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COBALT_parameter_doc.all
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COBALT_parameter_doc.all
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! This file was written by the model and records all non-layout or debugging parameters used at run-time.
! === module COBALT ===
init = False ! [Boolean] default = False
! init
htotal_scale_lo = 0.01 ! default = 0.01
! scaling factor for initializing carbon chemistry solver
htotal_scale_hi = 100.0 ! default = 100.0
! scaling factor for initializing carbon chemistry solver
RHO_0 = 1035.0 ! [kg m-3] default = 1035.0
! reference density
a_0 = 2.00907 ! [ml L-1] default = 2.00907
! O2 sat. regression coefficient
a_1 = 3.22014 ! [ml L-1] default = 3.22014
! O2 sat. regression coefficient
a_2 = 4.0501 ! [ml L-1] default = 4.0501
! O2 sat. regression coefficient
a_3 = 4.94457 ! [ml L-1] default = 4.94457
! O2 sat. regression coefficient
a_4 = -0.256847 ! [ml L-1] default = -0.256847
! O2 sat. regression coefficient
a_5 = 3.88767 ! [ml L-1] default = 3.88767
! O2 sat. regression coefficient
b_0 = -0.00624523 ! [ml L-1 (ppt salt)-1)] default = -0.00624523
! O2 sat. regression coefficient
b_1 = -0.00737614 ! [ml L-1 (ppt salt)-1] default = -0.00737614
! O2 sat. regression coefficient
b_2 = -0.010341 ! [ml L-1 (ppt salt)-1] default = -0.010341
! O2 sat. regression coefficient
b_3 = -0.00817083 ! [ml L-1 (ppt salt)-1] default = -0.00817083
! O2 sat. regression coefficient
c_0 = -4.88682E-07 ! [ml L-1 (ppt salt)-2] default = -4.88682E-07
! O2 sat. regression coefficient
a1_co2 = 2116.8 ! [dimensionless] default = 2116.8
! CO2 Schmidt # regression coefficient
a2_co2 = -136.25 ! [deg. C-1] default = -136.25
! CO2 Schmidt # regression coefficient
a3_co2 = 4.7353 ! [deg. C-2] default = 4.7353
! CO2 Schmidt # regression coefficient
a4_co2 = -0.092307 ! [deg. C-3] default = -0.092307
! CO2 Schmidt # regression coefficient
a5_co2 = 7.555E-04 ! [deg. C-4] default = 7.555E-04
! CO2 Schmidt # regression coefficient
a1_o2 = 1920.4 ! [dimensionless] default = 1920.4
! O2 Schmidt # regression coefficient
a2_o2 = -135.6 ! [deg. C-1] default = -135.6
! O2 Schmidt # regression coefficient
a3_o2 = 5.2122 ! [deg. C-2] default = 5.2122
! O2 Schmidt # regression coefficient
a4_o2 = -0.10939 ! [deg. C-3] default = -0.10939
! O2 Schmidt # regression coefficient
a5_o2 = 9.3777E-04 ! [deg. C-4] default = 9.3777E-04
! O2 Schmidt # regression coefficient
n_2_n_denit = 5.9 ! [mol N mol N-1] default = 5.9
! moles NO3 used per mole org. N remineralized via denitrification
no3_2_nh4_amx = 0.6 ! [mol N mol N-1] default = 0.6
! moles NO3 used per mole NH4+ oxidized to N2 via anammox
o2_2_nfix = 8.125 ! [mol O2 mol N-1] default = 8.125
! moles O2 created per mole of N fixed
o2_2_nh4 = 7.375 ! [mol O2 mol N-1] default = 7.375
! moles O2 created (consumed) per mole NH4-based prim. prod. (aerobic
! remineralization to NH4+)
o2_2_nitrif = 2.0 ! [mol O2 mol N-1] default = 2.0
! moles O2 consumed per mole of NH4+ nitrified to NO3-
o2_2_no3 = 9.375 ! [mol O2 mol N-1] default = 9.375
! moles O2 created per mole of NO3-based prim. prod.
