Can anybody tell me if this is an error associated with openmpi, versus an issue with the program I am running (MRBAYES, https://sourceforge.net/projects/mrbayes/)
We are trying to run a large simulated dataset using 1,000,000 bases divided up into 1000 genes, 5 taxa.. An error is occurring, but we are not sure why. We are using the MPI version of MRBAYES v3.2-cvs on a linux 16core 24GB RAM machine. It does not appear as if the program runs out of memory (max memory usage is 13gb). Maybe this is an OpenMPI problem and not related to MrBayes... See snippet of error message below. Can anybody give me any hints about the source of the problem? I am using OPENMPI version 1.4.1. ... Defining charset called gene997 Defining charset called gene998 Defining charset called gene999 Defining charset called gene1000 Defining partition called Genes [macmanes:02546] *** Process received signal *** [macmanes:02546] Signal: Segmentation fault (11) [macmanes:02546] Signal code: Address not mapped (1) [macmanes:02546] Failing at address: (nil) [macmanes:02546] [ 0] /lib/libpthread.so.0 [0x7ffd0f322190] [macmanes:02546] *** End of error message *** -------------------------------------------------------------------------- mpirun noticed that process rank 13 with PID 2546 on node macmanes exited on signal 11 (Segmentation fault). -------------------------------------------------------------------------- macmanes@macmanes:~/mrbayes$ Thanks for any help! Matt _________________________________ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lacey Personal Website: http://macmanes.com/
