Skip to content

Commit

Permalink
Merge pull request #4 from njeffery/bgcpr1-nj
Browse files Browse the repository at this point in the history 
Updates bgc case settings documentation take 2
  • Loading branch information
@apcraig
apcraig committed Sep 11, 2024
2 parents 88cc351 + 492cb27 commit 43c81a0
Showing 1 changed file with 60 additions and 76 deletions.
136 changes: 60 additions & 76 deletions doc/source/user_guide/ug_case_settings.rst
View file
Original file line number Diff line number Diff line change
Expand Up @@ -103,11 +103,11 @@ can be modified as needed.
"NBGCLYR", "integer", "number of zbgc layers", "1"
"TRZAERO", "0-6", "number of z aerosol tracers", "0"
"TRALG", "0,1,2,3", "number of algal tracers", "0"
"TRDOC", "0,1,2,3", "number of dissolved organic carbon", "0"
"TRDOC", "0,1,2", "number of dissolved organic carbon", "0"
"TRDIC", "0,1", "number of dissolved inorganic carbon", "0"
"TRDON", "0,1", "number of dissolved organic nitrogen", "0"
"TRFEP", "0,1,2", "number of particulate iron tracers", "0"
"TRFED", "0,1,2", "number of dissolved iron tracers", "0"
"TRFEP", "0,1", "number of particulate iron tracers", "0"
"TRFED", "0,1", "number of dissolved iron tracers", "0"
"ICE_SNICARHC", "true,false", "include hardcoded (HC) snicar tables", "false"
"ICE_BLDDEBUG", "true,false", "turn on compile debug flags", "false"
"ICE_COVERAGE", "true,false", "turn on code coverage flags", "false"
Expand Down Expand Up @@ -392,19 +392,23 @@ forcing_nml
"", "``random``", "wave data file is provided, sea surface height generated using random number (multiple iterations of wave fracture)", ""
"``ycycle``", "integer", "number of years in forcing data cycle", "1"
"", "", "", ""

* = If Icepack is run stand-alone and wave_spec_type is not set to none, then a fixed wave spectrum is defined in the code to use for testing. As with other input data, this spectrum should not be used for production runs or publications.

zbgc_nml
~~~~~~~~~~~~~~~~~~~~~~~~~

.. _tab-bio-tracers-namelist2:

.. csv-table:: **zbgc_nml namelist options**
:header: "variable", "options/format", "description", "default value"
:widths: 15, 15, 30, 15
:widths: 15, 15, 30, 15

"", "", "", ""
"``algaltype_diatoms``", "real", "mobility type between stationary and mobile algal diatoms", "0.0"
"``algaltype_phaeo``", "real", "mobility type between stationary and mobile algal phaeocystis", "0.0"
"``algaltype_sp``", "real", "mobility type between stationary and mobile small plankton", "0.0"
"``algal_vel``", "real", ":cite:`Lavoie05`", "1.0e-7"
"``algal_vel``", "real", "maximum speed of algae (m/s) :cite:`Lavoie05`", "1.0e-7"
"``alpha2max_low_diatoms``", "real", "light limitation diatoms 1/(W/m^2)", "0.3"
"``alpha2max_low_phaeo``", "real", "light limitation phaeocystis 1/(W/m^2)", "0.17"
"``alpha2max_low_sp``", "real", "light limitation small plankton 1/(W/m^2)", "0.2"
Expand All @@ -417,7 +421,7 @@ zbgc_nml
"``chlabs_diatoms``", "real", "chl absorbtion diatoms 1/m/(mg/m^3)", "0.03"
"``chlabs_phaeo``", "real", "chl absorbtion phaeocystis 1/m/(mg/m^3)", "0.05"
"``chlabs_sp``", "real", "chl absorbtion small plankton 1/m/(mg/m^3)", "0.01"
"``dEdd_algae``", "logical", "", "``.false.``"
"``dEdd_algae``", "logical", "include ice bgc and/or aerosols in radiative transfer", "``.false.``"
"``dmspdtype``", "real", "mobility type between stationary and mobile dmspd", "0.0"
"``dmspptype``", "real", "mobility type between stationary and mobile dmspp", "0.5"
"``doctype_l``", "real", "mobility type between stationary and mobile doc lipids", "0.0"
Expand All @@ -427,14 +431,14 @@ zbgc_nml
"``fedtype_1``", "real", "mobility type between stationary and mobile fed lipids", "0.0"
"``feptype_1``", "real", "mobility type between stationary and mobile fep lipids", "0.5"
"``frazil_scav``", "real", "increase in initial bio bracer from ocean scavenging", "0.8"
"``fr_dFe``", "real", "fraction of remineralized nitrogen in units of algal iron", "1.0"
"``fr_dFe``", "real", "fraction of remineralized iron from algae", "1.0"
"``fr_graze_diatoms``", "real", "fraction grazed diatoms", "0.19"
"``fr_graze_e``", "real", "fraction of assimilation excreted", "0.5"
"``fr_graze_phaeo``", "real", "fraction grazed phaeocystis", "0.19"
"``fr_graze_s``", "real", "fraction of grazing spilled or slopped", "0.5"
"``fr_graze_sp``", "real", "fraction grazed small plankton", "0.19"
"``fr_mort2min``", "real", "fractionation of mortality to Am", "0.9"
"``fr_resp``", "real", "frac of algal growth lost due to respiration", "0.05"
"``fr_resp``", "real", "fraction of algal growth lost due to respiration", "0.05"
"``fr_resp_s``", "real", "DMSPd fraction of respiration loss as DMSPd", "0.9"
"``fsal``", "real", "salinity limitation ppt", "1.0"
"``F_abs_chl_diatoms``", "real", "scales absorbed radiation for dEdd chl diatoms", "2.0"
Expand All @@ -446,7 +450,7 @@ zbgc_nml
"``f_don_protein``", "real", "fraction of spilled grazing to proteins", "0.6"
"``f_exude_l``", "real", "fraction of exudation to DOC lipids", "1.0"
"``f_exude_s``", "real", "fraction of exudation to DOC saccharids", "1.0"
"``grid_o``", "real", "z biology for bottom flux", "0.006"
"``grid_o``", "real", "z biology length scale for bottom flux (m)", "0.006"
"``grid_oS``", "real", "DEPRECATED", ""
"``grow_Tdep_diatoms``", "real", "temperature dependence growth diatoms per degC", "0.063"
"``grow_Tdep_phaeo``", "real", "temperature dependence growth phaeocystis per degC", "0.063"
Expand All @@ -472,14 +476,14 @@ zbgc_nml
"``K_Sil_phaeo``", "real", "silicate half saturation phaeocystis mmol/m^3", "0.0"
"``K_Sil_sp``", "real", "silicate half saturation small plankton mmol/m^3", "0.0"
"``kn_bac_protein``", "real", "bacterial degradation of DON per day", "0.2"
"``l_sk``", "real", "characteristic diffusive scale in m", "20.0"
"``l_sk``", "real", "characteristic diffusive scale in m", "2.0"
"``l_skS``", "real", "DEPRECATED", ""
"``max_dfe_doc1``", "real", "max ratio of dFe to saccharides in the ice in nm Fe / muM C", "0.2"
"``max_loss``", "real", "restrict uptake to percent of remaining value", "0.9"
"``modal_aero``", "logical", "modal aersols", "``.false.``"
"``mort_pre_diatoms``", "real", "mortality diatoms", "0.007"
"``mort_pre_phaeo``", "real", "mortality phaeocystis", "0.007"
"``mort_pre_sp``", "real", "mortality small plankton", "0.007"
"``modal_aero``", "logical", "modal aerosols", "``.false.``"
"``mort_pre_diatoms``", "real", "mortality diatoms per day", "0.007"
"``mort_pre_phaeo``", "real", "mortality phaeocystis per day", "0.007"
"``mort_pre_sp``", "real", "mortality small plankton per day", "0.007"
"``mort_Tdep_diatoms``", "real", "temperature dependence of mortality diatoms per degC", "0.03"
"``mort_Tdep_phaeo``", "real", "temperature dependence of mortality phaeocystis per degC", "0.03"
"``mort_Tdep_sp``", "real", "temperature dependence of mortality small plankton per degC", "0.03"
Expand All @@ -488,20 +492,20 @@ zbgc_nml
"``mu_max_sp``", "real", "maximum growth rate small plankton per day", "0.41"
"``nitratetype``", "real", "mobility type between stationary and mobile nitrate", "-1.0"
"``op_dep_min``", "real", "light attenuates for optical depths exceeding min", "0.1"
"``phi_snow``", "real", "snow porosity for brine height tracer", "-0.3"
"``phi_snow``", "real", "snow porosity for brine height tracer (compute from snow density if negative)", "-1.0"
"``ratio_chl2N_diatoms``", "real", "algal chl to N in mg/mmol diatoms", "2.1"
