peter_m_kalmus@jpl_nasa_gov
New Member
Hi,I am running standalone CAM from CESM 1_0_4. I am configured for -ocn aquaplanet, and am using -use_case aquaplanet_cam3_cam4 option to build-namelist.When I run, I get the error message (once per core, 8 cores) and MPI endrun is called:modal species names do not match bulk names for modal species sulfate
ENDRUN:endrun modal_aero_initialize
[storm-0-6.local:12459] [0] func:/usr/local/openmpi-1.4.3-intel/lib/libopen-pal.so.0(opal_backtrace_buffer+0x20) [0x2b1a0d288640]
[storm-0-6.local:12459] [1] func:/usr/local/openmpi-1.4.3-intel/lib/libmpi.so.0(ompi_mpi_abort+0x3be) [0x2b1a0c90cc5e]
[storm-0-6.local:12459] [2] func:/usr/local/openmpi-1.4.3-intel/lib/libmpi.so.0(PMPI_Abort+0x5f) [0x2b1a0c922bff]
[storm-0-6.local:12459] [3] func:/usr/local/openmpi-1.4.3-intel/lib/libmpi_f77.so.0(MPI_ABORT+0x1a) [0x2b1a0cdcb32a]
[storm-0-6.local:12459] [4] func:/data2/pkalmus/camruns/aquasimple/bld/cam(abortutils_mp_endrun_+0x96) [0x4a6926]
[storm-0-6.local:12459] [5] func:/data2/pkalmus/camruns/aquasimple/bld/cam(modal_aero_initialize_data_mp_modal_aero_initialize_+0x5fe7) [0x9e3e17]
[storm-0-6.local:12459] [6] func:/data2/pkalmus/camruns/aquasimple/bld/cam(chemistry_mp_chem_init_+0x33) [0x57c833]
[storm-0-6.local:12459] [7] func:/data2/pkalmus/camruns/aquasimple/bld/cam(physpkg_mp_phys_init_+0x229) [0xaa6a89]
[storm-0-6.local:12459] [8] func:/data2/pkalmus/camruns/aquasimple/bld/cam(cam_comp_mp_cam_init_+0x166) [0x5052a6]
[storm-0-6.local:12459] [9] func:/data2/pkalmus/camruns/aquasimple/bld/cam(atm_comp_mct_mp_atm_init_mct_+0x204b) [0x4d6c6b]
[storm-0-6.local:12459] [10] func:/data2/pkalmus/camruns/aquasimple/bld/cam(MAIN__+0x8386) [0x553ae6]
[storm-0-6.local:12459] [11] func:/data2/pkalmus/camruns/aquasimple/bld/cam(main+0x3c) [0x49ca2c]
[storm-0-6.local:12459] [12] func:/lib64/libc.so.6(__libc_start_main+0xf4) [0x39dfe1d9c4]
[storm-0-6.local:12459] [13] func:/data2/pkalmus/camruns/aquasimple/bld/cam [0x49c939]Below, I've pasted more diagnostic info.My immediate goal is to run the simplest possible aqua-planet.Thanks,
Peter $cfgdir/configure -dyn fv -hgrid 4x5 -spmd -nosmp -ntasks $ntasks -fc ifort -linker mpif90 -ocn aquaplanet$cfgdir/build-namelist -s -test -case $case -use_case aquaplanet_cam3_cam4 -infile /home/pkalmus/camscripts/${case}/user_nl_cam &camexp
start_type='startup'
stop_option='ndays'
stop_n=5
restart_option='ndays'
restart_n=5
/
user_nl_cam (END) &aerosol_nl
dust_emis_fact = 0.43D0
soil_erod = '/data2/pkalmus/cesmtest/input//atm/cam/dst/dst_4x5_c090203.nc'
/
&cam3_ozone_data_nl
cam3_ozone_data_on = .false.