alk_2_n_denit = 1.1694915254237288 ! [mol alk mol N-1] default = 1.1694915254237288
! moles alkalinity created per mole NO3- consumed during denitrification
alk_2_nh4_amx = 0.4 ! [mol alk mol N-1] default = 0.4
! moles alkalinity removed per mole NH4+ consumed via anammox
k_nh4_Di = 1.0E-07 ! [mol NH4 kg-1] default = 1.0E-07
! half-saturation for diazotroph ammonium uptake
k_nh4_Lg = 5.0E-08 ! [mol NH4 kg-1] default = 5.0E-08
! half-saturation for large phytoplankton ammonium uptake and growth limitation
k_nh4_Md = 2.0E-08 ! [mol NH4 kg-1] default = 2.0E-08
! half-saturation for medium phytoplankton ammonium uptake and growth limitation
k_nh4_Sm = 1.0E-08 ! [mol NH4 kg-1] default = 1.0E-08
! half-saturation for small phytoplankton ammonium uptake and growth limitation
k_no3_Di = 5.0E-06 ! [mol NO3 kg-1] default = 5.0E-06
! half-saturation for diazotroph nitrate uptake
k_no3_Lg = 2.5E-06 ! [mol NO3 kg-1] default = 2.5E-06
! half-saturation for large phytoplankton nitrate uptake and growth limitation
k_no3_Md = 1.0E-06 ! [mol NO3 kg-1] default = 1.0E-06
! half-saturation for medium phytoplankton nitrate uptake and growth limitation
k_no3_Sm = 5.0E-07 ! [mol NO3 kg-1] default = 5.0E-07
! half-saturation for small phytoplankton nitrate uptake and growth limitation
k_po4_Di = 1.0E-07 ! [mol PO4 kg-1] default = 1.0E-07
! half-saturation for diazotroph phosphate uptake and limitation
k_po4_Lg = 5.0E-08 ! [mol PO4 kg-1] default = 5.0E-08
! half-saturation for large phytoplankton phosphate uptake and growth limitation
k_po4_Md = 2.0E-08 ! [mol PO4 kg-1] default = 2.0E-08
! half-saturation for medium phytoplankton phosphate uptake and growth
! limitation
k_po4_Sm = 1.0E-08 ! [mol PO4 kg-1] default = 1.0E-08
! half-saturation for small phytoplankton phosphate uptake and growth limitation
k_sio4_Lg = 2.0E-06 ! [mol SiO4 kg-1] default = 2.0E-06
! half-saturation for large phytoplankton silicate uptake and Si:N ratio
k_sio4_Md = 1.0E-06 ! [mol SiO4 kg-1] default = 1.0E-06
! half-saturation for medium phytoplankton silicate uptake and Si:N ratio
k_fed_Di = 4.0E-09 ! [mol Fed kg-1] default = 4.0E-09
! half-saturation constant for diazotroph iron uptake and growth limitation
k_fed_Lg = 2.0E-09 ! [mol Fed kg-1] default = 2.0E-09
! half-saturation for large phytoplankton iron uptake and growth limitation
k_fed_Md = 8.0E-10 ! [mol Fed kg-1] default = 8.0E-10
! half-saturation for medium phytoplankton iron uptake and growth limitation
k_fed_Sm = 4.0E-10 ! [mol Fed kg-1] default = 4.0E-10
! half-saturation for small phytoplankton iron uptake and growth limitation
k_fe_2_n_Di = 7.950000000000001E-05 ! [mol Fe (mol N)-1] default = 7.950000000000001E-05
! internal iron quota half-saturation for diazotroph growth
k_fe_2_n_Lg = 6.625000000000001E-05 ! [mol Fe (mol N)-1] default = 6.625000000000001E-05
! internal iron quota half-saturation for large phytoplankton growth
k_fe_2_n_Md = 2.65E-05 ! [mol Fe (mol N)-1] default = 2.65E-05
! internal iron quota half-saturation for medium phytoplankton growth
k_fe_2_n_Sm = 1.325E-05 ! [mol Fe (mol N)-1] default = 1.325E-05
! internal iron quota half-saturation for small phytoplankton growth
fe_2_n_max_Di = 0.0033125 ! [mol Fe (mol N)-1] default = 0.0033125
! maximum internal iron quota for diazotrophs
fe_2_n_max_Lg = 0.0033125 ! [mol Fe (mol N)-1] default = 0.0033125
! maximum internal iron quota for large phytoplankton
fe_2_n_max_Md = 0.00165625 ! [mol Fe (mol N)-1] default = 0.00165625
! maximum internal iron quota for medium phytoplankton
fe_2_n_max_Sm = 3.3125E-04 ! [mol Fe (mol N)-1] default = 3.3125E-04
! maximum internal iron quota for small phytoplankton
fe_2_n_upt_fac = 6.0E-05 ! [mol Fe (mol N)-1] default = 6.0E-05
! scaling factor for iron uptake relative to maximum photosynthesis
alpha_Di_hl = 4.0E-06 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 4.0E-06
! Chl-a specific initial slope of photosynth-irrad curve, high-light adapted
! diazotrophs
alpha_Lg_hl = 4.0E-06 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 4.0E-06
! Chl-a specific initial slope of photosynth-irrad curve, high-light adapted
! large phytoplankton
alpha_Md_hl = 8.0E-06 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 8.0E-06
! Chl-a specific initial slope of photosynth-irrad curve, high-light adapted
! medium phytoplankton
alpha_Sm_hl = 1.6E-05 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 1.6E-05
! Chl-a specific initial slope of photosynth-irrad curve, high-light adapted
! small phytoplankton
alpha_Di_ll = 8.0E-06 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 8.0E-06
! Chl-a specific initial slope of photosynth-irrad curve, low-light adapted
! diazotrophs
alpha_Lg_ll = 8.0E-06 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 8.0E-06
! Chl-a specific initial slope of photosynth-irrad curve, low-light adapted
! large phytoplankton
alpha_Md_ll = 1.6E-05 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 1.6E-05
! Chl-a specific initial slope of photosynth-irrad curve, low-light adapted
! medium phytoplankton
alpha_Sm_ll = 3.2E-05 ! [g C g Chl-1 (micromol quanta m-2)-1] default = 3.2E-05
! Chl-a specific initial slope of photosynth-irrad curve, low-light adapted
! small phytoplankton
kappa_eppley = 0.063 ! [deg C-1] default = 0.063
! exponential temperature dependence of phytoplankton rates
P_C_max_Di_hl = 0.6 ! [day-1] default = 0.6
! maximum photosynthesis rate at 0 deg. C, high-light adapted diazotrophs
P_C_max_Lg_hl = 1.0 ! [day-1] default = 1.0
! maximum photosynthesis rate at 0 deg. C, high-light adapted large
! phytoplankton
P_C_max_Md_hl = 1.1 ! [day-1] default = 1.1
! maximum photosynthesis rate at 0 deg. C, high-light adapted medium
! phytoplankton
P_C_max_Sm_hl = 1.0 ! [day-1] default = 1.0
! maximum photosynthesis rate at 0 deg. C, high-light adapted small
! phytoplankton
P_C_max_Di_ll = 0.3 ! [day-1] default = 0.3
! maximum photosynthesis rate at 0 deg. C, low-light adapted diazotrophs
P_C_max_Lg_ll = 0.5 ! [day-1] default = 0.5
! maximum photosynthesis rate at 0 deg. C, low-light adapted large phytoplankton
P_C_max_Md_ll = 0.55 ! [day-1] default = 0.55
! maximum photosynthesis rate at 0 deg. C, low-light adapted medium
! phytoplankton
P_C_max_Sm_ll = 0.5 ! [day-1] default = 0.5
! maximum photosynthesis rate at 0 deg. C, low-light adapted small phytoplankton
numlightadapt = 10 ! [number of ecotypes] default = 10
! number of light adaptation ecotypes
thetamax_Di = 0.035 ! [g chl g C-1] default = 0.035
! maximum chlorophyll to carbon ratio for diazotrophs
thetamax_Lg = 0.07 ! [g chl g C-1] default = 0.07
! maximum chlorophyll to carbon ratio for large phytoplankton
thetamax_Md = 0.045 ! [g chl g C-1] default = 0.045
! maximum chlorophyll to carbon ratio for medium phytoplankton
thetamax_Sm = 0.035 ! [g chl g C-1] default = 0.035
! maximum chlorophyll to carbon ratio for small phytoplankton
bresp_frac_mixed_Di = 0.02 ! [none] default = 0.02
! diazotroph basal respiration rate in mixed layer as fraction of max
! photosynthesis
bresp_frac_mixed_Lg = 0.02 ! [none] default = 0.02
! large phytoplankton basal respiration rate in mixed layer as fraction of max
! photosynthesis
bresp_frac_mixed_Md = 0.02 ! [none] default = 0.02
! medium phytoplankton basal respiration rate in mixed layer as fraction of max
! photosynthesis
bresp_frac_mixed_Sm = 0.02 ! [none] default = 0.02
! small phytoplankton basal respiration rate in mixed layer as fraction of max
! photosynthesis
bresp_frac_strat_Di = 0.01 ! [none] default = 0.01
! diazotroph basal respiration rate below mixed layer as fraction of max
! photosynthesis
bresp_frac_strat_Lg = 0.01 ! [none] default = 0.01
! large phytoplankton basal respiration rate below mixed layer as fraction of
! max photosynthesis
bresp_frac_strat_Md = 0.01 ! [none] default = 0.01
! medium phytoplankton basal respiration rate below mixed layer as fraction of
! max photosynthesis
bresp_frac_strat_Sm = 0.01 ! [none] default = 0.01
! small phytoplankton basal respiration rate below mixed layer as fraction of
! max photosynthesis
thetamin = 0.002 ! [g chl g C-1] default = 0.002
! minimum chlorophyll to carbon ratio
zeta = 0.05 ! [none] default = 0.05
! cost of biosynthesis
par_adj = 0.83 ! [none] default = 0.83
! photosynthetically active fraction of shortwave radiation
gamma_irr_aclm = 1.0 ! [day-1] default = 1.0
! time scale for determining the photoacclimation irradiance
gamma_mu_mem = 1.0 ! [day-1] default = 1.0
! time scale for determining growth rates for phytoplankton stress calculations
ml_aclm_efold = 2.5 ! [none] default = 2.5
! number of e-folding depths for photoacclimation in deep mixed layers
zmld_ref = 10.0 ! [m] default = 10.0
! reference depth for mixed layer calculation
densdiff_mld = 0.03 ! [kg m-3] default = 0.03
! potential density difference for determining mixed layer depth
do_case2_mod = True ! [Boolean] default = False
! When true, modify the opacity of case 2 (coastal) waterswhich are identified
! based on a salinity and depth threshold
case2_depth = 30.0 ! [m] default = 30.0
! Depth threshold to identify Case 2 water when using a modified opacity.
case2_salt = 30.0 ! [PSU] default = 30.0
! Salinity threshold to identify Case 2 water when using a modified opacity.
case2_opac_add = 0.05 ! [m-1] default = 0.05
! Additional opactity added in Case 2 waters when using a modified opacity.