"``ratio_chl2N_phaeo``", "real", "algal chl to N in mg/mmol phaeocystis", "0.84"
"``ratio_chl2N_sp``", "real", "algal chl to N in mg/mmol small plankton", "1.1"
"``ratio_C2N_diatoms``", "real", "algal C to N in mol/mol diatoms", "7.0"
"``ratio_C2N_phaeo``", "real", "algal C to N in mol/mol phaeocystis", "7.0"
"``ratio_C2N_proteins``", "real", "algal C to N in mol/mol proteins", "5.0"
"``ratio_C2N_sp``", "real", "algal C to N in mol/mol small plankton", "7.0"
"``ratio_Fe2C_diatoms``", "real", "algal Fe to C in umol/mol diatoms", "0.0033"
"``ratio_Fe2C_phaeo``", "real", "algal Fe to C in umol/mol phaeocystis", "0.1"
"``ratio_Fe2C_sp``", "real", "algal Fe to C in umol/mol small plankton", "0.0033"
"``ratio_Fe2N_diatoms``", "real", "algal Fe to N in umol/mol diatoms", "0.023"
"``ratio_Fe2N_phaeo``", "real", "algal Fe to N in umol/mol phaeocystis", "0.7"
"``ratio_Fe2N_sp``", "real", "algal Fe to N in umol/mol small plankton", "0.023"
"``ratio_Fe2C_diatoms``", "real", "algal Fe to C in mmol/mol diatoms", "0.0033"
"``ratio_Fe2C_phaeo``", "real", "algal Fe to C in mmol/mol phaeocystis", "0.1"
"``ratio_Fe2C_sp``", "real", "algal Fe to C in mmol/mol small plankton", "0.0033"
"``ratio_Fe2N_diatoms``", "real", "algal Fe to N in mmol/mol diatoms", "0.023"
"``ratio_Fe2N_phaeo``", "real", "algal Fe to N in mmol/mol phaeocystis", "0.7"
"``ratio_Fe2N_sp``", "real", "algal Fe to N in mmol/mol small plankton", "0.023"
"``ratio_Fe2DOC_s``", "real", "Fe to C of DON saccharids nmol/umol", "0.1"
"``ratio_Fe2DOC_l``", "real", "Fe to C of DOC lipids nmol/umol", "0.033"
"``ratio_Fe2DON``", "real", "Fe to C of DON nmol/umol", "0.023"
Expand All @@ -513,37 +517,37 @@ zbgc_nml
"``ratio_S2N_sp``", "real", "algal S to N in mol/mol small plankton", "0.03"
"``restore_bgc``", "logical", "DEPRECATED", "``.false.``"
"``R_dFe2dust``", "real", "g/g :cite:`Tagliabue09`", "0.035"
"``scale_bgc``", "logical", "", "``.false.``"
"``scale_bgc``", "logical", "initialize bgc by scaling with salinity", "``.false.``"
"``silicatetype``", "real", "mobility type between stationary and mobile silicate", "-1.0"
"``skl_bgc``", "logical", "DEPRECATED", "``.false.``"
"``solve_zbgc``", "logical", "", "``.false.``"
"``skl_bgc``", "logical", "DEPRECATED: skeletal layer biogeochemistry", "``.false.``"
"``solve_zbgc``", "logical", "solve z-biogeochemistry reactions", "``.false.``"
"``solve_zsal``", "logical", "DEPRECATED", "``.false.``"
"``tau_max``", "real", "long time mobile to stationary exchanges", "7776000."
"``tau_min``", "real", "rapid module to stationary exchanges", "3600."
"``tau_max``", "real", "long time mobile to stationary exchanges (s)", "604800.0"
"``tau_min``", "real", "rapid module to stationary exchanges (s)", "3600.0"
"``tr_bgc_Am``", "logical", "ammonium tracer", "``.false.``"
"``tr_bgc_C``", "logical", "algal carbon tracer", "``.false.``"
"``tr_bgc_chl``", "logical", "algal chlorophyll tracer", "``.false.``"
"``tr_bgc_DMS``", "logical", "DMS tracer", "``.false.``"
"``tr_bgc_DON``", "logical", "DON tracer", "``.false.``"
"``tr_bgc_Fe``", "logical", "iron tracer", "``.false.``"
"``tr_bgc_hum``", "logical", "", "``.false.``"
"``tr_bgc_Nit``", "logical", "", "``.false.``"
"``tr_bgc_PON``", "logical", "PON tracer", "``.false.``"
"``tr_bgc_hum``", "logical", "refractory DOC", "``.false.``"
"``tr_bgc_Nit``", "logical", "nitrate tracer", "``.false.``"
"``tr_bgc_PON``", "logical", "Non-reactive nitrate tracer", "``.false.``"
"``tr_bgc_Sil``", "logical", "silicate tracer", "``.false.``"
"``tr_brine``", "logical", "brine height tracer", "``.false.``"
"``tr_zaero``", "logical", "vertical aerosol tracers", "``.false.``"
"``t_iron_conv``", "real", "desorption loss pFe to dFe in days", "3065."