/
&cam_inparm
bnd_topo = '/data2/pkalmus/cesmtest/input//atm/cam/topo/USGS-gtopo30_4x5_remap_c050520.nc'
del2coef = 3.e+5
div24del2flag = 2
dtime = 1800
fft_flt = 1
modal_optics = '/data2/pkalmus/cesmtest/input//atm/cam/physprops/modal_optics_3mode.nc'
ncdata = '/data2/pkalmus/cesmtest/input//atm/cam/inic/fv/cami_0000-01-01_4x5_L30_c090108.nc'
print_energy_errors = .false.
/
&chem_inparm
aer_drydep_list = 'so4_a1', 'pom_a1', 'soa_a1', 'bc_a1', 'dst_a1', 'ncl_a1', 'num_a1', 'so4_a2', 'soa_a2', 'ncl_a2', 'num_a2',
'dst_a3', 'ncl_a3', 'so4_a3', 'num_a3'
aer_wetdep_list = 'so4_a1', 'pom_a1', 'soa_a1', 'bc_a1', 'dst_a1', 'ncl_a1', 'num_a1', 'so4_a2', 'soa_a2', 'ncl_a2', 'num_a2',
'dst_a3', 'ncl_a3', 'so4_a3', 'num_a3'
clim_soilw_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/clim_soilw.nc'
depvel_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/depvel_monthly.nc'
depvel_lnd_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/regrid_vegetation.nc'
exo_coldens_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/phot/exo_coldens.nc'
ext_frc_specifier = 'SO2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so2_elev_2000_c090726.nc',
'bc_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_bc_elev_2000_c090726.nc',
'num_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a1_elev_2000_c090726.nc',
'num_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a2_elev_2000_c090726.nc',
'pom_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_oc_elev_2000_c090726.nc',
'so4_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a1_elev_2000_c090726.nc',
'so4_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a2_elev_2000_c090726.nc'
ext_frc_type = 'CYCLICAL'
flbc_list = ' '
fstrat_list = ' '
rsf_file = '/data2/pkalmus/cesmtest/input//atm/waccm/phot/RSF_GT200nm_v3.0_c080416.nc'
season_wes_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/season_wes.nc'
srf_emis_specifier = 'DMS -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/aerocom_mam3_dms_surf_2000_c090129.nc',
'SO2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so2_surf_2000_c090726.nc',
'SOAG -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_soag_1.5_surf_2000_c100217.nc',
'bc_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_bc_surf_2000_c090726.nc',
'num_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a1_surf_2000_c090726.nc',
'num_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a2_surf_2000_c090726.nc',
'pom_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_oc_surf_2000_c090726.nc',
'so4_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a1_surf_2000_c090726.nc',
'so4_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a2_surf_2000_c090726.nc'
srf_emis_type = 'CYCLICAL'
tracer_cnst_datapath = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/oxid'
tracer_cnst_file = 'oxid_1.9x2.5_L26_1850-2005_c091123.nc'
tracer_cnst_filelist = 'oxid_1.9x2.5_L26_clim_list.c090805.txt'
tracer_cnst_specifier = 'O3','OH','NO3','HO2'
tracer_cnst_type = 'CYCLICAL'
tracer_cnst_ymd = 20000101
use_cam_sulfchem = .false.
xactive_prates = .false.
xs_long_file = '/data2/pkalmus/cesmtest/input//atm/waccm/phot/temp_prs_GT200nm_jpl06_c080930.nc'
/&chem_surfvals_nlch4vmr = 1.650e-6
co2vmr = 348.0e-6
f11vmr = 0.
f12vmr = 0.
n2ovmr = 0.306e-6
/
&cldfrc_nl
cldfrc_freeze_dry = .true.
cldfrc_ice = .true.
cldfrc_rhminh = 0.800D0
cldfrc_rhminl = 0.89D0
/
&cldsed_nl
cldsed_ice_stokes_fac = 1.0D0
/
&cldwat_nl
cldwat_conke = 5.0e-6
cldwat_icritc = 9.5e-6
cldwat_icritw = 2.0e-4
/
&gw_drag_nl
fcrit2 = 1.0
/
&hkconv_nl
hkconv_c0 = 2.0e-4
hkconv_cmftau = 1800.0D0
/
&phys_ctl_nl
cam_chempkg = 'trop_mam3'
cam_physpkg = 'cam5'
conv_water_in_rad = 1
deep_scheme = 'ZM'
do_iss = .true.
