Hello, CROCO beginner here. Just started trying out v1.2.1
Successfully compiled BASIN and CANYON test cases so far. Now exploring BASIN with XIOS.
The default XIOS xml files don’t work for me. I added these lines to my jobcomp in the xiosisdefined block:
$CPP1 -P -traditional -imacros cppdefs.h ${ROOT_DIR}/XIOS/field_def_croco.xml_full_withcpp $RUNDIR/field_def_croco.xml
$CPP1 -P -traditional -imacros cppdefs.h ${ROOT_DIR}/XIOS/file_def_croco.xml_full_withcpp $RUNDIR/file_def_croco.xml
cp ${ROOT_DIR}/XIOS/domain_def_croco.xml $RUNDIR/domain_def_croco.xml
cp ${ROOT_DIR}/XIOS/iodef.xml_croco_xios $RUNDIR/iodef.xml
cp ${ROOT_DIR}/XIOS/context_croco.xml $RUNDIR/context_croco.xml
It gives me these XML files:
- context_croco.xml
- domain_def_croco.xml
- field_def_croco.xml
- file_def_croco.xml
- iodef.xml
XIOS-2.5 is installed system-wide, and I set the #define XIOS compiler key in the BASIN block in the cppdefs.
croco.log reports these Activated C-preprocessing Options:
BASIN
MPI
XIOS
LOGFILE
SOLVE3D
UV_COR
UV_ADV
UV_HADV_UP3
UV_VIS2
UV_VADV_SPLINES
TS_HADV_UP3
TS_DIF2
TS_MIX_S
TS_VADV_AKIMA
BODYFORCE
ANA_BTFLUX
START_DATE
ANA_INITIAL
ANA_STFLUX
ANA_GRID
ANA_SMFLUX
NO_FRCFILE
MPI_COMM_WORLD
M2FILTER_POWER
TRACERS
TEMPERATURE
HZR
VAR_RHO_2D
RESET_RHO0
PGF_FLAT_BOTTOM
UV_MIX_S
NTRA_T3DMIX
NF_CLOBBER
The model initially runs, coro.log get up to here
level S-coord Cs-curve at_hmin over_slope at_hmax
10 0.0000000 0.0000000 0.000 0.000 0.000
9 -0.1000000 -0.0852337 -426.316 -426.316 -426.316
8 -0.2000000 -0.1713205 -856.889 -856.889 -856.889
7 -0.3000000 -0.2591218 -1296.018 -1296.018 -1296.018
6 -0.4000000 -0.3495166 -1748.088 -1748.088 -1748.088
5 -0.5000000 -0.4434094 -2217.613 -2217.613 -2217.613
4 -0.6000000 -0.5417401 -2709.283 -2709.283 -2709.283
3 -0.7000000 -0.6454926 -3228.008 -3228.008 -3228.008
2 -0.8000000 -0.7557055 -3778.970 -3778.970 -3778.970
1 -0.9000000 -0.8734817 -4367.674 -4367.674 -4367.674
0 -1.0000000 -1.0000000 -5000.000 -5000.000 -5000.000
Time splitting: ndtfast = 65 nfast = 88
Maximum grid stiffness ratios: rx0 = 0.000000000000000E+000 rx1 =
0.000000000000000E+000
1029.7821 rho0 Reset Boussinesq approximation mean density, kg/m3.
My namelist is taken from the repositrory
wget https://forge.ird.fr/lops/croco/-/raw/9a648a3d44d50041d7acc6143dd86f76346e3479/TEST_CASES/croco.in.Basin?inline=false -O croco.in.Basin
The model run fails somewhere in XIOS code with this ERROR:
> Error [CField::solveGridReference(void)] : In file '/home/fwobus/Downloads/xios/xios-2.5_nc474f453hdf1105p/xios-2.5/src/node/field.cpp', line 1302 -> A grid must be defined for field '__field_undef_id_9' .
Abort(-1) on node 1 (rank 1 in comm 0): application called MPI_Abort(MPI_COMM_WORLD, -1) - process 1
> Error [CField::solveGridReference(void)] : In file '/home/fwobus/Downloads/xios/xios-2.5_nc474f453hdf1105p/xios-2.5/src/node/field.cpp', line 1302 -> A grid must be defined for field '__field_undef_id_9' .
Abort(-1) on node 0 (rank 0 in comm 0): application called MPI_Abort(MPI_COMM_WORLD, -1) - process 0
> Error [CField::solveGridReference(void)] : In file '/home/fwobus/Downloads/xios/xios-2.5_nc474f453hdf1105p/xios-2.5/src/node/field.cpp', line 1302 -> A grid must be defined for field '__field_undef_id_9' .
Abort(-1) on node 2 (rank 2 in comm 0): application called MPI_Abort(MPI_COMM_WORLD, -1) - process 2
> Error [CField::solveGridReference(void)] : In file '/home/fwobus/Downloads/xios/xios-2.5_nc474f453hdf1105p/xios-2.5/src/node/field.cpp', line 1302 -> A grid must be defined for field '__field_undef_id_9' .
Abort(-1) on node 3 (rank 3 in comm 0): application called MPI_Abort(MPI_COMM_WORLD, -1) - process 3
Does anyone have a working set of XML files for XIOS? Or can anyone see where I’m going wrong. What else can I check?
Thanks,
Fred