P.2 Diagnostic Variables
\(\left[DO\right]_{psat}\) - Oxygen Saturation
Output Variable Name: WQ_DIAG_O2_SAT_PCT
Units: %
Science: Equation C.5
Core Constituent Model: Oxygen - O2
Dissolved oxygen percentage saturation that is the equivalent of the dissolved oxygen concentration at current temperature, salinity and pressure conditions
\(F_{sed\langle computed\rangle}^{O_2}\) - Oxygen Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_O2_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_O2_SED_FLUX_MMOL_M2_D Science: Equation C.6
Core Constituent Model: Oxygen - O2
The dynamically computed flux of oxygen across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{atm}^{O_2}\) - Oxygen Atmospheric Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_O2_ATMOS_EXCHANGE_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_O2_ATMOS_EXCHANGE_MMOL_M2_D Science: Equation C.4
Core Constituent Model: Oxygen - O2
The flux of atmospheric oxygen entering the water column. Positive (negative) values are fluxes to (from) the water column from (to) the atmosphere. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sed\langle computed\rangle}^{Si}\) - Silicate Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_SI_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_SI_SED_FLUX_MMOL_M2_D Science: Equation D.1
Core Constituent Model: Silicate - Si
The dynamically computed flux of silicate across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sed\langle computed\rangle}^{NH_4}\) - Ammonium Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_NH4_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_NH4_SED_FLUX_MMOL_M2_D Science: Equation E.1
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The dynamically computed flux of ammonium across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sed\langle computed\rangle}^{NO_3}\) - Nitrate Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_NO3_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_NO3_SED_FLUX_MMOL_M2_D Science: Equation E.1
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The dynamically computed flux of nitrate across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{nitrif\langle computed\rangle}^{NH_4}\) - Nitrification Flux
Units Output Variable Name mg/L/d WQ_DIAG_NITRIFICATION_MG_L_D mmol/m\(^3\)/d WQ_DIAG_NITRIFICATION_MMOL_M3_D Science: Equation E.4
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The flux of ammonium N to nitrate N due to nitrification. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{denit\langle computed\rangle}^{NO_3}\) - Denitrification Flux
Units Output Variable Name mg/L/d WQ_DIAG_DENITRIFICATION_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DENITRIFICATION_MMOL_M3_D Science: Equation E.7
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The flux of nitrate N to nitrogen gas N due to denitrification. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{atm-din\langle computed \rangle}^{N}\) - Nitrogen Atmospheric Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_DIN_ATMOS_EXCHANGE_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_DIN_ATMOS_EXCHANGE_MMOL_M2_D Science: Equation E.21
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The combined wet (rainfall) and dry deposition of inorganic nitrogen across the atmosphere water interface. Positive values are fluxes to the water column from the atmosphere. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sed\langle computed\rangle}^{FRP}\) - FRP Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_FRP_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_FRP_SED_FLUX_MMOL_M2_D Science: Equation F.1
Core Constituent Model: Inorganic Phosphorus - FRPhs
The dynamically computed flux of FRP across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{atm-dip\langle computed \rangle}^{P}\) - Phosphorus Atmospheric Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_DIP_ATMOS_EXCHANGE_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_DIP_ATMOS_EXCHANGE_MMOL_M2_D Science: Equation F.4
Core Constituent Model: Inorganic Phosphorus - FRPhs
The combined wet (rainfall) and dry deposition of inorganic phosphorus across the atmosphere water interface. Only FRP (FRPads) contributes to wet (dry) deposition. Positive values are fluxes to the water column from the atmosphere. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sedmtn\langle computed\rangle}^{POC}\) - POC Sedimentation Flux
Units Output Variable Name mg/L/d WQ_DIAG_POC_SEDMTN_FLUX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_POC_SEDMTN_FLUX_MMOL_M3_D Science: Equation M.31
Core Constituent Model: Organic Matter - Labile
The flux of settling labile particulate organic carbon that leaves the water column and enters the sediment. This is not flux of POC from the sediments. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as hydrolysis. This is intended to assist in simplifying post processing
\(F_{sedmtn\langle computed\rangle}^{PON}\) - PON Sedimentation Flux
Units Output Variable Name mg/L/d WQ_DIAG_PON_SEDMTN_FLUX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PON_SEDMTN_FLUX_MMOL_M3_D Science: Equation M.31
Core Constituent Model: Organic Matter - Labile
The flux of settling labile particulate organic nitrogen that leaves the water column and enters the sediment. This is not flux of PON from the sediments. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as hydrolysis. This is intended to assist in simplifying post processing
\(F_{sedmtn\langle computed\rangle}^{POP}\) - POP Sedimentation Flux
Units Output Variable Name mg/L/d WQ_DIAG_POP_SEDMTN_FLUX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_POP_SEDMTN_FLUX_MMOL_M3_D Science: Equation M.31
Core Constituent Model: Organic Matter - Labile
The flux of settling labile particulate organic phosphorus that leaves the water column and enters the sediment. This is not flux of POP from the sediments. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as hydrolysis. This is intended to assist in simplifying post processing
\(CDOM_{\langle computed \rangle}\) - CDOM
Output Variable Name: WQ_DIAG_CHRMPHIC_DISS_ORGS_M
Units: /m
Science: Equation M.22
Core Constituent Model: Organic Matter - Refractory
Chromorphic dissolved organic matter. It is the equivalent extinction coefficient for absorption of radiation at 440 nm. It is computed from DOC (and RDOC if refractory organic matter is simulated) and uses the relationship of Equation M.22
\(F_{sed\langle computed\rangle}^{DOC}\) - DOC Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_DOC_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_DOC_SED_FLUX_MMOL_M2_D Science: Equation M.1
Core Constituent Model: Organic Matter - Labile
The dynamically computed flux of DOC across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sed\langle computed\rangle}^{DON}\) - DON Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_DON_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_DON_SED_FLUX_MMOL_M2_D Science: Equation M.1
Core Constituent Model: Organic Matter - Labile
The dynamically computed flux of DON across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{sed\langle computed\rangle}^{DOP}\) - DOP Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_DOP_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_DOP_SED_FLUX_MMOL_M2_D Science: Equation M.1
Core Constituent Model: Organic Matter - Labile
The dynamically computed flux of DOP across the sediment water interface. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell area (m\(^2\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval
\(F_{hyd\langle computed\rangle}^{POC}\) - POC Hydrolysis Flux
Units Output Variable Name mg/L/d WQ_DIAG_POC_HYDROL_MG_L_D mmol/m\(^3\)/d WQ_DIAG_POC_HYDROL_MMOL_M3_D Science: Equation M.3
Core Constituent Model: Organic Matter - Labile
The flux of labile POC to labile DOC due to hydrolysis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be hydrolysed in that interval
\(F_{miner\langle computed\rangle}^{DOC}\) - DOC Mineralisation Flux
Units Output Variable Name mg/L/d WQ_DIAG_DOC_MINERL_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DOC_MINERL_MMOL_M3_D Science: Equation M.9
Core Constituent Model: Organic Matter - Labile
The flux of labile DOC to DIC due to mineralisation. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be mineralised in that interval
\(F_{hyd\langle computed\rangle}^{PON}\) - PON Hydrolysis Flux
Units Output Variable Name mg/L/d WQ_DIAG_PON_HYDROL_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PON_HYDROL_MMOL_M3_D Science: Equation M.3
Core Constituent Model: Organic Matter - Labile
The flux of labile PON to labile DON due to hydrolysis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be hydrolysed in that interval
\(F_{miner\langle computed\rangle}^{DON}\) - DON Mineralisation Flux
Units Output Variable Name mg/L/d WQ_DIAG_DON_MINERL_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DON_MINERL_MMOL_M3_D Science: Equation M.9
Core Constituent Model: Organic Matter - Labile
The flux of labile DON to ammonium due to mineralisation. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be mineralised in that interval
\(F_{hyd\langle computed\rangle}^{POP}\) - POP Hydrolysis Flux
Units Output Variable Name mg/L/d WQ_DIAG_POP_HYDROL_MG_L_D mmol/m\(^3\)/d WQ_DIAG_POP_HYDROL_MMOL_M3_D Science: Equation M.3
Core Constituent Model: Organic Matter - Labile
The flux of labile POP to labile DOP due to hydrolysis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be hydrolysed in that interval
\(F_{miner\langle computed\rangle}^{DOP}\) - DOP Mineralisation Flux
Units Output Variable Name mg/L/d WQ_DIAG_DOP_MINERL_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DOP_MINERL_MMOL_M3_D Science: Equation M.9
Core Constituent Model: Organic Matter - Labile
The flux of labile DOP to FRP due to mineralisation. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be mineralised in that interval
\(F_{miner\langle computed\rangle}^{an}\) - DOC Anaerobic Mineralisation Flux
Units Output Variable Name mg/L/d WQ_DIAG_DOC_MINERL_AN_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DOC_MINERL_AN_MMOL_M3_D Science: Equation M.15
Core Constituent Model: Organic Matter - Labile
The component of the mineralisation flux of labile dissolved organic carbon that is anaerobic, i.e. the mineralisation that occurs after oxygen has been consumed from both diatomic dissolved oxygen and nitrate. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) of carbon that would be anaerobically mineralised in that interval. Reporting units of this diagnostic are carbon
\(F_{miner\langle computed\rangle}^{NO_3}\) - DOC Denitification Mineralisation
Units Output Variable Name mg/L/d WQ_DIAG_DOC_MINERL_DENIT_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DOC_MINERL_DENIT_MMOL_M3_D Science: Equation M.14
Core Constituent Model: Organic Matter - Labile
The component of the mineralisation flux of labile dissolved organic carbon that occurs following consumption of dissolved oxygen, and that sources its oxygen from stripping (denitrifying) nitrate. It is the mineralisation that occurs after oxygen has been consumed from diatomic dissolved oxygen but before anaerobic mineralisation occurs. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) of carbon that would be aerobically mineralised in that interval. The same number of moles of nitrate N will be consumed. Reporting units of this diagnostic are carbon
\(BOD5_{\langle computed\rangle}^{O_2}\) - BOD5
Output Variable Name: WQ_DIAG_DOC_BOD5_MG_L
Units: mg/L
Science: Equation M.13
Core Constituent Model: Organic Matter - Labile
The reduction in the concentration of dissolved oxygen that would result by the action of aerobic mineralisation of dissolved organic carbon over a period of 5 days. It is computed at the instantaneous oxygen consumption rate
\(V_{settle\langle computed \rangle}^{lorg}\) - Labile Particulate Organic Matter Settling Velocity
Output Variable Name: WQ_DIAG_POM_VERT_VEL_M_S
Units: m/s
Science: Section M.8
Core Constituent Model: Organic Matter - Labile
The computed settling velocity of labile particulate organic carbon, nitrogen and phosphorus (which all have the same velocity). Positive (negative) values are upwards (downwards)
\(F_{sedmtn\langle computed\rangle}^{RPOM}\) - RPOM Sedimentation Flux
Units Output Variable Name mg/L/d WQ_DIAG_RPOM_SEDMTN_FLUX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_RPOM_SEDMTN_FLUX_MMOL_M3_D Science: Equation M.32
Core Constituent Model: Organic Matter - Refractory
The flux of settling refractory particulate organic matter that leaves the water column and enters the sediment. This is not flux of RPOM from the sediments. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be exchanged in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as photolysis. This is intended to assist in simplifying post processing
\(F_{photo\langle computed\rangle}^{RDOC}\) - RPOM Photolysis
Units Output Variable Name mg/L/d WQ_DIAG_PHOTOLYSIS_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHOTOLYSIS_MMOL_M3_D Science: Equation M.23
Core Constituent Model: Organic Matter - Refractory
The flux of refractory dissolved organic carbon to labile dissolved organic carbon and potentially DIC (if \(f_{photo}^{DOM}\) is not 1.0). This flux is always positive and is the carbon fraction only. Equivalent nitrogen and phosphorus fraction fluxes can be computed as per Equation M.23
\(V_{settle\langle computed \rangle}^{rorg}\) - Refractory Particulate Organic Matter Settling Velocity
Output Variable Name: WQ_DIAG_RPOM_VERT_VEL_M_S
Units: m/s
Science: Section M.8
Core Constituent Model: Organic Matter - Refractory
The computed settling velocity of refractory particulate organic matter. Positive (negative) values are upwards (downwards)
\(R_{IN-IP}^{phy}\) - Ratio of Internal Nutrients
Output Variable Name: WQ_DIAG_PHY_NAME_INT_NUTR_RATIO_ND
Units: dimensionless
Core Constituent Model: Phytoplankton - Basic
The ratio of internal nitrogen to internal phosphorus for a phytoplankton group. This quantity is reported for both the basic and advanced phytoplankton constituent models, with the former being the constant quotient of user (or default) internal nitrogen and phosphorus to carbon ratios. If the latter, this diagnostic will vary between the quotients of the user defined (or default) minimum and maximum limits of internal nitrogen and phosphorus to carbon ratios. Although noted here as being dimensionless, this quantity can be thought of as having units of (N concentration) / (P concentration)
\(L_{lght}^{phy}\) - Light Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_LGHT_LIM_ND
Units: 0
Science: Section I.6
Core Constituent Model: Phytoplankton - Basic
The dynamically computed light limitation function for a phytoplankton group. It varies between 0 (complete limitation) and 1 (no limitation)
\(L_{nit}^{phy}\) - Nitrogen Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_N_LIM_ND
Units: dimensionless
Science: Section I.3
Core Constituent Model: Phytoplankton - Basic
The dynamically computed nitrogen limitation function for a phytoplankton group. It varies between 0 (complete limitation) and 1 (no limitation)
\(L_{phs}^{phy}\) - Phosphorus Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_P_LIM_ND
Units: dimensionless
Science: Section I.4
Core Constituent Model: Phytoplankton - Basic
The dynamically computed phosphorus limitation function for a phytoplankton group. It varies between 0 (complete limitation) and 1 (no limitation)
\(L_{sil}^{phy}\) - Silicate Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_SI_LIM_ND
Units: dimensionless
Science: Section I.5
Core Constituent Model: Phytoplankton - Basic
The dynamically computed silicate limitation function for a phytoplankton group. It varies between 0 (complete limitation) and 1 (no limitation)
\(L_T^{phy}\) - Temperature Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_TMPTR_LIM_ND
Units: dimensionless
Science: Section I.2
Core Constituent Model: Phytoplankton - Basic
The dynamically computed temperature limitation function for a phytoplankton group. It varies between 0 (complete limitation) and a positive number. This limitation function value can be greater than 1, and in such instances this represents an opportunity for augmented phytoplankton growth (subject to the values of other related limitation functions)
\(L_{sal-r}^{phy}\) - Salinity Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_SAL_LIM_ND
Units: dimensionless
Science: Section I.7
Core Constituent Model: Phytoplankton - Basic
The dynamically computed salinity limitation function applied to respiration of a phytoplankton group. It is always greater than 1 (no limitation). The same diagnostic variable name is used for the corollary primary productivity salinity limitation function because the two limitation functions are mutually exclusive
\(L_{sal-pp}^{phy}\) - Salinity Limitation Function
Output Variable Name: WQ_DIAG_PHY_NAME_SAL_LIM_ND
Units: dimensionless
Science: Section I.7
Core Constituent Model: Phytoplankton - Basic
The dynamically computed salinity limitation function applied to primary production of a phytoplankton group. It varies between 0 (complete limitation) and 1 (no limitation). The same diagnostic variable name is used for the corollary respiration salinity limitation function because the two limitation functions are mutually exclusive
\(F_{prod\langle computed\rangle}^{phy}\) - Phytoplankton Primary Productivity
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHY_NAME_PRIM_PROD_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_PRIM_PROD_MMOL_M3_D Science: Equation H.5
Core Constituent Model: Phytoplankton - Basic
The flux of carbon to phytoplankton as a result of productivity, without accounting for respiration, for a phytoplankton group. Also referred to as growth or gross primary productivity, and typically associated with daytime phytoplankton photosynthesis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up via productivity in that interval
\(F_{sedmtn\langle computed\rangle}^{phy}\) - Phytoplankton Sedimentation
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHY_NAME_SEDMTN_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_SEDMTN_MMOL_M3_D Science: Equation H.13
Core Constituent Model: Phytoplankton - Basic
The flux of phytoplankton chlorophyll a (or carbon) into the sediments as a result of settling for a phytoplankton group. Values are only losses and are only negative. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost to settling in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as mortality. This is intended to assist in simplifying post processing
\(V_{settle}^{phy}\) - Phytoplankton Settling Velocity
Output Variable Name: WQ_DIAG_PHY_NAME_VERT_VEL_M_S
Units: m/s
Science: Section H.4
Core Constituent Model: Phytoplankton - Basic
Phytoplankton settling velocity, as computed from the user specified (or default) method, for a phytoplankton group. Upwards (downwards) is negaitve (positive)
\(F_{sedmtn\langle computed\rangle}^{comm}\) - Community Phytoplankton Sedimentation
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHYTO_COM_SEDMTN_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_SEDMTN_MMOL_M3_D Science: Equation H.13
Core Constituent Model: Phytoplankton - Basic
The flux of phytoplankton into the sediments as a result of settling, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Values are only losses and are only negative. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost to settling in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous losses such as individual phytoplankton group sedimentation rates. This is intended to assist in simplifying post processing
\(F_{prod\langle computed\rangle}^{comm}\) - Community Primary Productivity
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHYTO_COM_PRIM_PROD_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_PRIM_PROD_MMOL_M3_D Science: Equation H.5
Core Constituent Model: Phytoplankton - Basic
The flux of carbon (and nutrients) to phytoplankton as a result of productivity, without accounting for respiration, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Also referred to as growth, and typically associated with daytime phytoplankton photosynthesis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up via productivity in that interval
\(F_{netprod\langle computed\rangle}^{comm}\) - Community Net Primary Productivity
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHYTO_COM_NET_PROD_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_NET_PROD_MMOL_M3_D Science: Equation H.9
Core Constituent Model: Phytoplankton - Basic
The flux of carbon (and nutrients) to phytoplankton as a result of productivity, accounting for respiration losses due only to the consumption of stored energy, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Also referred to as net primary productivity. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up via net productivity in that interval
\(R_{PP-resp}^{comm}\) - Community Primary Productivity Ratio
Output Variable Name: WQ_DIAG_PHYTO_COM_PROD_RESP_R_
Units: dimensionless
Ratio of primary productivity to true respiration, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Currently inactive and reported as 999
\(R_{NPP-resp}^{comm}\) - Community Net Primary Productivity Ratio
Output Variable Name: WQ_DIAG_PHYTO_COM_NET_RESP_R_
Units: dimensionless
Ratio of net primary productivity to true respiration, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Currently inactive and reported as 999
\(F_{nit-uptake\langle computed\rangle}^{comm}\) - Community Nitrate Uptake
Units Output Variable Name mg/L/d WQ_DIAG_PHYTO_COM_NO3_UPTAKE_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_NO3_UPTAKE_MMOL_M3_D Science: Equation J.3
Core Constituent Model: Phytoplankton - Basic
The flux of nitrate to phytoplankton as a result of productivity, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up in that interval. Although computed differently for the basic and advanced phytoplankton constituent models, the interpretation of this quantity is the same for both
\(F_{amm-uptake\langle computed\rangle}^{comm}\) - Community Ammonium Uptake
Units Output Variable Name mg/L/d WQ_DIAG_PHYTO_COM_NH4_UPTAKE_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_NH4_UPTAKE_MMOL_M3_D Science: Equation J.3
Core Constituent Model: Phytoplankton - Basic
The flux of ammonium to phytoplankton as a result of productivity, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up in that interval. Although computed differently for the basic and advanced phytoplankton constituent models, the interpretation of this quantity is the same for both
\(F_{P-uptake\langle computed\rangle}^{comm}\) - Community FRP Uptake
Units Output Variable Name mg/L/d WQ_DIAG_PHYTO_COM_P_UPTAKE_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_P_UPTAKE_MMOL_M3_D Science: Equation J.7
Core Constituent Model: Phytoplankton - Basic
The flux of FRP to phytoplankton as a result of productivity, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up in that interval. Although computed differently for the basic and advanced phytoplankton constituent models, the interpretation of this quantity is the same for both
\(F_{C-uptake\langle computed\rangle}^{comm}\) - Community Carbon Uptake
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHYTO_COM_C_UPTAKE_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_C_UPTAKE_MMOL_M3_D Science: Equation J.1
Core Constituent Model: Phytoplankton - Basic
The flux of carbon (and nutrients) to phytoplankton as a result of productivity, without accounting for respiration, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Also referred to as growth, and typically associated with daytime phytoplankton photosynthesis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up via productivity in that interval. This is numerically the same as primary productivity
PAR - Community PAR
Output Variable Name: WQ_DIAG_PHYTO_COM_PAR_W_M2
Units: W/m\(^2\)
Science: Section 2.3.2
Core Constituent Model: Phytoplankton - Basic
The ambient PAR field in each computational cell, as set by the hydrodynamic model
\(\left[Chla\right]^{comm}\) - Community chlorophyll a
Output Variable Name: WQ_DIAG_PHYTO_COM_TCHLA_MICG_L
Units: \(\mu\)g/L
Core Constituent Model: Phytoplankton - Basic
The total chlorophyll a summed across all phytoplankton groups
\(\left[Chla\right]^{comm}\) - Community Phytoplankton Concentration
Units Output Variable Name mmol/m\(^3\) WQ_DIAG_PHYTO_COM_TPHY_MMOL_C_M3 mmol/m\(^3\) WQ_DIAG_PHYTO_COM_TPHY_MMOL_C_M3 Core Constituent Model: Phytoplankton - Basic
The concentration of phytoplankton in mmols of carbon, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community). Multiplying this number by 12 and dividing (on a cell by cell basis) by the equivalent Community chlorophyll a value (as reported, i.e. in \(\mu\)g/L) will result in an array of the average carbon to chlorophyll a ratio of the community for each cell. This is effectively a concentration weighted average of the individual phytoplankton group carbon to chlorophyll a ratios at any given time and in any given cell
\(\left[N\right]_{in}^{comm}\) - Community Internal Nitrogen Concentration
Units Output Variable Name \(\mu\)g/L WQ_DIAG_PHYTO_COM_T_IN_N_MG_L mmol/m\(^3\) WQ_DIAG_PHYTO_COM_T_IN_N_MMOL_M3 Science: Section J.2.2
Core Constituent Model: Phytoplankton - Basic
The internal nitrogen concentration of phytoplankton, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community), for both the basic and advanced phytoplankton constituent models
\(\left[P\right]_{in}^{comm}\) - Community Internal Phosphorus Concentration
Units Output Variable Name \(\mu\)g/L WQ_DIAG_PHYTO_COM_T_IN_P_MG_L mmol/m\(^3\) WQ_DIAG_PHYTO_COM_T_IN_P_MMOL_M3 Science: Section J.3.2
Core Constituent Model: Phytoplankton - Basic
The internal phosphorus concentration of phytoplankton, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community), for both the basic and advanced phytoplankton constituent models
\(F_{sed}^{O_2}\) - Oxygen User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_O2_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_O2_SED_FLUX_MMOL_M2_D Science: Equation C.6
Core Constituent Model: Oxygen - O2
The user defined (or model default) flux of oxygen across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{Si}\) - Silicate User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_SI_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_SI_SED_FLUX_MMOL_M2_D Science: Equation D.1
Core Constituent Model: Silicate - Si
The user defined (or model default) flux of silicate across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{NH_4}\) - Ammonium User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_NH4_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_NH4_SED_FLUX_MMOL_M2_D Science: Equation E.1