do_tms = .true.
eddy_scheme = 'diag_TKE'
history_microphysics = .true.
microp_scheme = 'MG'
shallow_scheme = 'UW'
srf_flux_avg = 0
/
&physconst_nl
cpwv = 1.846e3
gravit = 9.79764
mwdry = 28.96623324623746
mwh2o = 18.01618112892741
rearth = 6.37100e6
sday = 86164.10063718943
/
&prescribed_ozone_nl
prescribed_ozone_datapath = '/data2/pkalmus/cesmtest/input//atm/cam/ozone'
prescribed_ozone_file = 'apeozone_cam3_5_54.nc'
prescribed_ozone_name = 'OZONE'
prescribed_ozone_type = 'CYCLICAL'
prescribed_ozone_ymd = 19900101
/
&rad_cnst_nl
icecldoptics = 'mitchell'
iceopticsfile = '/data2/pkalmus/cesmtest/input//atm/cam/physprops/iceoptics_c080917.nc'
liqcldoptics = 'gammadist'
liqopticsfile = '/data2/pkalmus/cesmtest/input//atm/cam/physprops/F_nwvl200_mu20_lam50_res64_t298_c080428.nc'
rad_climate = 'P_Q:H2O', 'D_O2:O2', 'D_CO2:CO2', 'D_ozone:O3', 'D_N2O:N2O', 'D_CH4:CH4', 'D_CFC11:CFC11',
'D_CFC12:CFC12'
/
&solar_inparm
solar_const = 1365.0
solar_htng_spctrl_scl = .true.
/
&tropopause_nl
tropopause_climo_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/ub/clim_p_trop.nc'
/
&zmconv_nl
zmconv_c0_lnd = 0.0035D0
zmconv_c0_ocn = 0.0035D0
zmconv_ke = 1.0E-6
/
ENDRUN:endrun modal_aero_initialize
[storm-0-6.local:12459] [0] func:/usr/local/openmpi-1.4.3-intel/lib/libopen-pal.so.0(opal_backtrace_buffer+0x20) [0x2b1a0d288640]
[storm-0-6.local:12459] [1] func:/usr/local/openmpi-1.4.3-intel/lib/libmpi.so.0(ompi_mpi_abort+0x3be) [0x2b1a0c90cc5e]
[storm-0-6.local:12459] [2] func:/usr/local/openmpi-1.4.3-intel/lib/libmpi.so.0(PMPI_Abort+0x5f) [0x2b1a0c922bff]
[storm-0-6.local:12459] [3] func:/usr/local/openmpi-1.4.3-intel/lib/libmpi_f77.so.0(MPI_ABORT+0x1a) [0x2b1a0cdcb32a]
[storm-0-6.local:12459] [4] func:/data2/pkalmus/camruns/aquasimple/bld/cam(abortutils_mp_endrun_+0x96) [0x4a6926]
[storm-0-6.local:12459] [5] func:/data2/pkalmus/camruns/aquasimple/bld/cam(modal_aero_initialize_data_mp_modal_aero_initialize_+0x5fe7) [0x9e3e17]
[storm-0-6.local:12459] [6] func:/data2/pkalmus/camruns/aquasimple/bld/cam(chemistry_mp_chem_init_+0x33) [0x57c833]
[storm-0-6.local:12459] [7] func:/data2/pkalmus/camruns/aquasimple/bld/cam(physpkg_mp_phys_init_+0x229) [0xaa6a89]
[storm-0-6.local:12459] [8] func:/data2/pkalmus/camruns/aquasimple/bld/cam(cam_comp_mp_cam_init_+0x166) [0x5052a6]
[storm-0-6.local:12459] [9] func:/data2/pkalmus/camruns/aquasimple/bld/cam(atm_comp_mct_mp_atm_init_mct_+0x204b) [0x4d6c6b]
[storm-0-6.local:12459] [10] func:/data2/pkalmus/camruns/aquasimple/bld/cam(MAIN__+0x8386) [0x553ae6]
[storm-0-6.local:12459] [11] func:/data2/pkalmus/camruns/aquasimple/bld/cam(main+0x3c) [0x49ca2c]
[storm-0-6.local:12459] [12] func:/lib64/libc.so.6(__libc_start_main+0xf4) [0x39dfe1d9c4]
[storm-0-6.local:12459] [13] func:/data2/pkalmus/camruns/aquasimple/bld/cam [0x49c939]Below, I've pasted more diagnostic info.My immediate goal is to run the simplest possible aqua-planet.Thanks,
Peter $cfgdir/configure -dyn fv -hgrid 4x5 -spmd -nosmp -ntasks $ntasks -fc ifort -linker mpif90 -ocn aquaplanet$cfgdir/build-namelist -s -test -case $case -use_case aquaplanet_cam3_cam4 -infile /home/pkalmus/camscripts/${case}/user_nl_cam &camexp
start_type='startup'
stop_option='ndays'
stop_n=5
restart_option='ndays'
restart_n=5
/
user_nl_cam (END) &aerosol_nl
