Dear Scientists,
My previous post is probably missed, so I am re-posting the question.
I am trying to create surface data on 0.5 degree with the following command, but keep getting the error message "forrtl: severe (174): SIGSEGV, segmentation fault occurred".
./mksurfdata.pl -res 360x720cru -y 2000
....
(gridmap_map_read) * file name : /net/fs05/d1/xgao/cesm2.1.3/inputdata/lnd/clm2/mappingdata/maps/360x720/map_0.25x0.25_MODIS_to_360x720cru_nomask_aave_da_c170321.nc
* matrix dimensions rows x cols : 1036800 x 259200
* number of non-zero elements: 545989
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line Source
mksurfdata_map 000000000055E841 Unknown Unknown Unknown
mksurfdata_map 000000000055C97B Unknown Unknown Unknown
mksurfdata_map 00000000005136C4 Unknown Unknown Unknown
mksurfdata_map 00000000005134D6 Unknown Unknown Unknown
mksurfdata_map 00000000004AC059 Unknown Unknown Unknown
mksurfdata_map 00000000004B0786 Unknown Unknown Unknown
libpthread-2.23.s 00007FCC4F1C1C20 Unknown Unknown Unknown
mksurfdata_map 000000000044CE57 mkpftmod_mp_mkpft 563 mkpftMod.F90
mksurfdata_map 000000000046B81D MAIN__ 564 mksurfdat.F90
mksurfdata_map 000000000040A2AE Unknown Unknown Unknown
libc-2.23.so 00007FCC4EE0F731 __libc_start_main Unknown Unknown
mksurfdata_map 000000000040A1A9 Unknown Unknown Unknown
ERROR in mksurfdata_map: 44544
I also tried to add "ulimit -s unlimited" to avoid memory issue based on forrtl: severe (174): SIGSEGV, segmentation fault occurred.
However, it does not help.
I am running the job on our own cluster, and the job is submitted to the queue. My submitting script is as follows:
-------
#!/bin/csh
#
#SBATCH --partition=edr
#SBATCH -n 32
#SBATCH --mem=0
#SBATCH --reservation=xgao_test
#SBATCH --time=1:00:00 # format is DAYS-HOURS:MINUTES:SECONDS
#SBATCH --job-name=testmksurf
#SBATCH --output=testmksurf.out
# End of options
#=======================================================================
cd /net/fs05/d1/xgao/cesm2.1.3/cesm/components/clm/tools/mksurfdata_map
source /etc/profile.d/modules.csh
module load intel
module load netcdf
ulimit -s unlimited
./mksurfdata.pl -res 360x720cru -y 2000
exit
-------
I am not sure if the problem is related to our system. Any information is greatly appreciated.
My previous post is probably missed, so I am re-posting the question.
I am trying to create surface data on 0.5 degree with the following command, but keep getting the error message "forrtl: severe (174): SIGSEGV, segmentation fault occurred".
./mksurfdata.pl -res 360x720cru -y 2000
....
(gridmap_map_read) * file name : /net/fs05/d1/xgao/cesm2.1.3/inputdata/lnd/clm2/mappingdata/maps/360x720/map_0.25x0.25_MODIS_to_360x720cru_nomask_aave_da_c170321.nc
* matrix dimensions rows x cols : 1036800 x 259200
* number of non-zero elements: 545989
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line Source
mksurfdata_map 000000000055E841 Unknown Unknown Unknown
mksurfdata_map 000000000055C97B Unknown Unknown Unknown
mksurfdata_map 00000000005136C4 Unknown Unknown Unknown
mksurfdata_map 00000000005134D6 Unknown Unknown Unknown
mksurfdata_map 00000000004AC059 Unknown Unknown Unknown
mksurfdata_map 00000000004B0786 Unknown Unknown Unknown
libpthread-2.23.s 00007FCC4F1C1C20 Unknown Unknown Unknown
mksurfdata_map 000000000044CE57 mkpftmod_mp_mkpft 563 mkpftMod.F90
mksurfdata_map 000000000046B81D MAIN__ 564 mksurfdat.F90
mksurfdata_map 000000000040A2AE Unknown Unknown Unknown
libc-2.23.so 00007FCC4EE0F731 __libc_start_main Unknown Unknown
mksurfdata_map 000000000040A1A9 Unknown Unknown Unknown
ERROR in mksurfdata_map: 44544
I also tried to add "ulimit -s unlimited" to avoid memory issue based on forrtl: severe (174): SIGSEGV, segmentation fault occurred.
However, it does not help.
I am running the job on our own cluster, and the job is submitted to the queue. My submitting script is as follows:
-------
#!/bin/csh
#
#SBATCH --partition=edr
#SBATCH -n 32
#SBATCH --mem=0
#SBATCH --reservation=xgao_test
#SBATCH --time=1:00:00 # format is DAYS-HOURS:MINUTES:SECONDS
#SBATCH --job-name=testmksurf
#SBATCH --output=testmksurf.out
# End of options
#=======================================================================
cd /net/fs05/d1/xgao/cesm2.1.3/cesm/components/clm/tools/mksurfdata_map
source /etc/profile.d/modules.csh
module load intel
module load netcdf
ulimit -s unlimited
./mksurfdata.pl -res 360x720cru -y 2000
exit
-------
I am not sure if the problem is related to our system. Any information is greatly appreciated.