undesired forking from either doMC, foreach or multicore

Hi,

Thanks for the suggestion. ?I am not calling additional parallelized routines from the threaded functions. ?However, I am using the threaded version of the Intel MKL BLAS, and there are matrix manipulations in the threaded functions. ?Even though MKL is supposed to be thread-safe, would it make sense that this is what is causing the problem?

For what it's worth, I'm running R on a very similar system (only 8
cores, 2008 vintage, alas), but I *do* run into this problem
occasionally.

I don't use (don't have) MKL BLAS, and I'm pretty sure I'm not calling
"additional parallelized routines from the threaded functions" either.

I don't know how to create a meaningful test case to reproduce this
either, as it seems to happen not so frequently (recently, anyway). My
solution is the same as yours, which is to kill all "zombie" R
processes and just try again.

-steve

Steve Lianoglou
Graduate Student: Computational Systems Biology
?| Memorial Sloan-Kettering Cancer Center
?| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact