[RegCNET] A Segmentation Error when Running RegCM test_002
LSL
lslrsgis at whu.edu.cn
Sat Mar 12 04:23:12 CET 2022
Dear RegCM community,
As a beginner, I am writing for an error when running RegCM over domain
China. After successfully generating ICBC, a segmentation error prompted
as follows.
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
[n0021:5045 :0:5045] Caught signal 11 (Segmentation fault: address not
mapped to object at address (nil))
[n0021:5047 :0:5047] Caught signal 11 (Segmentation fault: address not
mapped to object at address (nil))
The namelist test_China.in is adopted from default file test_002.in
./run directory, with only the directory changed while others options
remain the same.
Detailed description of this error can be found in attached slurm file.
Any help, thanks.
P.S. By the way, test_001 can be executed successfully.
LSL
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <https://lists.ictp.it/pipermail/regcnet/attachments/20220312/4e27158a/attachment-0001.htm>
-------------- next part --------------
! Chinese domain
&dimparam
iy = 80,
jx = 112,
kz = 18,
nsg = 1,
/
&geoparam
iproj = 'LAMCON',
ds = 60.0,
ptop = 5.0,
clat = 34,
clon = 120,
plat = 34,
plon = 120,
truelatl = 25.0,
truelath = 50.0,
i_band = 0,
/
&terrainparam
domname = 'test_China',
lakedpth = .false.,
fudge_lnd = .false.,
fudge_lnd_s = .false.,
fudge_tex = .false.,
fudge_tex_s = .false.,
dirter = 'input/',
inpter = '/home/slliu/scratch/RegCM-4.7.1/DATASET',
/
&debugparam
debug_level = 0,
/
&boundaryparam
nspgx = 12,
nspgd = 12,
/
&globdatparam
ibdyfrq = 6,
ssttyp = 'OI_WK',
dattyp = 'ERA40',
gdate1 = 1994010100,
gdate2 = 1994020100,
dirglob = 'input/',
inpglob = '/home/slliu/scratch/RegCM-4.7.1/DATASET',
/
&restartparam
ifrest = .false. ,
mdate0 = 1994010100,
mdate1 = 1994010100,
mdate2 = 1994010600,
/
&timeparam
dtrad = 30.,
dtabem = 18.,
dtsrf = 600.,
dt = 120.,
/
&outparam
ifsave = .true. ,
savfrq = 0.,
ifatm = .true. ,
atmfrq = 6.,
ifrad = .true. ,
radfrq = 6.,
ifsrf = .true. ,
ifsub = .true. ,
srffrq = 3.,
ifchem = .false.,
chemfrq = 6.,
dirout = 'output/',
/
&physicsparam
iboudy = 5,
ibltyp = 1,
icup_lnd = 2,
icup_ocn = 2,
ipptls = 1,
iocnflx = 2,
ipgf = 0,
iemiss = 0,
lakemod = 0,
ichem = 0,
idcsst = 0,
iseaice = 0,
idesseas = 0,
iconvlwp = 0,
/
&subexparam
/
&grellparam
/
&holtslagparam
/
&clm_inparm
fpftcon = 'pft-physiology.c130503.nc',
fsnowoptics = 'snicar_optics_5bnd_c090915.nc',
fsnowaging = 'snicar_drdt_bst_fit_60_c070416.nc',
/
&clm_soilhydrology_inparm
/
&clm_hydrology1_inparm
/
-------------- next part --------------
#!/bin/sh
#SBATCH --ntasks=8
#SBATCH --partition=hpib
#SBATCH --account=hetao
export FI_PROVIDER=verbs
#srun -n $SLURM_NTASKS ./real.exe
#srun -n $SLURM_NTASKS ./wrf.exe
#srun -n $SLURM_NTASKS ./bin/terrain test_China.in
#srun -n $SLURM_NTASKS ./bin/icbc test_China.in
srun -n $SLURM_NTASKS ./bin/regcmMPI test_China.in
#srun -n $SLURM_NTASKS ./bin/icbc test_001.in
#srun -n $SLURM_NTASKS ./bin/regcmMPI test_001.in
-------------- next part --------------
This is RegCM trunk
SVN Revision: tag-4.7.1 compiled at: data : Aug 21 2021 time: 17:27:32
: this run start at : 2022-03-09 17:45:12+0800
: it is submitted by : slliu
: it is running on : n0021
: it is using : 8 processors
: in directory : /scratch/slliu/RegCM-4.7.1/run
CPUS DIM1 = 2
CPUS DIM2 = 4
Reading model namelist file
Using default dynamical parameters.
Using default hydrostatc parameters.
Using default cloud parameter.
Initial date of the global simulation: 1994-01-01 00:00:00 UTC
Initial date of this run : 1994-01-01 00:00:00 UTC
Final date of this run : 1994-01-06 00:00:00 UTC
Total simulation lenght : 120 hours
Timestep in seconds = 120.000000
Split explicit dtau = 30.000000 60.000000
Reading Domain file : input//test_China_DOMAIN000.nc
Setting IPCC scenario to RCP4.5
Create SAV files : T
Create ATM files : T
Create RAD files : T
Create SRF files : T
Create STS files : T
Create SHF files : T
Monthly SAV files are written
Frequency in hours to create ATM : 6.0
Frequency in hours to create RAD : 6.0
Frequency in hours to create SRF : 3.0
Physical Parameterizations
Lateral Boundary conditions : 5
Semi-Lagrangian Advection : 0
Land cumulus conv. scheme : 2
Ocean cumulus conv. scheme : 2
Moisture schem : 1
Ocean Flux scheme : 2
Zeng roughness formula : 1
Zeng roughness method : 1
Coupling with ocean : 0
Coupling with wave : 0
Pressure gradient force : 0
Prescribed LW emissivity : 0
Lake model in BATS : 0
Simulate diurnal sst cycle : 0
Simulate sea ice cover : 0
Simulate desert seasons : 0
Enable chem/aerosol model : 0
Large scale LWP as convect. : 0
Cloud fraction scheme : 0
Marine stratocumulus : 1
Climate O3 dataset : 0
Climate Aerosol dataset : 0
Boundary Pameterizations
Num. of bndy points cross : 12
Num. of bndy points dot : 12
Nudge value high range : 3.000000
Nudge value medium range : 2.000000
Nudge value low range : 1.000000
Nm paramter : -1.000000
Dm paramter : -1.000000
Model Timestep Pameterizations
time step for dynamical model in seconds : 120.000000
time step for surface model in seconds : 600.000000
time step for cumulus model in seconds : 240.000000
time step for radiation model in seconds : 1800.000000
time step for emission model in seconds : 64800.000000
Domain grid parameters:
Map Projection : LAMCON
Dot Grid Full Extent : 112x 80x 18
Model Top Pressure : 5.000000 cb
Model Grid Spacing : 60.000000 km
Grid Center Latitude : 34.000000 deg
Grid Center longitude : 120.000000 deg
True Latitude 1 : 25.000000 deg
True Latitude 2 : 50.000000 deg
PBL limit for Holtstag
Index of highest allowed pbl : 10
Cloud fraction schemes parameters
# of bottom no cloud model levels : 1
Maximum relative humidity : 1.010000
Minimum relative humidity : 0.010000
RH0 temperature threshold : 238.000000
Relative humidity thresholds: Land = 0.800000 Ocean = 0.900000
Maximum total cloud cover for rad : 0.750000
Conv. CF UMF factor deep cumulus : 0.140000
Conv. CF UMF factor shallow cumul : 0.070000
Conv. CF UMF factor K2 : 500.000000
Surface radiation hack : F
Vavrus-Waliser Arctic cloud fix : T
SUBEX large scale precipitation parameters
Auto-conversion rate: Land = 0.000500 Ocean = 0.000500
Gultepe factors: Land = 0.650000 Ocean = 0.300000
Land Raindrop Evaporation Rate : 0.000010
Ocean Raindrop Evaporation Rate : 0.000010
Land Raindrop Accretion Rate : 6.000000
Ocean Raindrop Accretion Rate : 4.000000
Condensation efficiency : 1.000000
Grell Convection Scheme used.
Conversion rate : 0.002000
Max Shear : 0.900000
Min Shear : 0.300000
Max PPT eff : 0.800000
Min PPT eff : 0.200000
Max PPT eff(o) : 0.800000
Min PPT eff(o) : 0.200000
Max PPT eff(x) : 0.800000
Min PPT eff(x) : 0.200000
Max PBC : 50.000000
Min Cloud Depth : 150.000000
Max Cloud Base : 0.400000
Max Heating : 500.000000
Min Heating : -250.000000
Fritsch-Chappell (1980) Closure Assumption
ABE removal timescale : 30.000000
Convective Cloud Cover parameters after resolution scaling
Maximum Convective Cloud Cover : 0.348765
Convective Cloud Water : 0.000300
The surface energy budget is used to calculate the ground temperature.
The radiation is computed every 30. minutes.