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The user defined (or model default) flux of ammonium across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{NO_3}\) - Nitrate User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_NO3_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_NO3_SED_FLUX_MMOL_M2_D Science: Equation E.1
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The user defined (or model default) flux of nitrate across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{FRP}\) - FRP User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_FRP_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_FRP_SED_FLUX_MMOL_M2_D Science: Equation F.1
Core Constituent Model: Inorganic Phosphorus - FRPhs
The user defined (or model default) flux of FRP across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{DOC}\) - DOC User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_DOC_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_DOC_SED_FLUX_MMOL_M2_D Science: Equation M.1
Core Constituent Model: Organic Matter - Labile
The user defined (or model default) flux of DOC across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{DON}\) - DON User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_DON_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_DON_SED_FLUX_MMOL_M2_D Science: Equation M.1
Core Constituent Model: Organic Matter - Labile
The user defined (or model default) flux of DON across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(F_{sed}^{DOP}\) - DOP User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_DOP_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_DOP_SED_FLUX_MMOL_M2_D Science: Equation M.1
Core Constituent Model: Organic Matter - Labile
The user defined (or model default) flux of DOP across the sediment water interface. This value is reported for completeness and should not change in time for a given cell. Positive (negative) values are fluxes to (from) the water column from (to) the sediment. This diagnostic cannot be used in mass balance or other related calculations
\(TN\) - Total Nitrogen
Units Output Variable Name mg/L WQ_DIAG_TOTAL_NITROGEN_MG_L mmol/m\(^3\) WQ_DIAG_TOTAL_NITROGEN_MMOL_M3
The sum of relevant nitrogen species. These are:
- Simulation class DO: None
- Simulation class Inorganics: ammonium, nitrate, phytoplankton internal nitrogen (whether it is a simulated variable or not it still contributes to total nitrogen)
- Simulation class Organics: ammonium, nitrate, phytoplankton internal nitrogen, DON, PON and RDON if refractory organic constituent model is used
\(TP\) - Total Phosphorus
Units Output Variable Name mg/L WQ_DIAG_TOTAL_PHOSPHORUS_MG_L mmol/m\(^3\) WQ_DIAG_TOTAL_PHOSPHORUS_MMOL_M3
The sum of relevant phosphorus species. These are:
- Simulation class DO: None
- Simulation class Inorganics: FRP, adsorbed FRP if simulated, phytoplankton internal phosphorus (whether it is a simulated variable or not it still contributes to total phosphorus)
- Simulation class Organics: FRP, adsorbed FRP if simulated, phytoplankton internal phosphorus, DOP, POP and RDOP if refractory organic constituent model is used
\(TKN\) - Total Kjeldahl Nitrogen
Units Output Variable Name mg/L WQ_DIAG_TOTAL_KJELDAHL_NITROGEN_MG_L mmol/m\(^3\) WQ_DIAG_TOTAL_KJELDAHL_NITROGEN_MMOL_M3
The sum of relevant nitrogen species. These are:
- Simulation class DO: None
- Simulation class Inorganics: ammonium, phytoplankton internal nitrogen (whether it is a simulated variable or not it still contributes to total nitrogen)
- Simulation class Organics: ammonium, phytoplankton internal nitrogen, DON, PON and RDON if refractory organic constituent model is used
\(TOC\) - Total Organic Carbon
Units Output Variable Name mg/L WQ_DIAG_TOTAL_ORGANIC_CARBON_MG_L mmol/m\(^3\) WQ_DIAG_TOTAL_ORGANIC_CARBON_MMOL_M3
The sum of relevant carbon species. These are:
- Simulation class DO: None
- Simulation class Inorganics: phytoplankton carbon
- Simulation class Organics: phytoplankton carbon, DOC, POC, and RDOC and RPOM if refractory organic constituent model is used
\(F_{sed}^{POC}\) - POC User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_POC_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_POC_SED_FLUX_MMOL_M2_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{sed}^{PON}\) - PON User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_PON_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_PON_SED_FLUX_MMOL_M2_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{sed}^{POP}\) - POP User Defined Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_INPUT_POP_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_INPUT_POP_SED_FLUX_MMOL_M2_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{sed\langle computed\rangle}^{POC}\) - POC Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_POC_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_POC_SED_FLUX_MMOL_M2_D
Currently unused and reported as the same as WQ_DIAG_POC_SEDMTN_FLUX_MG_M2_D. Will be activated in future releases
\(F_{sed\langle computed\rangle}^{PON}\) - PON Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_PON_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_PON_SED_FLUX_MMOL_M2_D
Currently unused and reported as the same as WQ_DIAG_PON_SEDMTN_FLUX_MG_M2_D. Will be activated in future releases