"``t_sk_conv``", "real", "Stefels conversion time in days", "5.0"
"``t_sk_ox``", "real", "DMS oxidation time in days", "12.0"
"``T_max``", "real", "maximum temperature degC", "0.0"
"``T_max``", "real", "maximum brine temperature degC", "0.0"
"``y_sk_DMS``", "real", "fraction conversion given high yield", "0.7"
"``zaerotype_bc1``", "real", "mobility type between stationary and mobile zaero bc1", "-1.0"
"``zaerotype_bc2``", "real", "mobility type between stationary and mobile zaero bc2", "-1.0"
"``zaerotype_dust1``", "real", "mobility type between stationary and mobile zaero dust1", "-1.0"
"``zaerotype_dust2``", "real", "mobility type between stationary and mobile zaero dust2", "-1.0"
"``zaerotype_dust3``", "real", "mobility type between stationary and mobile zaero dust3", "-1.0"
"``zaerotype_dust4``", "real", "mobility type between stationary and mobile zaero dust4", "-1.0"
"``z_tracers``", "logical", "", "``.false.``"
"``z_tracers``", "logical", "allows vertically resolved bgc and/or z-aerosol tracers", "``.false.``"
"", "", "", ""


Expand All @@ -559,61 +563,41 @@ zbgc_nml
.. "``restart_hbrine``", "logical", "", "``.false.``"
.. "``solve_zsal``", "logical", "update salinity tracer profile", "``.false.``"
.. "TRZS", "0,1", "zsalinity tracer, needs TRBRI=1", "0"
* = If Icepack is run stand-alone and wave_spec_type is not set to none, then a fixed wave spectrum is defined in the code to use for testing. As with other input data, this spectrum should not be used for production runs or publications.
.. _tuning:

BGC Tuning Parameters
BGC Parameter Arrays
------------------------

Biogeochemical tuning parameters are specified as namelist options in
**icepack\_in**. Table :ref:`tab-bio-tracers2` provides a list of parameters

Biogeochemical parameter arrays are specified in the code from namelist options in
**icepack\_in**. Table :ref:`tab-bio-tracers2` provides a list of parameter arrays
used in the reaction equations, their representation in the code, a
short description of each and the default values. Please keep in mind
that there has only been minimal tuning of the model.
short description of each and the namelist parameters (Table :ref:`tab-bio-tracers-namelist2`)
used in their definition.

.. _tab-bio-tracers2:

.. csv-table:: *Biogeochemical Reaction Parameters*
:header: "Text Variable", "Variable in code", "Description", "Value", "units"
:widths: 7, 20, 15, 15, 15

":math:`f_{graze}`", "fr\_graze(1:3)", "fraction of growth grazed", "0, 0.1, 0.1", "1"
":math:`f_{res}`", "fr\_resp", "fraction of growth respired", "0.05", "1"
":math:`l_{max}`", "max\_loss", "maximum tracer loss fraction", "0.9", "1"
":math:`m_{pre}`", "mort\_pre(1:3)", "maximum mortality rate", "0.007, 0.007, 0.007", "day\ :math:`^{-1}`"
":math:`m_{T}`", "mort\_Tdep(1:3)", "mortality temperature decay", "0.03, 0.03, 0.03", ":math:`^o`\ C\ :math:`^{-1}`"