min_daylength = 6.0 ! [hours] default = 6.0
! minimum daylength for calculating the daytime irradiance
refuge_conc = 1.0E-10 ! [mol N kg-1] default = 1.0E-10
! refuge concentration for grazing and loss terms
o2_inhib_Di_pow = 4.0 ! [none] default = 4.0
! exponent controlling the shape of the function inhibiting nitrogen fixation at
! high o2
o2_inhib_Di_sat = 3.0E-04 ! [mol O2 kg-1] default = 3.0E-04
! oxygen concentration where nitrogen fixation is 1/2 maximal values
c_2_n = 6.625 ! [mol C mol N-1] default = 6.625
! carbon to nitrogen ratio of organic matter
p_2_n_min_Di = 0.025 ! [mol P mol N-1] default = 0.025
! minimum diazotroph P:N ratio
p_2_n_slope_Di = 0.0 ! [mol P mol N-1 mol PO4-1 kg] default = 0.0
! increase in diazotroph P:N ratio per unit phosphate concentration
p_2_n_max_Di = 0.025 ! [mol P mol N-1] default = 0.025
! maximum diazotroph P:N ratio
p_2_n_min_Sm = 0.032258064516129 ! [mol P mol N-1] default = 0.032258064516129
! minimum small phytoplankton P:N ratio
p_2_n_slope_Sm = 4.8E+04 ! [mol P mol N-1 mol PO4-1 kg] default = 4.8E+04
! increase in small phytoplankton P:N ratio per unit phosphate concentration
p_2_n_max_Sm = 0.05 ! [mol P mol N-1] default = 0.05
! maximum small phytoplankton P:N ratio
p_2_n_min_Md = 0.032258064516129 ! [mol P mol N-1] default = 0.032258064516129
! minimum medium phytoplankton P:N ratio
p_2_n_slope_Md = 4.8E+04 ! [mol P mol N-1 mol PO4-1 kg] default = 4.8E+04
! increase in medium phytoplankton P:N ratio per unit phosphate concentration
p_2_n_max_Md = 0.0625 ! [mol P mol N-1] default = 0.0625
! maximum medium phytoplankton P:N ratio
p_2_n_min_Lg = 0.032258064516129 ! [mol P mol N-1] default = 0.032258064516129
! minimum large phytoplankton P:N ratio
p_2_n_slope_Lg = 4.8E+04 ! [mol P mol N-1 mol PO4-1 kg] default = 4.8E+04
! increase in large phytoplankton P:N ratio per unit phosphate concentration
p_2_n_max_Lg = 0.0714285714285714 ! [mol P mol N-1] default = 0.0714285714285714
! maximum large phytoplankton P:N ratio
si_2_n_max_Lg = 3.0 ! [mol Si mol N-1] default = 3.0
! maximum large phytoplankton silica to nitrogen ratio
si_2_n_max_Md = 1.0 ! [mol Si mol N-1] default = 1.0
! maximum medium phytoplankton silica to nitrogen ratio
q_p_2_n_smz = 0.05 ! [mol P mol N-1] default = 0.05
! Small zooplankton P:N
q_p_2_n_mdz = 0.0555555555555556 ! [mol P mol N-1] default = 0.0555555555555556
! Medium zooplankton P:N
q_p_2_n_lgz = 0.0625 ! [mol P mol N-1] default = 0.0625
! Large zooplankton P:N
mu_max_bact = 1.0 ! [day-1] default = 1.0
! max bacterial growth at 0 deg. C
k_ldon_bact = 5.0E-07 ! [mol ldon kg-1] default = 5.0E-07
! half-sat for bacteria uptake of labile dissolved organic nitrogen
ktemp_bact = 0.063 ! [deg. C-1] default = 0.063
! exponential temperature dependence of bacteria rates
gge_max_bact = 0.4 ! [none] default = 0.4
! maximum gross growth efficiency for bacteria
bresp_bact = 0.0075 ! [day-1] default = 0.0075
! basal respiration rate for bacteria at 0 deg. C
q_p_2_n_bact = 0.0625 ! [mol P mol N-1] default = 0.0625
! Bacteria P:N
frac_mu_stress_Sm = 0.25 ! [none] default = 0.25
! fraction of max growth when stress-dependent losses initiate for small
! phytoplankton
frac_mu_stress_Di = 0.25 ! [none] default = 0.25
! fraction of max growth when stress-dependent losses initiate for diazotrophs
frac_mu_stress_Lg = 0.25 ! [none] default = 0.25
! fraction of max growth when stress-dependent losses initiate for large
! phytoplankton
frac_mu_stress_Md = 0.25 ! [none] default = 0.25
! fraction of max growth when stress-dependent losses initiate for medium
! phytoplankton
agg_Sm = 0.05 ! [day-1 (micromol N kg-1)-1] default = 0.05
! aggregation rate constant for small phytoplankton
agg_Di = 0.0 ! [day-1 (micromol N kg-1)-1] default = 0.0
! aggregation rate constant for diazotrophs
agg_Lg = 0.25 ! [day-1 (micromol N kg-1)-1] default = 0.25
! aggregation rate constant for large phytoplankton