\(F_{sed\langle computed\rangle}^{POP}\) - POP Sediment Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_ACTUAL_POP_SED_FLUX_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_ACTUAL_POP_SED_FLUX_MMOL_M2_D
Currently unused and reported as the same as WQ_DIAG_POP_SEDMTN_FLUX_MG_M2_D. Will be activated in future releases
\(M_{sed}^{OC}\) - Organic Carbon Sediment Mass
Units Output Variable Name mg/m\(^2\) WQ_DIAG_SEDIMENT_ORGC_MASS_MG_M2 mmol/m\(^2\) WQ_DIAG_SEDIMENT_ORGC_MASS_MMOL_M2
Currently unused and reported as zero. Will be activated in future releases
\(M_{sed}^{ON}\) - Organic Nitrogen Sediment Mass
Units Output Variable Name mg/m\(^2\) WQ_DIAG_SEDIMENT_ORGN_MASS_MG_M2 mmol/m\(^2\) WQ_DIAG_SEDIMENT_ORGN_MASS_MMOL_M2
Currently unused and reported as zero. Will be activated in future releases
\(M_{sed}^{OP}\) - Organic Phosphorus Sediment Mass
Units Output Variable Name mg/m\(^2\) WQ_DIAG_SEDIMENT_ORGP_MASS_MG_M2 mmol/m\(^2\) WQ_DIAG_SEDIMENT_ORGP_MASS_MMOL_M2
Currently unused and reported as zero. Will be activated in future releases
\(F_{resus}^{POC}\) - POC Resuspension Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_POC_RESUS_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_POC_RESUS_MMOL_M2_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{resus}^{PON}\) - PON Resuspension Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_PON_RESUS_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_PON_RESUS_MMOL_M2_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{resus}^{POP}\) - POP Resuspension Flux
Units Output Variable Name mg/m\(^2\)/d WQ_DIAG_POP_RESUS_MG_M2_D mmol/m\(^2\)/d WQ_DIAG_POP_RESUS_MMOL_M2_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{N-fix}^{comm}\) - Community Nitrogen Fixing Uptake
Units Output Variable Name mg/L/d WQ_DIAG_PHYTO_COM_N2_UPTAKE_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHYTO_COM_N2_UPTAKE_MMOL_M3_D
The flux of atmospheric nitrogen fixed by phytoplankton, summed over all phytoplankton groups (i.e. a simulation’s phytoplankton community), for both the basic and advanced phytoplankton constituent models
\(F_{anmx\langle computed\rangle}^{N_2}\) - Anaerobic Oxidation of Ammonium
Units Output Variable Name mg/L/d WQ_DIAG_ANAER_NH4_OX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_ANAER_NH4_OX_MMOL_M3_D Science: Equation E.10
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The flux of ammonium-N and nitrate-N to free diatomic nitrogen gas (also referred to as anammox). Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) on N that would be lost via anammox in that interval. The diagnostic variable is the production of nitrogen gas N (not N\(_2\))
\(F_{DRNA\langle computed\rangle}^{NO_3}\) - Dissimilatory Reduction of Nitrate to Ammonium
Units Output Variable Name mg/L/d WQ_DIAG_DISS_NO3_RED_MG_L_D mmol/m\(^3\)/d WQ_DIAG_DISS_NO3_RED_MMOL_M3_D Science: Equation E.12
Core Constituent Model: Inorganic Nitrogen - AmmoniumNitrate
The flux of nitrate-N to ammonium-N (also referred to as DRNA). Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) on N that would be lost via DRNA in that interval
\(F_{bdn\langle computed\rangle}^{RPOM}\) - RPOM Breakdown
Units Output Variable Name mg/L/d WQ_DIAG_RPOM_BREAKDOWN_MG_L_D mmol/m\(^3\)/d WQ_DIAG_RPOM_BREAKDOWN_MMOL_M3_D Science: Equation M.6
Core Constituent Model: Organic Matter - Refractory
The flux of refractory particulate organic matter to labile particulate organic matter under microbial activity. This flux is always positive and is applied directly to the carbon fraction of RPOM. Equivalent nitrogen and phosphorus fraction fluxes are computed proportionately as per Equation M.7
\(F_{act\langle computed\rangle}^{RDOC}\) - RDOC Activation
Units Output Variable Name mg/L/d WQ_DIAG_RDOC_ACTV_MG_L_D mmol/m\(^3\)/d WQ_DIAG_RDOC_ACTV_MMOL_M3_D Science: Equation M.18
Core Constituent Model: Organic Matter - Refractory
The flux of refractory dissolved organic carbon to labile dissolved organic carbon under microbial activity. This flux is always positive
\(F_{act\langle computed\rangle}^{RDON}\) - RDON Activation
Units Output Variable Name mg/L/d WQ_DIAG_RDON_ACTV_MG_L_D mmol/m\(^3\)/d WQ_DIAG_RDON_ACTV_MMOL_M3_D Science: Equation M.18
Core Constituent Model: Organic Matter - Refractory
The flux of refractory dissolved organic nitrogen to labile dissolved organic nitrogen under microbial activity. This flux is always positive
\(F_{act\langle computed\rangle}^{RDOP}\) - RDOP Activation
Units Output Variable Name mg/L/d WQ_DIAG_RDOP_ACTV_MG_L_D mmol/m\(^3\)/d WQ_DIAG_RDOP_ACTV_MMOL_M3_D Science: Equation M.18
Core Constituent Model: Organic Matter - Refractory
The flux of refractory dissolved organic phosphorus to labile dissolved organic phosphorus under microbial activity. This flux is always positive
\(F_{resp\langle computed\rangle}^{phy}\) - Phytoplankton Respiration
Units Output Variable Name \(\mu\)g/L/d WQ_DIAG_PHY_NAME_RESP_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_RESP_MMOL_M3_D Science: Equation H.8
Core Constituent Model: Phytoplankton - Basic
The flux of carbon from phytoplankton as a result of energy consumption (referred to as true respiration). It is typically seen as a night time phytoplanktonic process but can also occur during the day. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via true respiration in that interval