":math:`T_{max}`", "T\_max", "maximum brine temperature", "0", ":math:`^o`\ C"
":math:`k_{nitr}`", "k\_nitrif", "nitrification rate", "0", "day\ :math:`^{-1}`"
":math:`f_{ng}`", "fr\_graze\_e", "fraction of grazing excreted", "0.5", "1"
":math:`f_{gs}`", "fr\_graze\_s", "fraction of grazing spilled", "0.5", "1"
":math:`f_{nm}`", "fr\_mort2min", "fraction of mortality to :math:`{\mbox{NH$_4$}}`", "0.5", "1"
":math:`f_{dg}`", "f\_don", "frac. spilled grazing to :math:`{\mbox{DON}}`", "0.6", "1"
":math:`k_{nb}`", "kn\_bac :math:`^a`", "bacterial degradation of :math:`{\mbox{DON}}`", "0.03", "day\ :math:`^{-1}`"
":math:`f_{cg}`", "f\_doc(1:3)", "fraction of mortality to :math:`{\mbox{DOC}}`", "0.4, 0.4, 0.2 ", "1"
":math:`R_{c:n}^c`", "R\_C2N(1:3)", "algal carbon to nitrogen ratio", "7.0, 7.0, 7.0", "mol/mol"
":math:`k_{cb}`", "k\_bac1:3\ :math:`^a`", "bacterial degradation of DOC", "0.03, 0.03, 0.03", "day\ :math:`^{-1}`"
":math:`\tau_{fe}`", "t\_iron\_conv", "conversion time pFe :math:`\leftrightarrow` dFe", "3065.0 ", "day"
":math:`r^{max}_{fed:doc}`", "max\_dfe\_doc1", "max ratio of dFe to saccharids", "0.1852", "nM Fe\ :math:`/\mu`\ M C"
":math:`f_{fa}`", "fr\_dFe ", "fraction of remin. N to dFe", "0.3", "1"
":math:`R_{fe:n}`", "R\_Fe2N(1:3)", "algal Fe to N ratio", "0.023, 0.023, 0.7", "mmol/mol"
":math:`R_{s:n}`", "R\_S2N(1:3)", "algal S to N ratio", "0.03, 0.03, 0.03", "mol/mol"
":math:`f_{sr}`", "fr\_resp\_s", "resp. loss as DMSPd", "0.75", "1"
":math:`\tau_{dmsp}`", "t\_sk\_conv", "Stefels rate", "3.0", "day"
":math:`\tau_{dms}`", "t\_sk\_ox", "DMS oxidation rate", "10.0", "day"
":math:`y_{dms}`", "y\_sk\_DMS", "yield for DMS conversion", "0.5", "1"
":math:`K_{{\mbox{NO$_3$}}}`", "K\_Nit(1:3)", ":math:`{\mbox{NO$_3$}}` half saturation constant", "1,1,1", "mmol/m\ :math:`^{3}`"
":math:`K_{{\mbox{NH$_4$}}}`", "K\_Am(1:3)", ":math:`{\mbox{NH$_4$}}` half saturation constant", "0.3, 0.3, 0.3", "mmol/m\ :math:`^{-3}`"
":math:`K_{{\mbox{SiO$_3$}}}`", "K\_Sil(1:3)", "silicate half saturation constant", "4.0, 0, 0", "mmol/m\ :math:`^{-3}`"
":math:`K_{{\mbox{fed}}}`", "K\_Fe(1:3)", "iron half saturation constant", "1.0, 0.2, 0.1", ":math:`\mu`\ mol/m\ :math:`^{-3}`"
":math:`op_{min}`", "op\_dep\_min", "boundary for light attenuation", "0.1", "1"
":math:`chlabs`", "chlabs(1:3)", "light absorption length per chla conc.", "0.03, 0.01, 0.05", "1\ :math:`/`\ m\ :math:`/`\ (mg\ :math:`/`\ m\ :math:`^{3}`)"
":math:`\alpha`", "alpha2max\_low(1:3)", "light limitation factor", "0.25, 0.25, 0.25", "m\ :math:`^2`/W"
":math:`\beta`", "beta2max(1:3)", "light inhibition factor", "0.018, 0.0025, 0.01", "m\ :math:`^2`/W"
":math:`\mu_{max}`", "mu\_max(1:3)", "maximum algal growth rate", "1.44, 0.851, 0.851", "day\ :math:`^{-1}`"
":math:`\mu_T`", "grow\_Tdep(1:3)", "temperature growth factor", "0.06, 0.06, 0.06", "day\ :math:`^{-1}`"
":math:`f_{sal}`", "fsal", "salinity growth factor", "1", "1"
