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BFM_General.nml
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! bfm_nml !-------------------------------------------------------------------------!
! Main initialisation and output specifications
! NAME KIND DESCRIPTION
! bio_calc logical Switch on/off BFM (for coupled configurations)
! bfm_init integer Initialization state
! 0. from constant values in bfm_init_nml below
! 1. from restart
! bfm_rstctl logical Save initial state of bfm in the output file.
! bio_setup integer BFM configuration:
! 1. pelagic
! 2. benthic
! 3. pelagic and benthic
! 4. sea ice
! 5. pelagic and sea ice
! out_fname string Name of NetCDF output file
! out_dir string Path to the output file
! out_title string Name of the experiment in NetCDF file
! out_delta integer Output is saved every out_delta timesteps
! Use -1 to store with real monthly frequency
! parallel_log logical Set true in parallel jobs for a single log file
!-------------------------------------------------------------------------!
&bfm_nml
bio_calc = .TRUE.
bfm_init = 0
bfm_rstctl = .FALSE.
bio_setup = 1
out_fname = 'BFM_standalone_pelagic'
out_dir = '.'
out_title = 'BFM_STANDALONE_PELAGIC'
in_rst_fname = 'in_bfm_restart'
out_delta = 300
parallel_log = .FALSE.
/
! Param_parameters !-------------------------------------------------------------------------!
! Global Switches : turn on/off or choose model components
! NAME KIND DESCRIPTION
! CalcPelagicFlag logical Pelagic System
! CalcBenthicFlag numeric Benthic system
! 0 = No Benthic System
! The following are Not Yet Activated
! 1 = Simple Benthic Return
! 2 = Benthic organisms and intermediate
! complexity nutrient regeneration
! 3 = Benthic organisms and full nutrient
! regeneration (early diagenesis)
! CalcTransportFlag logical Compute Transport Term (when coupled
! with a OGCM)
! CalcConservationFlag logical Mass Conservation Check
! CalcPhytoPlankton logical Pelagic Phytoplankton (vector)
! CalcPelBacteria logical Pelagic Bacteria (vector)
! CalcMesoZooPlankton logical Mesozooplankton (vector)
! CalcMicroZooPlankton logical Microzooplankton (vector)
! CalcPelChemistry logical Pelagic Hydrochemical Processes
! AssignPelBenFluxesInBFMFlag logical Benthic-pelagic fluxes are added to the
! time integration
! AssignAirPelFluxesInBFMFlag logical Air-sea fluxes are added to the
! time integration
! ChlDynamicsFlag numeric Choose the dynamics of Chl-a
! 1 = diagnostic, optimal light property
! in phytoplankton
! (Ebenhoeh et al 1995, ERSEM-II)
! 2 = state variable, constituent of
! phytoplankton
! check_fixed_quota numeric Check whether zooplankton have fixed quota
!
! Global Parameters : used throughout the model and not related
! to a specific component
! NAME UNIT DESCRIPTION
! p_small [-] Smallest numeric value (the model "zero")
! slp0 [mbar] Reference sea level pressure
! p_pe_R1c [-] Fractional content of C in cytoplasm
! p_pe_R1n [-] Fractional content of N in cytoplasm
! p_pe_R1p [-] Fractional content of P in cytoplasm
! p_qro [mmolHS-/ Stoichiometric coefficient for
! mmolO2] anaerobic reactions
! p_qon_dentri [mmolO2/ Stoichiometric coefficient for
! mmolN] denitrification
! p_qon_nitri [mmolO2/ Stoichiometric coefficient for
! mmolN] nitrification
!-------------------------------------------------------------------------!
&Param_parameters
CalcPelagicFlag = .TRUE.
CalcBenthicFlag = 0
CalcConservationFlag = .FALSE.
CalcTransportFlag = .FALSE.
CalcPhytoPlankton(1) = .TRUE.
CalcPhytoPlankton(2) = .TRUE.
CalcPhytoPlankton(3) = .TRUE.
CalcPhytoPlankton(4) = .TRUE.
CalcPelBacteria(1) = .TRUE.
CalcMicroZooPlankton(1) = .TRUE.
CalcMicroZooPlankton(2) = .TRUE.
CalcMesoZooPlankton(1) = .TRUE.
CalcMesoZooPlankton(2) = .TRUE.
CalcPelChemistry = .TRUE.
AssignPelBenFluxesInBFMFlag = .FALSE.
AssignAirPelFluxesInBFMFlag = .TRUE.
ChlDynamicsFlag = 2
check_fixed_quota = 0
p_small = 1.0e-20
slp0 = 1013.25E0
p_pe_R1c = 0.60
p_pe_R1n = 0.72
p_pe_R1p = 0.832
p_qro = 0.5
p_qon_dentri = 1.25
p_qon_nitri = 2.0
/
! bfm_init_nml !-------------------------------------------------------------------------!
!Pelagic initialisation of standard variables
!<variablename>0 = <realvalue>
!-------------------------------------------------------------------------!
! Index of parameters for using inside InitVar structure
! O2o=1, N1p=2, N3n=3, N4n=4, O4n=5, N5s=6, N6r=7, B1c=8, B1n=9,
! B1p=10, P1c=11, P1n=12, P1p=13, P1l=14, P1s=15, P2c=16, P2n=17, P2p=18,
! P2l=19, P3c=20, P3n=21, P3p=22, P3l=23, P4c=24, P4n=25, P4p=26, P4l=27,
! Z3c=28, Z3n=29, Z3p=30, Z4c=31, Z4n=32, Z4p=33, Z5c=34, Z5n=35, Z5p=36,
! Z6c=37, Z6n=38, Z6p=39, R1c=40, R1n=41, R1p=42, R2c=43, R3c=44, R6c=45,
! R6n=46, R6p=47, R6s=48, O3c=49, O3h=50, ETW=51, ESW=52, ERHO=53, EIR=54,
! ESS=55, EPR=56, Depth=57, Volume=58, DIC=59, Area=60, CO2=61, pCO2=62, HCO3=63,
! CO3=64, ALK=65, pH=66, OCalc=67, OArag=68, totpelc=69, totpeln=70, totpelp=71, totpels=72,
! cxoO2=73, eO2mO2=74, Chla=75, flPTN6r=76, flN3O4n=77, flN4N3n=78, sediR2=79, sediR6=80, xEPS=81,
! ABIO_eps=82, EPCO2air=165, CO2airflux=166, Area2d=167, ThereIsLight=168, SUNQ=169, totsysc=170, totsysn=171, EWIND=172,
! totsysp=173, totsyss=174, EICE=175,
&bfm_init_nml
O2o0 = 300.0
N1p0 = 1.0
N3n0 = 5.0
N4n0 = 1.0
N5s0 = 8.0
N6r0 = 1.0
O3c0 = 27060.00
O3h0 = 2660.0
O4n0 = 200.0
P1c0 = 1.0
P2c0 = 1.0
P3c0 = 1.0
P4c0 = 1.0
Z3c0 = 1.0
Z4c0 = 1.0
Z5c0 = 1.0
Z6c0 = 1.0
B1c0 = 1.0
R1c0 = 1.0
R2c0 = 0.1
R3c0 = 1.0
R6c0 = 1.0
/
! bfm_save_nml !-------------------------------------------------------------------------!
! Stored variables
!ave_save: average values over the output interval
!var_save: instantaneous value at the output interval
!-------------------------------------------------------------------------!
&bfm_save_nml
var_save = ''
ave_save = 'ETW' 'O2o' 'DIC' 'EIR' 'xEPS' 'Chla' 'N1p' 'N3n' 'N4n' 'N5s' 'B1c' 'P1c' 'P2c' 'P3c' 'P4c' 'P1l' 'P2l' 'P3l' 'P4l' 'P1n' 'P2n' 'P3n' 'P4n' 'P1p' 'P2p' 'P3p' 'P4p' 'Z3c' 'Z4c' 'Z5c' 'Z6c' 'R1c' 'R2c' 'R6c' 'R1n' 'R6n' 'R1p' 'R6p' 'P1s' 'R6s' 'eiPPY(iiP1)' 'eiPPY(iiP2)' 'eiPPY(iiP3)' 'eiPPY(iiP4)' 'sunPPY(iiP1)' 'sunPPY(iiP2)' 'sunPPY(iiP3)' 'sunPPY(iiP4)' 'ruPPYc' 'resPBAc' 'resZOOc' 'ruPPYn' 'ruPPYp' 'ruPPYs' 'exPPYc' 'ruZOOc' 'remZOOn' 'remZOOp' 'remPBAn' 'remPBAp'
/
! bfm_nml !-------------------------------------------------------------------------!
! Main initialisation and output specifications
! NAME KIND DESCRIPTION
! bio_calc logical Switch on/off BFM (for coupled configurations)
! bfm_init integer Initialization state
! 0. from constant values in bfm_init_nml below
! 1. from restart
! bfm_rstctl logical Save initial state of bfm in the output file.
! bio_setup integer BFM configuration:
! 1. pelagic
! 2. benthic
! 3. pelagic and benthic
! 4. sea ice
! 5. pelagic and sea ice
! out_fname string Name of NetCDF output file
! out_dir string Path to the output file
! out_title string Name of the experiment in NetCDF file
! out_delta integer Output is saved every out_delta timesteps
! Use -1 to store with real monthly frequency
! parallel_log logical Set true in parallel jobs for a single log file
!-------------------------------------------------------------------------!
&bfm_nml
bio_calc = .TRUE.
bfm_init = 0
bfm_rstctl = .FALSE.
bio_setup = 1
out_fname = 'BFM_standalone_pelagic'
out_dir = '.'
out_title = 'BFM_STANDALONE_PELAGIC'
in_rst_fname = 'in_bfm_restart'
out_delta = 300
parallel_log = .FALSE.
/
! Param_parameters !-------------------------------------------------------------------------!
! Global Switches : turn on/off or choose model components
! NAME KIND DESCRIPTION
! CalcPelagicFlag logical Pelagic System
! CalcBenthicFlag numeric Benthic system
! 0 = No Benthic System
! The following are Not Yet Activated
! 1 = Simple Benthic Return
! 2 = Benthic organisms and intermediate
! complexity nutrient regeneration
! 3 = Benthic organisms and full nutrient
! regeneration (early diagenesis)
! CalcTransportFlag logical Compute Transport Term (when coupled
! with a OGCM)
! CalcConservationFlag logical Mass Conservation Check
! CalcPhytoPlankton logical Pelagic Phytoplankton (vector)
! CalcPelBacteria logical Pelagic Bacteria (vector)
! CalcMesoZooPlankton logical Mesozooplankton (vector)
! CalcMicroZooPlankton logical Microzooplankton (vector)
! CalcPelChemistry logical Pelagic Hydrochemical Processes
! AssignPelBenFluxesInBFMFlag logical Benthic-pelagic fluxes are added to the
! time integration
! AssignAirPelFluxesInBFMFlag logical Air-sea fluxes are added to the
! time integration
! ChlDynamicsFlag numeric Choose the dynamics of Chl-a
! 1 = diagnostic, optimal light property
! in phytoplankton
! (Ebenhoeh et al 1995, ERSEM-II)
! 2 = state variable, constituent of
! phytoplankton
! check_fixed_quota numeric Check whether zooplankton have fixed quota
!
! Global Parameters : used throughout the model and not related
! to a specific component
! NAME UNIT DESCRIPTION
! p_small [-] Smallest numeric value (the model "zero")
! slp0 [mbar] Reference sea level pressure
! p_pe_R1c [-] Fractional content of C in cytoplasm
! p_pe_R1n [-] Fractional content of N in cytoplasm
! p_pe_R1p [-] Fractional content of P in cytoplasm
! p_qro [mmolHS-/ Stoichiometric coefficient for
! mmolO2] anaerobic reactions
! p_qon_dentri [mmolO2/ Stoichiometric coefficient for
! mmolN] denitrification
! p_qon_nitri [mmolO2/ Stoichiometric coefficient for
! mmolN] nitrification
!-------------------------------------------------------------------------!
&Param_parameters
CalcPelagicFlag = .TRUE.
CalcBenthicFlag = 0
CalcConservationFlag = .FALSE.
CalcTransportFlag = .FALSE.
CalcPhytoPlankton(1) = .TRUE.
CalcPhytoPlankton(2) = .TRUE.
CalcPhytoPlankton(3) = .TRUE.
CalcPhytoPlankton(4) = .TRUE.
CalcPelBacteria(1) = .TRUE.
CalcMicroZooPlankton(1) = .TRUE.
CalcMicroZooPlankton(2) = .TRUE.
CalcMesoZooPlankton(1) = .TRUE.
CalcMesoZooPlankton(2) = .TRUE.
CalcPelChemistry = .TRUE.
