I tried to run a code that I have running for a while now this morning, but for some reason it is causing segmentation faults. I can't really think of anything that I have done recently that would be causing these errors. Does anyone have any idea?
I get this running it on more than one processor...... [sam@prodnode1 all]$ mpirun -np 2 --prefix /usr/local/profiles/gcc-openmpi/ /home/sam/code/fdtd/fdtd_0.3/fdtd -t /home/sam/code/fdtd/fdtd_0.3/test_files/tissue.txt -r /home/sam/code/fdtd/fdtd_0.3/test_files/tester_x002y002z004.raw -v -f 3000 --pw 90,0,1,0 -l test_log.out -a 1 [prodnode1:04400] *** Process received signal *** [prodnode1:04400] Signal: Segmentation fault (11) [prodnode1:04400] Signal code: Invalid permissions (2) [prodnode1:04400] Failing at address: 0x2aaaab000048 [prodnode1:04399] *** Process received signal *** [prodnode1:04399] Signal: Segmentation fault (11) [prodnode1:04399] Signal code: Invalid permissions (2) [prodnode1:04399] Failing at address: 0x2aaaab0a0a48 [prodnode1:04400] [ 0] /lib64/libpthread.so.0 [0x3aa840dd40] [prodnode1:04400] [ 1] /usr/local/profiles/gcc-openmpi/lib/libopen-pal.so.0(_int_malloc+0x2a5) [0x2aaaaafda345] [prodnode1:04400] [ 2] /usr/local/profiles/gcc-openmpi/lib/libopen-pal.so.0(calloc+0xaa) [0x2aaaaafdbd8a] [prodnode1:04400] [ 3] /home/sam/code/fdtd/fdtd_0.3/fdtd(parseTissues+0x23) [0x40c9d3] [prodnode1:04400] [ 4] /home/sam/code/fdtd/fdtd_0.3/fdtd(parseArgs+0x489) [0x404b09] [prodnode1:04400] [ 5] /home/sam/code/fdtd/fdtd_0.3/fdtd(main+0x41) [0x404eb1] [prodnode1:04400] [ 6] /lib64/libc.so.6(__libc_start_main+0xf4) [0x3aa781d8a4] [prodnode1:04400] [ 7] /home/sam/code/fdtd/fdtd_0.3/fdtd [0x4034b9] [prodnode1:04400] *** End of error message *** [prodnode1:04399] [ 0] /lib64/libpthread.so.0 [0x3aa840dd40] [prodnode1:04399] [ 1] /usr/local/profiles/gcc-openmpi/lib/libopen-pal.so.0(_int_malloc+0x2a5) [0x2aaaaafda345] [prodnode1:04399] [ 2] /usr/local/profiles/gcc-openmpi/lib/libopen-pal.so.0(calloc+0xaa) [0x2aaaaafdbd8a] [prodnode1:04399] [ 3] /home/sam/code/fdtd/fdtd_0.3/fdtd(parseTissues+0x23) [0x40c9d3] [prodnode1:04399] [ 4] /home/sam/code/fdtd/fdtd_0.3/fdtd(parseArgs+0x489) [0x404b09] [prodnode1:04399] [ 5] /home/sam/code/fdtd/fdtd_0.3/fdtd(main+0x41) [0x404eb1] [prodnode1:04399] [ 6] /lib64/libc.so.6(__libc_start_main+0xf4) [0x3aa781d8a4] [prodnode1:04399] [ 7] /home/sam/code/fdtd/fdtd_0.3/fdtd [0x4034b9] [prodnode1:04399] *** End of error message *** mpirun noticed that job rank 0 with PID 4399 on node prodnode1.brooks.af.mil exited on signal 11 (Segmentation fault). 1 additional process aborted (not shown) --Or I get this if I run it on just one processor. [sam@prodnode1 all]$ ./script2.sh [prodnode1:04405] *** Process received signal *** [prodnode1:04405] Signal: Segmentation fault (11) [prodnode1:04405] Signal code: Address not mapped (1) [prodnode1:04405] Failing at address: 0x18 [prodnode1:04405] [ 0] /lib64/libpthread.so.0 [0x3aa840dd40] [prodnode1:04405] [ 1] /home/sam/code/fdtd/fdtd_0.3/fdtd(calcMass+0xac) [0x40443c] [prodnode1:04405] [ 2] /home/sam/code/fdtd/fdtd_0.3/fdtd(parseArgs+0x5a1) [0x404c21] [prodnode1:04405] [ 3] /home/sam/code/fdtd/fdtd_0.3/fdtd(main+0x41) [0x404eb1] [prodnode1:04405] [ 4] /lib64/libc.so.6(__libc_start_main+0xf4) [0x3aa781d8a4] [prodnode1:04405] [ 5] /home/sam/code/fdtd/fdtd_0.3/fdtd [0x4034b9] [prodnode1:04405] *** End of error message *** mpirun noticed that job rank 0 with PID 4405 on node prodnode1.brooks.af.mil exited on signal 11 (Segmentation fault). [sam@prodnode1 all]$ Sam Adams General Dynamics Information Technology Phone: 210.536.5945