":math:`R_{si:n}`", "R\_Si2N(1:3)", "algal silicate to nitrogen", "1.8, 0, 0", "mol/mol"

:math:`^a` only (1:2) of DOC and DOC parameters have physical meaning
":math:`f_{graze}`", "fr\_graze(1:3)", "fraction of growth grazed", "(``fr_graze_diatoms``, ``fr_graze_sp``, ``fr_graze_phaeo``)", "1"
":math:`m_{pre}`", "mort\_pre(1:3)", "maximum mortality rate", "(``mort_pre_diatoms``, ``mort_pre_sp``, ``mort_pre_phaeo``)", "day\ :math:`^{-1}`"
":math:`m_{T}`", "mort\_Tdep(1:3)", "mortality temperature decay", "(``mort_Tdep_diatoms``, ``mort_Tdep_sp``, ``mort_Tdep_phaeo``)", ":math:`^o`\ C\ :math:`^{-1}`"
":math:`f_{cg}`", "f\_doc(1:2)", "fraction of mortality to :math:`{\mbox{DOC}}`", "(``f_doc_s``, ``f_doc_l``)", "1"
":math:`R_{c:n}`", "R\_C2N(1:3)", "algal carbon to nitrogen ratio", "(``ratio_C2N_diatoms``, ``ratio_C2N_sp``, ``ratio_C2N_phaeo``)", "mol/mol"
":math:`k_{cb}`", "k\_bac(1:2)", "bacterial degradation of DOC", "(``k_bac_s``, ``k_bac_l``)", "day\ :math:`^{-1}`"
":math:`R_{fe:n}`", "R\_Fe2N(1:3)", "algal Fe to N ratio", "(``ratio_Fe2N_diatoms``, ``ratio_Fe2N_sp``, ``ratio_Fe2N_phaeo``)", "mmol/mol"
":math:`R_{s:n}`", "R\_S2N(1:3)", "algal S to N ratio", "(``ratio_S2N_diatoms``, ``ratio_S2N_sp``, ``ratio_S2N_phaeo``)", "mol/mol"
":math:`K_{{\mbox{NO$_3$}}}`", "K\_Nit(1:3)", ":math:`{\mbox{NO$_3$}}` half saturation constant", "(``K_Nit_diatoms``, ``K_Nit_sp``, ``K_Nit_phaeo``)", "mmol/m\ :math:`^{3}`"
":math:`K_{{\mbox{NH$_4$}}}`", "K\_Am(1:3)", ":math:`{\mbox{NH$_4$}}` half saturation constant", "(``K_Am_diatoms``, ``K_Am_sp``, ``K_Am_phaeo``)", "mmol/m\ :math:`^{-3}`"
":math:`K_{{\mbox{SiO$_3$}}}`", "K\_Sil(1:3)", "silicate half saturation constant", "(``K_Sil_diatoms``, ``K_Sil_sp``, ``K_Sil_phaeo``)", "mmol/m\ :math:`^{-3}`"
":math:`K_{{\mbox{fed}}}`", "K\_Fe(1:3)", "iron half saturation constant", "(``K_Fe_diatoms``, ``K_Fe_sp``, ``K_Fe_phaeo``)", ":math:`\mu`\ mol/m\ :math:`^{-3}`"
":math:`chlabs`", "chlabs(1:3)", "light absorption length per chla conc.", "(``chlabs_diatoms``, ``chlabs_sp``, ``chlabs_phaeo``)", "1\ :math:`/`\ m\ :math:`/`\ (mg\ :math:`/`\ m\ :math:`^{3}`)"

":math:`\alpha`", "alpha2max\_low(1:3)", "light limitation factor", "(``alpha2max_low_diatoms``, ``alpha2max_low_sp``, ``alpha2max_low_phaeo``)", "m\ :math:`^2`/W"
":math:`\beta`", "beta2max(1:3)", "light inhibition factor", "(``beta2max_diatoms``, ``beta2max_sp``, ``beta2max_phaeo``)", "m\ :math:`^2`/W"
":math:`\mu_{max}`", "mu\_max(1:3)", "maximum algal growth rate", "(``mu_max_diatoms``, ``mu_max_sp``, ``mu_max_phaeo``)", "day\ :math:`^{-1}`"
":math:`\mu_T`", "grow\_Tdep(1:3)", "temperature growth factor", "(``grow_Tdep_diatoms``, ``grow_Tdep_sp``, ``grow_Tdep_phaeo``)", "day\ :math:`^{-1}`"
":math:`R_{si:n}`", "R\_Si2N(1:3)", "algal silicate to nitrogen", "(``ratio_Si2N_diatoms``, ``ratio_Si2N_sp``, ``ratio_Si2N_phaeo``)", "mol/mol"

0 comments on commit 43c81a0

Please sign in to comment.