dust_emis_fact = 0.43D0
soil_erod = '/data2/pkalmus/cesmtest/input//atm/cam/dst/dst_4x5_c090203.nc'
/
&cam3_ozone_data_nl
cam3_ozone_data_on = .false.
/
&cam_inparm
bnd_topo = '/data2/pkalmus/cesmtest/input//atm/cam/topo/USGS-gtopo30_4x5_remap_c050520.nc'
del2coef = 3.e+5
div24del2flag = 2
dtime = 1800
fft_flt = 1
modal_optics = '/data2/pkalmus/cesmtest/input//atm/cam/physprops/modal_optics_3mode.nc'
ncdata = '/data2/pkalmus/cesmtest/input//atm/cam/inic/fv/cami_0000-01-01_4x5_L30_c090108.nc'
print_energy_errors = .false.
/
&chem_inparm
aer_drydep_list = 'so4_a1', 'pom_a1', 'soa_a1', 'bc_a1', 'dst_a1', 'ncl_a1', 'num_a1', 'so4_a2', 'soa_a2', 'ncl_a2', 'num_a2',
'dst_a3', 'ncl_a3', 'so4_a3', 'num_a3'
aer_wetdep_list = 'so4_a1', 'pom_a1', 'soa_a1', 'bc_a1', 'dst_a1', 'ncl_a1', 'num_a1', 'so4_a2', 'soa_a2', 'ncl_a2', 'num_a2',
'dst_a3', 'ncl_a3', 'so4_a3', 'num_a3'
clim_soilw_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/clim_soilw.nc'
depvel_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/depvel_monthly.nc'
depvel_lnd_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/regrid_vegetation.nc'
exo_coldens_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/phot/exo_coldens.nc'
ext_frc_specifier = 'SO2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so2_elev_2000_c090726.nc',
'bc_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_bc_elev_2000_c090726.nc',
'num_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a1_elev_2000_c090726.nc',
'num_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a2_elev_2000_c090726.nc',
'pom_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_oc_elev_2000_c090726.nc',
'so4_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a1_elev_2000_c090726.nc',
'so4_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a2_elev_2000_c090726.nc'
ext_frc_type = 'CYCLICAL'
flbc_list = ' '
fstrat_list = ' '
rsf_file = '/data2/pkalmus/cesmtest/input//atm/waccm/phot/RSF_GT200nm_v3.0_c080416.nc'
season_wes_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/dvel/season_wes.nc'
srf_emis_specifier = 'DMS -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/aerocom_mam3_dms_surf_2000_c090129.nc',
'SO2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so2_surf_2000_c090726.nc',
'SOAG -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_soag_1.5_surf_2000_c100217.nc',
'bc_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_bc_surf_2000_c090726.nc',
'num_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a1_surf_2000_c090726.nc',
'num_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_num_a2_surf_2000_c090726.nc',
'pom_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_oc_surf_2000_c090726.nc',
'so4_a1 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a1_surf_2000_c090726.nc',
'so4_a2 -> /data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/emis/ar5_mam3_so4_a2_surf_2000_c090726.nc'
srf_emis_type = 'CYCLICAL'
tracer_cnst_datapath = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart_aero/oxid'
tracer_cnst_file = 'oxid_1.9x2.5_L26_1850-2005_c091123.nc'
tracer_cnst_filelist = 'oxid_1.9x2.5_L26_clim_list.c090805.txt'
tracer_cnst_specifier = 'O3','OH','NO3','HO2'
tracer_cnst_type = 'CYCLICAL'
tracer_cnst_ymd = 20000101
use_cam_sulfchem = .false.