agg_Md = 0.1 ! [day-1 (micromol N kg-1)-1] default = 0.1
! aggregation rate constant for medium phytoplankton
vir_Sm = 0.25 ! [day-1 (micromol N kg-1)-1] default = 0.25
! virus-driven loss rate constant for small phytoplankton @ 0 deg. C
vir_Di = 0.05 ! [day-1 (micromol N kg-1)-1] default = 0.05
! virus-driven loss rate constant for diazotrophs @ 0 deg. C
vir_Lg = 0.05 ! [day-1 (micromol N kg-1)-1] default = 0.05
! virus-driven loss rate constant for large phytoplankton @ 0 deg. C
vir_Md = 0.125 ! [day-1 (micromol N kg-1)-1] default = 0.125
! virus-driven loss rate constant for medium phytoplankton @ 0 deg. C
vir_Bact = 0.25 ! [day-1 (micromol N kg-1)-1] default = 0.25
! virus-driven loss rate constant for bacteria @ 0 deg. C
ktemp_vir = 0.063 ! [deg. C-1] default = 0.063
! temperature dependence of viral loss rates
mort_Sm = 0.0 ! [day-1] default = 0.0
! mortality (cell death) rate constant for small phytoplankton @ 0 deg. C
mort_Di = 0.0 ! [day-1] default = 0.0
! mortality (cell death) rate constant for diazotrophs @ 0 deg. C
mort_Lg = 0.0 ! [day-1] default = 0.0
! mortality (cell death) rate constant for large phytoplankton @ 0 deg. C
mort_Md = 0.0 ! [day-1] default = 0.0
! mortality (cell death) rate constant for medium phytoplankton @ 0 deg. C
exu_Sm = 0.13 ! [none] default = 0.13
! fraction of small phytoplankton net primary production exuded as dissolved
! organic material
exu_Di = 0.13 ! [none] default = 0.13
! fraction of diazotroph net primary production exuded as dissolved organic
! material
exu_Lg = 0.13 ! [none] default = 0.13
! fraction of large phytoplankton net primary production exuded as dissolved
! organic material
exu_Md = 0.13 ! [none] default = 0.13
! fraction of medium phytoplankton net primary production exuded as dissolved
! organic material
sink_max_Di = 1.0 ! [m day-1] default = 1.0
! diazotroph max sink rate (non-aggregated)
sink_max_Lg = 5.0 ! [m day-1] default = 5.0
! large phytoplankton max sink rate (non-aggregated)
sink_max_Md = 1.0 ! [m day-1] default = 1.0
! medium phytoplankton max sink rate (non-aggregated)
sink_max_Sm = 0.0 ! [m day-1] default = 0.0
! small phytoplankton max sink rate (non-aggregated)
imax_smz = 1.136 ! [day-1] default = 1.136
! max ingestion rate for small zooplankton @ 0 deg. C
imax_mdz = 0.57 ! [day-1] default = 0.57
! max ingestion rate for medium zooplankton @ 0 deg. C
imax_lgz = 0.23 ! [day-1] default = 0.23
! max ingestion rate for large zooplankton @ 0 deg. C
ki_smz = 1.25E-06 ! [mol N kg-1] default = 1.25E-06
! half-sat for ingestion by small zooplankton
ki_mdz = 1.25E-06 ! [mol N kg-1] default = 1.25E-06
! half-sat for ingestion by medium zooplankton
ki_lgz = 1.25E-06 ! [mol N kg-1] default = 1.25E-06
! half-sat for ingestion by large zooplankton
ktemp_smz = 0.063 ! [deg. C-1] default = 0.063
! exponential temperature dependence of small zooplankton rates
ktemp_mdz = 0.063 ! [deg. C-1] default = 0.063
! exponential temperature dependence of medium zooplankton rates
ktemp_lgz = 0.063 ! [deg. C-1] default = 0.063
! exponential temperature dependence of large zooplankton rates
smz_ipa_smp = 1.0 ! [none] default = 1.0
! innate availability of small phytoplankton to small zooplankton feeding (0-1)
smz_ipa_mdp = 0.4 ! [none] default = 0.4
! innate availability of medium phytoplankton to small zooplankton feeding (0-1)
smz_ipa_lgp = 0.0 ! [none] default = 0.0
! innate availability of large phytoplankton to small zooplankton feeding (0-1)
smz_ipa_diaz = 0.0 ! [none] default = 0.0
! innate availability of diazotrophs to small zooplankton feeding (0-1)
smz_ipa_smz = 0.0 ! [none] default = 0.0
! innate availability of small zooplankton to small zooplankton feeding (0-1)
smz_ipa_mdz = 0.0 ! [none] default = 0.0
! innate availability of medium zooplankton to small zooplankton feeding (0-1)
smz_ipa_lgz = 0.0 ! [none] default = 0.0
! innate availability of large zooplankton to small zooplankton feeding (0-1)
