only single core in linux

[christia...@gmail.com]

Hi, 

I am trying to run a QR decomposition in R on a linux machine (CentOS) using a C++ program that is interfaced with Rcpp. Unfortunately, I see only 100% using top. The same happens on a Red Hat Enterprise Linux Server. However, the C++ program runs at nthreads * 100% when started from the terminal (independently outside of R). I compiled OpenBLAS with 

   'NO_AFFINITY=1' 

and tried 

   'export OPENBLAS_NUM_THREADS' (GOTO_NUM_THREADS, OMP_NUM_THREADS)

   'export OPENBLAS_MAIN_FREE'. 

Nothing works. Everything works fine on a Mac though. 'mcaffinity()' from the parallel R package returns NULL. I configured R using 

   configure  'CFLAGS=-g -O3 -Wall -pedantic' 'CXXFLAGS=-g -O3 -Wall -pedantic' 'FCFLAGS=-g -O3' 'F77FLAGS=-g -O3' '--with-system-zlib' '--enable-memory-profiling'

I attached my C++ program and R script. Any help is highly appreciated.

Christian

[christia...@gmail.com]

I figured it out myself. The answer is here.

[Zhang Xianyi]

Thanks for your answer.

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