(lnd_init_mct) :CLM land model initialization trunk2.0-7-482-gfa1240d Attempting to initialize the land model ..... Attempting to initialize run control settings ..... Read in clm_inparm namelist from: lnd_in Read in clm_initinterp_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 initInterp settings: &CLM_INITINTERP_INPARM INIT_INTERP_METHOD = general , INIT_INTERP_FILL_MISSING_WITH_NATVEG = F / rooting_profile settings: rooting_profile_method_water = 1 (rooting_profile_varindex_water = 1 ) rooting_profile_method_carbon = 1 (rooting_profile_varindex_carbon = 2 ) soilwater_movement settings: soilwater_movement_method = 1 upper_boundary_condition = 1 lower_boundary_condition = 2 use_bedrock = T dtmin = 60.0000000000000 verySmall = 1.000000000000000E-008 xTolerUpper = 0.100000000000000 xTolerLower = 1.000000000000000E-002 expensive = 42 inexpensive = 1 flux_calculation = 1 soil_resis settings: soil_resis_method = 1 Read in canopyfluxes_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 canopyfluxes_inparm settings: &CANOPYFLUXES_INPARM USE_UNDERCANOPY_STABILITY = F / Read in clm_CanopyHydrology_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 snowveg_off = F snowveg_on = F snowveg_onrad = T snowveg_flag = ON_RAD canopyhydrology settings: interception_fraction = 1.00000000000000 maximum_leaf_wetted_fraction = 5.000000000000000E-002 use_clm5_fpi = T Read in clm_SnowHydrology_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 SnowHydrology settings: &CLM_SNOWHYDROLOGY_INPARM WIND_DEPENDENT_SNOW_DENSITY = T, SNOW_OVERBURDEN_COMPACTION_METHOD = Vionnet2012 , LOTMP_SNOWDENSITY_METHOD = Slater2017 , UPPLIM_DESTRUCT_METAMORPH = 175.000000000000 , OVERBURDEN_COMPRESS_TFACTOR = 8.000000000000000E-002, MIN_WIND_SNOWCOMPACT = 5.00000000000000 , RESET_SNOW = F, RESET_SNOW_GLC = F, RESET_SNOW_GLC_ELA = 1000000000.00000 / Read in clmu_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 urban air conditioning/heating and wasteheat = ON_WASTEHEAT urban traffic flux = F Read in clm_humanindex_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 Read in luna namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 luna settings: &LUNA JMAXB1 = 9.356299999999999E-002 / Read in friction_velocity namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 friction_velocity settings: &FRICTION_VELOCITY ZETAMAXSTABLE = 0.500000000000000 / Read in cnmresp_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 cnmresp_inparm settings: &CNMRESP_INPARM BR_ROOT = 8.300000000000000E-007 / Read in soilhydrology_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 soilhydrology_inparm settings: &SOILHYDROLOGY_INPARM BASEFLOW_SCALAR = 1.000000000000000E-003 / Read in nitrif_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 nitrif_inparm settings: &NITRIF_INPARM K_NITR_MAX_PERDAY = 0.100000000000000 , DENITRIF_RESPIRATION_COEFFICIENT = 0.100000000000000 , DENITRIF_RESPIRATION_EXPONENT = 1.30000000000000 , DENITRIF_NITRATECONC_COEFFICIENT = 1.15000000000000 , DENITRIF_NITRATECONC_EXPONENT = 0.570000000000000 / Read in cnfire_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 cnfire_inparm settings: &CNFIRE_INPARM FIRE_METHOD = li2016crufrc / Read in cnprecision_inparm namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 cnprecision_inparm settings: &CNPRECISION_INPARM NCRIT = 1.000000000000000E-009, CCRIT = 1.000000000000000E-008, CNEGCRIT = -60.0000000000000 , NNEGCRIT = -6.00000000000000 / Read in mineral_nitrogen_dynamics namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 mineral_nitrogen_dynamics settings: &MINERAL_NITROGEN_DYNAMICS FREELIVFIX_SLOPE_WET = 5.999999999999999E-004, FREELIVFIX_INTERCEPT = 1.170000000000000E-002 / Read in cnphenology namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 cnphenology settings: &CNPHENOLOGY INITIAL_SEED_AT_PLANTING = 3.00000000000000 / Read in CENTURY_soilBGCDecompCascade namelist (OPNFIL): Successfully opened file lnd_in on unit= 96 CENTURY_soilBGCDecompCascade settings: &CENTURY_SOILBGCDECOMPCASCADE INITIAL_CSTOCKS = 3*200.000000000000 , INITIAL_CSTOCKS_DEPTH = 1.50000000000000 / Successfully initialized run control settings soil_layerstruct varpar 20SL_8.5m soil_layerstruct varpar 20SL_8.5m 20 25 CLM varpar subsurface discretization levels nlevsoi = 20 nlevgrnd = 25 nlevdecomp = 20 nlevdecomp_full = 25 nlevlak = 10 define run: source = Community Land Model CLM4.0 model_version = trunk2.0-7-482-gfa1240d run type = initial case title = UNSET username = yfa008 hostname = fram process control parameters: use_lch4 = T use_nitrif_denitrif = T use_vertsoilc = T use_extralakelayers = F use_vichydro = F use_century_decomp = T use_cn = T use_cndv = F use_crop = T use_fertilizer = T use_grainproduct = T use_ozone = F use_snicar_frc = F use_vancouver = F use_mexicocity = F use_noio = F input data files: PFT physiology and parameters file = /cluster/shared/noresm/inputdata/lnd/clm2/paramdata/clm5_params.c171117.nc surface data = /cluster/shared/noresm/inputdata/lnd/clm2/surfdata_map/surfdata_1.9x2.5_78pfts_ simyr1850_c161128.nc land frac data = /cluster/shared/noresm/inputdata/share/domains/domain.lnd.fv0.9x1.25_gx1v6.0903 09.nc nfix_timeconst, timescale for smoothing npp in N fixation term: 10.0000000000000 spinup_state, (0 = normal mode; 1 = AD spinup; 2 AAD) : 0 model is currently NOT in AD spinup mode. Fixation and Uptake of Nitrogen Model Version 2 (FUN2) is turned on for Nitr ogen Competition override_bgc_restart_mismatch_dump : F som_adv_flux, the advection term in soil mixing (m/s) : 0.000000000000000E+000 max_depth_cryoturb (m) : 3.00000000000000 surfprof_exp : 10.0000000000000 use_c13 : F use_c13_timeseries : F atm_c13_filename : use_c14 : F use_c14_bombspike : F atm_c14_filename : snow optical properties file = /cluster/shared/noresm/inputdata/lnd/clm2/snicardata/snicar_optics_5bnd_c090915 .nc snow aging parameters file = /cluster/shared/noresm/inputdata/lnd/clm2/snicardata/snicar_drdt_bst_fit_60_c07 0416.nc Number of snow layers = 12 Max snow depth (mm) = 10000.0000000000 Limit applied to integrated snowfall when determining changes in snow-covered fraction during melt (mm) = 2000.00000000000 SCA shape parameter for glc_mec columns (n_melt_glcmec) = 10.0000000000000 glc number of elevation classes = 10 glc CLM glacier areas and topography will NOT evolve dynamically glc snow persistence max days = 0 initial data interpolated from: /cluster/projects/nn2345k/yfan/initdata/IRCP85Clm50BgcCropGs_cplhist_2deg_nores m2/rest/2016-01-01-00000/IRCP85Clm50BgcCropGs_cplhist_2deg_noresm2.clm2.r.2016- 01-01-00000.nc atmospheric forcing data is from cesm atm model Restart parameters: restart pointer file directory = . restart pointer file name = rpointer.lnd model physics parameters: CO2 volume mixing ratio = diagnostic land-ice albedos (unitless 0-1) = 