Are you compiling CMAQ in debug mode?
If so, try compiling and running in optimized mode.
#set Debug_CCTM #> uncomment to compile CCTM with debug option equal to TRUE
Here is a reference on causes of segmentation faults that may be helpful.
The last line in your output file was
Data Output completed
This line is in the RUNTIME_VARS.F
The backtrace has the following information
#3 0x458962 in pshut3_
#4 0x69EE51 in cmaq_driver_
#5 0x6944EC in MAIN__ at cmaq_main.F:?
You could try changing the following setting to 1:
#> Toggle Diagnostic Mode which will print verbose information to
#> standard output
setenv CTM_DIAG_LVL 0
If you are using the default settings for the following options, I would try turning them off.
setenv PRINT_PROC_TIME Y #> Print timing for all science subprocesses to Logfile
#> [ default: TRUE or Y ]
setenv STDOUT T #> Override I/O-API trying to write information to both the processor
#> logs and STDOUT [ options: T | F ]
I can’t seem to reproduce your error on my end.