smz_ipa_bact = 0.5 ! [none] default = 0.5
! innate availability of bacteria to small zooplankton feeding (0-1)
smz_ipa_det = 0.0 ! [none] default = 0.0
! innate availability of detritus to small zooplankton feeding (0-1)
mdz_ipa_smp = 0.4 ! [none] default = 0.4
! innate availability of small phytoplankton to medium zooplankton feeding (0-1)
mdz_ipa_mdp = 1.0 ! [none] default = 1.0
! innate availability of medium phytoplankton to medium zooplankton feeding
! (0-1)
mdz_ipa_lgp = 0.0 ! [none] default = 0.0
! innate availability of large phytoplankton to medium zooplankton feeding (0-1)
mdz_ipa_diaz = 0.75 ! [none] default = 0.75
! innate availability of diazotrophs to medium zooplankton feeding (0-1)
mdz_ipa_smz = 1.0 ! [none] default = 1.0
! innate availability of small zooplankton to medium zooplankton feeding (0-1)
mdz_ipa_mdz = 0.0 ! [none] default = 0.0
! innate availability of medium zooplankton to medium zooplankton feeding (0-1)
mdz_ipa_lgz = 0.0 ! [none] default = 0.0
! innate availability of large zooplankton to medium zooplankton feeding (0-1)
mdz_ipa_bact = 0.0 ! [none] default = 0.0
! innate availability of bacteria to medium zooplankton feeding (0-1)
mdz_ipa_det = 0.0 ! [none] default = 0.0
! innate availability of detritus to medium zooplankton feeding (0-1)
lgz_ipa_smp = 0.0 ! [none] default = 0.0
! innate availability of small phytoplankton to large zooplankton feeding (0-1)
lgz_ipa_mdp = 0.4 ! [none] default = 0.4
! innate availability of medium phytoplankton to large zooplankton feeding (0-1)
lgz_ipa_lgp = 1.0 ! [none] default = 1.0
! innate availability of large phytoplankton to large zooplankton feeding (0-1)
lgz_ipa_diaz = 0.4 ! [none] default = 0.4
! innate availability of diazotrophs to large zooplankton feeding (0-1)
lgz_ipa_smz = 0.0 ! [none] default = 0.0
! innate availability of small zooplankton to large zooplankton feeding (0-1)
lgz_ipa_mdz = 1.0 ! [none] default = 1.0
! innate availability of medium zooplankton to large zooplankton feeding (0-1)
lgz_ipa_lgz = 0.0 ! [none] default = 0.0
! innate availability of large zooplankton to large zooplankton feeding (0-1)
lgz_ipa_bact = 0.0 ! [none] default = 0.0
! innate availability of bacteria to large zooplankton feeding (0-1)
lgz_ipa_det = 0.0 ! [none] default = 0.0
! innate availability of detritus to large zooplankton feeding (0-1)
nswitch_smz = 2.0 ! [none] default = 2.0
! prey switching parameter 1 for small zooplankton
nswitch_mdz = 2.0 ! [none] default = 2.0
! prey switching parameter 1 for medium zooplankton
nswitch_lgz = 2.0 ! [none] default = 2.0
! prey switching parameter 1 for large zooplankton
mswitch_smz = 2.0 ! [none] default = 2.0
! prey switching parameter 2 for small zooplankton
mswitch_mdz = 2.0 ! [none] default = 2.0
! prey switching parameter 2 for medium zooplankton
mswitch_lgz = 2.0 ! [none] default = 2.0
! prey switching parameter 2 for large zooplankton
gge_max_smz = 0.4 ! [unitless] default = 0.4
! gge_max_smz
gge_max_mdz = 0.4 ! [unitless] default = 0.4
! gge_max_mdz
gge_max_lgz = 0.4 ! [unitless] default = 0.4
! gge_max_lgz
bresp_smz = 0.016 ! [day-1] default = 0.016
! bresp_smz
bresp_mdz = 0.008 ! [day-1] default = 0.008
! bresp_mdz
bresp_lgz = 0.0032 ! [day-1] default = 0.0032
! bresp_lgz
phi_det_smz = 0.0 ! [unitless] default = 0.0
! phi_det_smz
phi_det_mdz = 0.15 ! [unitless] default = 0.15
! phi_det_mdz
phi_det_lgz = 0.3 ! [unitless] default = 0.3
! phi_det_lgz
phi_ldon_smz = 0.1875 ! [unitless] default = 0.1875
! phi_ldon_smz
phi_ldon_mdz = 0.09375 ! [unitless] default = 0.09375
! phi_ldon_mdz
phi_ldon_lgz = 0.0 ! [unitless] default = 0.0
! phi_ldon_lgz
phi_ldop_smz = 0.1725 ! [unitless] default = 0.1725
! phi_ldop_smz
phi_ldop_mdz = 0.08625 ! [unitless] default = 0.08625
! phi_ldop_mdz
phi_ldop_lgz = 0.0 ! [unitless] default = 0.0
! phi_ldop_lgz
phi_srdon_smz = 0.0225 ! [unitless] default = 0.0225