0.500000000000000 0.300000000000000 soil layer structure = 20SL_8.5m plant hydraulic stress = T dynamic roots = F maxpatch_pft = 79 nsegspc = 35 perchroot (plant water stress based on unfrozen layers only) = F perchroot (plant water stress based on time-integrated active layer only) = F anoxia (applied to soil decomposition) = T anoxia_wtsat (weight anoxia by inundated fraction) = F Lake Model Namelists: Increased mixing relative to Hostetler wind-driven eddy expression will be used for deep lakes exceeding depth 25.0000000000000 by a factor of 10.0000000000000 . Albedo over melting lakes will approach values (visible, NIR): 0.100000000000000 0.100000000000000 as compared with 0.60, 0.40 for cold frozen lakes with no snow. plant nitrogen model namelists: use_flexibleCN = T MM_Nuptake_opt = T downreg_opt = F plant_ndemand_opt = 3 substrate_term_opt = T nscalar_opt = T temp_scalar_opt = T CNratio_floating = T lnc_opt = T reduce_dayl_factor = F vcmax_opt = 3 CN_residual_opt = 1 CN_partition_opt = 1 CN_evergreen_phenology_opt = 1 carbon_resp_opt = 0 use_luna = T ED/FATES: use_fates = F dynamic_subgrid settings: &DYNAMIC_SUBGRID FLANDUSE_TIMESERIES = /cluster/shared/noresm/inputdata/lnd/clm2/surfdata_map/landuse.timeseries_1.9x2.5_rcp8.5_78pfts_simyr1850- 2100_c161117.nc , DO_TRANSIENT_PFTS = T, DO_TRANSIENT_CROPS = T, DO_HARVEST = T, FOR_TESTING_ALLOW_NON_ANNUAL_CHANGES = F, FOR_TESTING_ZERO_DYNBAL_FLUXES = F / Attempting to read global land mask from /cluster/shared/noresm/inputdata/share/domains/domain.lnd.fv0.9x1.25_gx1v6.0903 09.nc (GETFIL): attempting to find local file domain.lnd.fv0.9x1.25_gx1v6.090309.nc (GETFIL): using /cluster/shared/noresm/inputdata/share/domains/domain.lnd.fv0.9x1.25_gx1v6.0903 09.nc lat/lon grid flag (isgrid2d) is T ncd_inqvid: variable LANDMASK is not on dataset decomp precompute numg,nclumps,seglen1,avg_seglen,nsegspc= 20975 128 F 4.681920 35.00000 Surface Grid Characteristics longitude points = 288 latitude points = 192 total number of land gridcells = 20975 Decomposition Characteristics clumps per process = 1 gsMap Characteristics lnd gsmap glo num of segs = 5123 Attempting to read ldomain from /cluster/shared/noresm/inputdata/share/domains/domain.lnd.fv0.9x1.25_gx1v6.0903 09.nc (GETFIL): attempting to find local file domain.lnd.fv0.9x1.25_gx1v6.090309.nc (GETFIL): using /cluster/shared/noresm/inputdata/share/domains/domain.lnd.fv0.9x1.25_gx1v6.0903 09.nc check_var: variable LONGXY is not on dataset ncd_inqvid: variable LANDMASK is not on dataset ncd_inqvid: variable LANDFRAC is not on dataset domain_check set = domain_set domain_check decomped = T domain_check ns = 55296 domain_check ni,nj = 288 192 domain_check clmlevel = domain_check nbeg,nend = 1 165 domain_check lonc = 0.000000000000000E+000 310.000000000000 domain_check latc = -90.0000000000000 76.8062827225131 domain_check mask = 1 1 domain_check frac = 1.920089032151795E-003 1.00000000000000 domain_check area = 29.9483679288947 14565.6378167688 domain_check pftm = -9999 -9999 Attempting to read GLACIER_REGION... (GETFIL): attempting to find local file surfdata_1.9x2.5_78pfts_simyr1850_c161128.nc (GETFIL): using /cluster/shared/noresm/inputdata/lnd/clm2/surfdata_map/surfdata_1.9x2.5_78pfts_ simyr1850_c161128.nc ncd_getiodesc ERROR in vsize 13824 55296 0 ERROR: ERROR in /cluster/projects/nn2345k/yfan/noresm-dev/cime/../components/clm/src/m ain/ncdio_pio.F90.in at line 2363