xactive_prates = .false.
xs_long_file = '/data2/pkalmus/cesmtest/input//atm/waccm/phot/temp_prs_GT200nm_jpl06_c080930.nc'
/&chem_surfvals_nlch4vmr = 1.650e-6
co2vmr = 348.0e-6
f11vmr = 0.
f12vmr = 0.
n2ovmr = 0.306e-6
/
&cldfrc_nl
cldfrc_freeze_dry = .true.
cldfrc_ice = .true.
cldfrc_rhminh = 0.800D0
cldfrc_rhminl = 0.89D0
/
&cldsed_nl
cldsed_ice_stokes_fac = 1.0D0
/
&cldwat_nl
cldwat_conke = 5.0e-6
cldwat_icritc = 9.5e-6
cldwat_icritw = 2.0e-4
/
&gw_drag_nl
fcrit2 = 1.0
/
&hkconv_nl
hkconv_c0 = 2.0e-4
hkconv_cmftau = 1800.0D0
/
&phys_ctl_nl
cam_chempkg = 'trop_mam3'
cam_physpkg = 'cam5'
conv_water_in_rad = 1
deep_scheme = 'ZM'
do_iss = .true.
do_tms = .true.
eddy_scheme = 'diag_TKE'
history_microphysics = .true.
microp_scheme = 'MG'
shallow_scheme = 'UW'
srf_flux_avg = 0
/
&physconst_nl
cpwv = 1.846e3
gravit = 9.79764
mwdry = 28.96623324623746
mwh2o = 18.01618112892741
rearth = 6.37100e6
sday = 86164.10063718943
/
&prescribed_ozone_nl
prescribed_ozone_datapath = '/data2/pkalmus/cesmtest/input//atm/cam/ozone'
prescribed_ozone_file = 'apeozone_cam3_5_54.nc'
prescribed_ozone_name = 'OZONE'
prescribed_ozone_type = 'CYCLICAL'
prescribed_ozone_ymd = 19900101
/
&rad_cnst_nl
icecldoptics = 'mitchell'
iceopticsfile = '/data2/pkalmus/cesmtest/input//atm/cam/physprops/iceoptics_c080917.nc'
liqcldoptics = 'gammadist'
liqopticsfile = '/data2/pkalmus/cesmtest/input//atm/cam/physprops/F_nwvl200_mu20_lam50_res64_t298_c080428.nc'
rad_climate = 'P_Q:H2O', 'D_O2:O2', 'D_CO2:CO2', 'D_ozone:O3', 'D_N2O:N2O', 'D_CH4:CH4', 'D_CFC11:CFC11',
'D_CFC12:CFC12'
/
&solar_inparm
solar_const = 1365.0
solar_htng_spctrl_scl = .true.
/
&tropopause_nl
tropopause_climo_file = '/data2/pkalmus/cesmtest/input//atm/cam/chem/trop_mozart/ub/clim_p_trop.nc'
/
&zmconv_nl
zmconv_c0_lnd = 0.0035D0
zmconv_c0_ocn = 0.0035D0
zmconv_ke = 1.0E-6
/