AssignPelBenFluxesInBFMFlag = .FALSE.
AssignAirPelFluxesInBFMFlag = .TRUE.
ChlDynamicsFlag = 2
check_fixed_quota = 0
p_small = 1.0e-20
slp0 = 1013.25E0
p_pe_R1c = 0.60
p_pe_R1n = 0.72
p_pe_R1p = 0.832
p_qro = 0.5
p_qon_dentri = 1.25
p_qon_nitri = 2.0
/
! bfm_init_nml !-------------------------------------------------------------------------!
!Pelagic initialisation of standard variables
!<variablename>0 = <realvalue>
!-------------------------------------------------------------------------!
! Index of parameters for using inside InitVar structure
! EPCO2air=1, O2o=1, ETW=1, ESW=2, N1p=2, CO2airflux=2, N3n=3, ERHO=3, Area2d=3,
! N4n=4, ThereIsLight=4, EIR=4, SUNQ=5, O4n=5, ESS=5, totsysc=6, EPR=6, N5s=6,
! totsysn=7, N6r=7, Depth=7, EWIND=8, B1c=8, Volume=8, B1n=9, DIC=9, totsysp=9,
! totsyss=10, Area=10, B1p=10, P1c=11, EICE=11, CO2=11, pCO2=12, P1n=12, HCO3=13,
! P1p=13, CO3=14, P1l=14, P1s=15, ALK=15, P2c=16, pH=16, OCalc=17, P2n=17,
! OArag=18, P2p=18, P2l=19, totpelc=19, totpeln=20, P3c=20, totpelp=21, P3n=21, totpels=22,
! P3p=22, cxoO2=23, P3l=23, eO2mO2=24, P4c=24, P4n=25, Chla=25, flPTN6r=26, P4p=26,
! flN3O4n=27, P4l=27, Z3c=28, flN4N3n=28, Z3n=29, sediR2=29, Z3p=30, sediR6=30, Z4c=31,
! xEPS=31, ABIO_eps=32, Z4n=32, Z4p=33, Z5c=34, Z5n=35, Z5p=36, Z6c=37, Z6n=38,
! Z6p=39, R1c=40, R1n=41, R1p=42, R2c=43, R3c=44, R6c=45, R6n=46, R6p=47,
! R6s=48, O3c=49, O3h=50,
&bfm_init_nml
O2o0 = 300.0
N1p0 = 1.0
N3n0 = 5.0
N4n0 = 1.0
N5s0 = 8.0
N6r0 = 1.0
O3c0 = 27060.00
O3h0 = 2660.0
O4n0 = 200.0
P1c0 = 1.0
P2c0 = 1.0
P3c0 = 1.0
P4c0 = 1.0
Z3c0 = 1.0
Z4c0 = 1.0
Z5c0 = 1.0
Z6c0 = 1.0
B1c0 = 1.0
R1c0 = 1.0
R2c0 = 0.1
R3c0 = 1.0
R6c0 = 1.0
/
! bfm_save_nml !-------------------------------------------------------------------------!
! Stored variables
!ave_save: average values over the output interval
!var_save: instantaneous value at the output interval
!-------------------------------------------------------------------------!
&bfm_save_nml
var_save = ''
ave_save = 'ETW' 'O2o' 'DIC' 'EIR' 'xEPS' 'Chla' 'N1p' 'N3n' 'N4n' 'N5s' 'B1c' 'P1c' 'P2c' 'P3c' 'P4c' 'P1l' 'P2l' 'P3l' 'P4l' 'P1n' 'P2n' 'P3n' 'P4n' 'P1p' 'P2p' 'P3p' 'P4p' 'Z3c' 'Z4c' 'Z5c' 'Z6c' 'R1c' 'R2c' 'R6c' 'R1n' 'R6n' 'R1p' 'R6p' 'P1s' 'R6s' 'eiPPY(iiP1)' 'eiPPY(iiP2)' 'eiPPY(iiP3)' 'eiPPY(iiP4)' 'sunPPY(iiP1)' 'sunPPY(iiP2)' 'sunPPY(iiP3)' 'sunPPY(iiP4)' 'ruPPYc' 'resPBAc' 'resZOOc' 'ruPPYn' 'ruPPYp' 'ruPPYs' 'exPPYc' 'ruZOOc' 'remZOOn' 'remZOOp' 'remPBAn' 'remPBAp'
/