! phi_srdon_smz
phi_srdon_mdz = 0.01125 ! [unitless] default = 0.01125
! phi_srdon_mdz
phi_srdon_lgz = 0.0 ! [unitless] default = 0.0
! phi_srdon_lgz
phi_srdop_smz = 0.0375 ! [unitless] default = 0.0375
! phi_srdop_smz
phi_srdop_mdz = 0.01875 ! [unitless] default = 0.01875
! phi_srdop_mdz
phi_srdop_lgz = 0.0 ! [unitless] default = 0.0
! phi_srdop_lgz
phi_sldon_smz = 0.09 ! [unitless] default = 0.09
! phi_sldon_smz
phi_sldon_mdz = 0.045 ! [unitless] default = 0.045
! phi_sldon_mdz
phi_sldon_lgz = 0.0 ! [unitless] default = 0.0
! phi_sldon_lgz
phi_sldop_smz = 0.09 ! [unitless] default = 0.09
! phi_sldop_smz
phi_sldop_mdz = 0.045 ! [unitless] default = 0.045
! phi_sldop_mdz
phi_sldop_lgz = 0.0 ! [unitless] default = 0.0
! phi_sldop_lgz
phi_ldon_vir = 0.625 ! [unitless] default = 0.625
! phi_ldon_vir
phi_srdon_vir = 0.075 ! [unitless] default = 0.075
! phi_srdon_vir
phi_sldon_vir = 0.3 ! [unitless] default = 0.3
! phi_sldon_vir
phi_ldop_vir = 0.575 ! [unitless] default = 0.575
! phi_ldop_vir
phi_srdop_vir = 0.125 ! [unitless] default = 0.125
! phi_srdop_vir
phi_sldop_vir = 0.3 ! [unitless] default = 0.3
! phi_sldop_vir
imax_hp = 0.09 ! [day-1] default = 0.09
! imax_hp
ki_hp = 1.25E-06 ! [mol N kg-1] default = 1.25E-06
! ki_hp
coef_hp = 2.0 ! [unitless] default = 2.0
! coef_hp
ktemp_hp = 0.063 ! [C-1] default = 0.063
! ktemp_hp
nswitch_hp = 2.0 ! [unitless] default = 2.0
! nswitch_hp
mswitch_hp = 2.0 ! [unitless] default = 2.0
! mswitch_hp
hp_ipa_smp = 0.0 ! [unitless] default = 0.0
! hp_ipa_smp
hp_ipa_mdp = 0.0 ! [unitless] default = 0.0
! hp_ipa_mdp
hp_ipa_lgp = 0.0 ! [unitless] default = 0.0
! hp_ipa_lgp
hp_ipa_diaz = 0.0 ! [unitless] default = 0.0
! hp_ipa_diaz
hp_ipa_smz = 0.0 ! [unitless] default = 0.0
! hp_ipa_smz
hp_ipa_mdz = 1.0 ! [unitless] default = 1.0
! hp_ipa_mdz
hp_ipa_lgz = 1.0 ! [unitless] default = 1.0
! hp_ipa_lgz
hp_ipa_bact = 0.0 ! [unitless] default = 0.0
! hp_ipa_bact
hp_ipa_det = 0.0 ! [unitless] default = 0.0
! hp_ipa_det
hp_phi_det = 0.35 ! [unitless] default = 0.35
! hp_phi_det
ffe_sed_max = 170.0 ! [micromoles Fe m-2 day-1] default = 170.0
! maximum iron release from the sediment
ffe_geotherm_ratio = 2.0E-12 ! [mol Fe m-2 s-1 (W m-2)-1] default = 2.0E-12
! iron release per unit of geothermal heat
jfe_iceberg_ratio = 1.0E-07 ! [mol Fe kg-1 ice melt] default = 1.0E-07
! iron release per kg of ice melt
jno3_iceberg_ratio = 2.0E-06 ! [mol N kg-1 ice melt] default = 2.0E-06
! nitrate release per kg of ice melt
jpo4_iceberg_ratio = 1.1E-07 ! [mol P kg-1 ice melt] default = 1.1E-07
! phosphate release per kg of ice melt
fe_coast = 0.0 ! [m-1] default = 0.0
! coastal iron flux parameter
half_life_14c = 5730.0 ! [s] default = 5730.0
! half_life_14c
lambda_14c = 1.209680943385594E-04 ! [-s] default = 1.209680943385594E-04
! lambda_14c
ca_2_n_arag = 0.055 ! [mol cadet_arag mol org. C-1] default = 0.055
! ratio of aragonite detritus prod. to org. C detritus prod. by aragonite shell
! formers
ca_2_n_calc = 0.05 ! [mol cadet_calc mol org. C-1] default = 0.05
! ratio of calcite detritus prod. to org. C detritus prod. by calcite shell
! formers
caco3_sat_max = 10.0 ! [none] default = 10.0
! cap for positive scaling of caco3 detritus prod with saturation state
k_o2 = 8.0E-06 ! [mol O2 kg-1] default = 8.0E-06
! O2 half-saturation for remineralization
k_no3_denit = 1.0E-06 ! [mol NO3 kg-1] default = 1.0E-06
! nitrate half-saturation for denitrification
o2_min = 8.0E-07 ! [mol O2 kg-1] default = 8.0E-07
! Minimum O2 for aerobic remineralization
kappa_remin = 0.063 ! [deg C-1] default = 0.063
! Temperature dependence of remineralization
remin_ramp_scale = 50.0 ! [m] default = 50.0
! depth scale from the surface over which remineralization ramps up
gamma_ndet = 3.306878306878307E-06 ! [s-1] default = 3.306878306878307E-06
! Remineralization rate for unprotected organic matter
rpcaco3 = 0.0880503144654088 ! [mol N mol Ca-1] default = 0.0880503144654088
