From: Ernest Turro <ernest.turro at imperial.ac.uk>
Date: 3 February 2010 20:49:42 GMT
To: r-devel List <r-devel at r-project.org>
Subject: [Rd] ctrl-C aborts R when compiling package code with ICC+openMP
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Hi all,
I have some C++ code that I call from my package. In my main C++ loop, I check for user interrupts and return to the R shell after ensuring I've deallocated memory appropriately. This works fine when the code is compiled with gcc+openmp and with icc without openmp, but when I compile with icc and use openmp, the entire R session is immediately terminated when I hit ctrl-C. This happens even if I only have one thread and even if I set an openmp barrier just before checking for user interrupts.
When the R session terminates unexpectedly, I usually just get "Aborted" before return to the bash prompt. Occasionally, though, I get this error:
OMP: Error #15: Initializing libguide.so, but found libguide.so already initialized.
OMP: Hint: This may cause performance degradation and correctness issues. Set environment variable KMP_DUPLICATE_LIB_OK=TRUE to ignore this problem and force the program to continue anyway. Please note that the use of KMP_DUPLICATE_LIB_OK is unsupported and using it may cause undefined behavior. For more information, please contact Intel(R) Premier Support.
But KMP_DUPLICATE_LIB_OK=TRUE changes nothing.
I had a look at:
http://software.intel.com/en-us/articles/opm-abort-initializing-libguide40dll/
which suggests there may be a conflict between libguide40 and libiomp5md, but I can't find any loaded R packages that link against libiomp5md...
Does anyone have any ideas?
Many thanks,
Ernest