Relaxation boundary conditions (exponential method)
# k sigma a dsigma twt(1) twt(2) qcon
1 0.0000 0.0250 0.0500 0.0000 0.0000 0.0000
2 0.0500 0.0750 0.0500 0.5000 0.5000 0.5000
3 0.1000 0.1300 0.0600 0.4545 0.5455 0.5455
4 0.1600 0.1950 0.0700 0.4615 0.5385 0.5385
5 0.2300 0.2700 0.0800 0.4667 0.5333 0.5333
6 0.3100 0.3500 0.0800 0.5000 0.5000 0.5000
7 0.3900 0.4300 0.0800 0.5000 0.5000 0.5000
8 0.4700 0.5100 0.0800 0.5000 0.5000 0.5000
9 0.5500 0.5900 0.0800 0.5000 0.5000 0.5000
10 0.6300 0.6700 0.0800 0.5000 0.5000 0.5000
11 0.7100 0.7450 0.0700 0.5333 0.4667 0.4667
12 0.7800 0.8100 0.0600 0.5385 0.4615 0.4615
13 0.8400 0.8650 0.0500 0.5455 0.4545 0.4545
14 0.8900 0.9100 0.0400 0.5556 0.4444 0.4444
15 0.9300 0.9450 0.0300 0.5714 0.4286 0.4286
16 0.9600 0.9700 0.0200 0.6000 0.4000 0.4000
17 0.9800 0.9850 0.0100 0.6667 0.3333 0.3333
18 0.9900 0.9950 0.0100 0.5000 0.5000 0.5000
19 1.0000
READY IC DATA for 1994-01-01 00:00:00 UTC
SEARCH BC data for 1994010106 , step = 0
READY BC from 1994010100 to 1994010106
At 1994-01-01 00:00:00 UTC
JDay 0.00000 solar declination angle = -23.10177678 degrees
solar TSI irradiance = 1361.1322 W/m^2
Constant hor. diff. coef. = 0.450000E+05 m^2 s-1
Maximum hor. diff. coef. = 0.468750E+06 m^2 s-1
Computed background diff. coeff. = 0.620731E+01 - 0.450000E+05 m^2 s-1
Calculating Vertical Modes
Linearization about standard atmosphere
# sigma #
0.00 0.500E-01 0.100 0.160 0.230 0.310 0.390
0.470 0.550 0.630 0.710 0.780 0.840 0.890
0.890 0.930 0.960 0.980 0.990 1.00
# t mean #
218. 218. 218. 218. 230. 239. 248.
255. 262. 268. 273. 277. 280. 283.
283. 285. 286. 287. 287.
# ps mean #
100.
Vertical mode problem for kz = 18
Number of errors (should be 0) = 0
Split : 1 => aam : 4.0000, fac : 26.6667
Split : 2 => aam : 2.0000, fac : 48.0000
Opening new output file output//test_China_ATM.1994010100.nc
Opening new output file output//test_China_SHF.1994010100.nc
Opening new output file output//test_China_SRF.1994010100.nc
Opening new output file output//test_China_STS.1994010100.nc
Opening new output file output//test_China_RAD.1994010100.nc
ATM variables written at 1994-01-01 00:00:00 UTC
[n0021:5048 :0:5048] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
[n0021:5055 :0:5055] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
==== backtrace ====
[n0021:5054 :0:5054] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
[n0021:5044 :0:5044] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
==== backtrace ====
[n0021:5053 :0:5053] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
==== backtrace ====
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b98273204f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b98273206a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b97a5025505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b2598ff54f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b2598ff56a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b2516af3505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
==== backtrace ====
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b5492c514f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b5492c516a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b5410956505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
[n0021:5045 :0:5045] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
[n0021:5047 :0:5047] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
==== backtrace ====
==== backtrace ====
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2acb2c9ef4f0]
[n0021:5056 :0:5056] Caught signal 11 (Segmentation fault: address not mapped to object at address (nil))
==== backtrace ====
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2acb2c9ef6a2]
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b20220104f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b20220106a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b1f9fd15505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b150c9ff4f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b150c9ff6a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b148a704505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2acaaa6f4505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b7e3ac504f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b7e3ac506a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b7db8955505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
==== backtrace ====
0 /usr/lib64/libucs.so.0(+0x174f0) [0x2b3425aed4f0]
1 /usr/lib64/libucs.so.0(+0x176a2) [0x2b3425aed6a2]
2 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x810d1b]
3 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5015e6]
4 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x604acb]
5 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x5e5208]
6 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x4120be]
7 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x682e25]
8 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x412022]
9 /lib64/libc.so.6(__libc_start_main+0xf5) [0x2b33a37f2505]
10 /scratch/slliu/RegCM-4.7.1/run/./bin/regcmMPI() [0x411f29]
===================
srun: error: n0021: tasks 0-7: Segmentation fault
-------------- next part --------------
A non-text attachment was scrubbed...
Name: Screenshot from 2022-03-09 21-23-48.png
Type: image/png
Size: 508431 bytes
Desc: not available
URL: <https://lists.ictp.it/pipermail/regcnet/attachments/20220312/4e27158a/attachment-0001.png>
More information about the RegCNET
mailing list