! Organic matter protection from CaCO3
rplith = 8.176100628930818E-04 ! [mol N g lith-1] default = 8.176100628930818E-04
! Organic matter protection from lithogenic minerals
rpsio2 = 0.019622641509434 ! [mol N mol Si-1] default = 0.019622641509434
! Organic matter protection from silica
gamma_cadet_arag = 1.522904483430799E-06 ! [s-1] default = 1.522904483430799E-06
! Dissolution rate for aragonite detritus at 0 saturation
gamma_cadet_calc = 8.618074515319488E-07 ! [s-1] default = 8.618074515319488E-07
! Dissolution rate for calcite detritus at 0 saturation
kappa_sidet = 0.063 ! [deg C -1] default = 0.063
! Temperature dependence of silica dissolution
gamma_sidet = 1.157407407407407E-07 ! [s-1] default = 1.157407407407407E-07
! Dissolution rate of silica detritus at 0 deg. C
phi_lith = 0.002 ! [dimensionless] default = 0.002
! scaling factor for creating lithogenic detritus via filter feeding
k_lith = 0.5 ! [year-1] default = 0.5
! background formation rate of lithogenic detritus
felig_bkg = 5.0E-10 ! [mol Fe kg-1] default = 5.0E-10
! background organic ligand concentration
felig_2_don = 5.0E-04 ! [mol lig (mol N)-1] default = 5.0E-04
! proportionality for enhancing ligands with non-refractory don
alpha_fescav = 0.0 ! [year-1] default = 0.0
! linear iron scavenging rate constant
beta_fescav = 2.5E+09 ! [year-1 (mol ndet kg-1)-1] default = 2.5E+09
! iron scavenging rate constant for free iron - detritus interaction
remin_eff_fedet = 0.25 ! [unitless] default = 0.25
! iron remineralization efficiency relative to organic matter
io_fescav = 10.0 ! [W m-2] default = 10.0
! scaling for weakened iron-ligand binding in high light
fast_fescav_fac = 2.0 ! [none] default = 2.0
! multiplier for enhanced scavenging when free iron is above saturation
kfe_eq_lig_ll = 1.0E+12 ! [(mol lig-1 kg)-1] default = 1.0E+12
! low light ligand binding strength
kfe_eq_lig_hl = 1.0E+09 ! [(mol lig-1 kg)-1] default = 1.0E+09
! high light ligand binding strength
bottom_thickness = 1.0 ! [m] default = 1.0
! effective bottom layer thickness for calculating rates of benthic processes
z_sed = 0.1 ! [m] default = 0.1
! effective sediment layer thickness
z_burial = 20.0 ! [m] default = 10.0
! depth scale for ramping up particulate organic burial
z_denit = 20.0 ! [m] default = 10.0
! depth scale for ramping up benthic denitrification
scale_burial = 1.0 ! [none] default = 0.0
! scaling factor for particulate organic burial
cased_steady = False ! [Boolean] default = False
! cased_steady
phi_surfresp_cased = 0.14307 ! [unitless] default = 0.14307
! phi_surfresp_cased
phi_deepresp_cased = 4.1228 ! [unitless] default = 4.1228
! phi_deepresp_cased
alpha_cased = 2.7488 ! [unitless] default = 2.7488
! alpha_cased
beta_cased = -2.2185 ! [unitless] default = -2.2185
! beta_cased
gamma_cased = 0.03607 ! [year-1] default = 0.03607
! gamma_cased
Co_cased = 8100.0 ! [mol m-3] default = 8100.0
! Co_cased
gamma_srdon = 10.0 ! [1/(default*spery)] default = 10.0
! gamma_srdon
gamma_srdop = 4.0 ! [1/(default*spery)] default = 4.0
! gamma_srdop
gamma_sldon = 90.0 ! [1/(default*sperd)] default = 90.0
! gamma_sldon
gamma_sldop = 90.0 ! [1/(default*sperd)] default = 90.0
! gamma_sldop
doc_background = 4.0E-05 ! [uM] default = 4.0E-05
! doc_background
gamma_nitrif = 30.0 ! [gamma_nitrif /(default*sperd)] default = 30.0
! gamma_nitrif
knh4_nitrif = 3.1E-09 ! [mol kg-1] default = 3.1E-09
! knh4_nitrif
irr_inhibit = 10.0 ! [W m-2] default = 10.0
! irr_inhibit
gamma_nh4amx = 0.0 ! [day-1] default = 0.0
! gamma_nh4amx
o2_min_amx = 4.0E-06 ! [mol O2 kg-1] default = 4.0E-06
! o2_min_amx
k_no3_amx = 1.0E-06 ! [mol NO3 kg-1] default = 1.0E-06
! nitrate half-saturation for anammox
k_o2_nit = 3.9E-06 ! [mol O2 kg-1] default = 3.9E-06
! k_o2_nit
o2_min_nit = 1.0E-08 ! [mol O2 kg-1] default = 1.0E-08
! o2_min_nit
tracer_debug = False ! [Boolean] default = False
! tracer_debug