\(F_{resp-N\langle computed\rangle}^{phy}\) - Phytoplankton Respiration - Nitrogen
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_RESP_N_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_RESP_N_MMOL_M3_D Science: Equation H.10
Core Constituent Model: Phytoplankton - Basic
The flux of nitrogen from phytoplankton as a result of energy consumption (referred to as true respiration). It is typically seen as a night time phytoplanktonic process but can also occur during the day. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via true respiration in that interval
\(F_{resp-P\langle computed\rangle}^{phy}\) - Phytoplankton Respiration - Phosphorus
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_RESP_P_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_RESP_P_MMOL_M3_D Science: Equation H.11
Core Constituent Model: Phytoplankton - Basic
The flux of phosphorus from phytoplankton as a result of energy consumption (referred to as true respiration). It is typically seen as a night time phytoplanktonic process but can also occur during the day. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via true respiration in that interval
\(F_{N-uptake}^{phy}\) - Phytoplankton Primary Productivity - Nitrogen
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_PRIM_PROD_N_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_PRIM_PROD_N_MMOL_M3_D Science: Equation J.2, Equation J.4
Core Constituent Model: Phytoplankton - Basic, Phytoplankton - Advanced
The flux of nitrogen to phytoplankton as a result of productivity, without accounting for respiration, for a phytoplankton group. Also referred to as growth or gross primary productivity, and typically associated with daytime phytoplankton photosynthesis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up via productivity in that interval. This diagnostic varible name is used for both basic and advanced phytoplankton groups, even though the method to compute uptake differs between the two
\(F_{P-uptake}^{phy}\) - Phytoplankton Primary Productivity - Phosphorus
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_PRIM_PROD_P_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_PRIM_PROD_P_MMOL_M3_D Science: Equation J.7, Equation J.8
Core Constituent Model: Phytoplankton - Basic, Phytoplankton - Advanced
The flux of phosphorus to phytoplankton as a result of productivity, without accounting for respiration, for a phytoplankton group. Also referred to as growth or gross primary productivity, and typically associated with daytime phytoplankton photosynthesis. Values are only positive. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be taken up via productivity in that interval. This diagnostic varible name is used for both basic and advanced phytoplankton groups, even though the method to compute uptake differs between the two
\(F_{sedmtn-N\langle computed\rangle}^{phy}\) - Phytoplankton Sedimentation - Nitrogen
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_SEDMTN_N_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_SEDMTN_N_MMOL_M3_D Science: Equation H.14, Equation H.15
Core Constituent Model: Phytoplankton - Basic, Phytoplankton - Advanced
The flux of phytoplankton nitrogen into the sediments as a result of settling for a phytoplankton group. Values are only losses and are only negative. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost to settling in that interval. This diagnostic varible name is used for both basic and advanced phytoplankton groups, even though the method to compute uptake differs between the two. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as mortality. This is intended to assist in simplifying post processing
\(F_{sedmtn-P\langle computed\rangle}^{phy}\) - Phytoplankton Sedimentation - Phosphorus
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_SEDMTN_P_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_SEDMTN_P_MMOL_M3_D Science: Equation H.16, Equation H.17
Core Constituent Model: Phytoplankton - Basic, Phytoplankton - Advanced
The flux of phytoplankton phosphorus into the sediments as a result of settling for a phytoplankton group. Values are only losses and are only negative. Multiply by cell volume (L or m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost to settling in that interval. This diagnostic varible name is used for both basic and advanced phytoplankton groups, even though the method to compute uptake differs between the two. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic (per L or m\(^3\)) have been chosen deliberately for consistency with other analogous volumetric losses such as mortality. This is intended to assist in simplifying post processing
\(F_{C-excr}^{phy}\) - Phytoplankton Excretion
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_EXCR_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_EXCR_MMOL_M3_D Science: Equation K.1
Core Constituent Model: Phytoplankton - Basic
The flux of carbon from phytoplankton as a result of excretion for a phytoplankton group. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via excretion in that interval
\(F_{C-mort}^{phy}\) - Phytoplankton Mortality
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_MORT_MICG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_MORT_MMOL_M3_D Science: Equation K.2
Core Constituent Model: Phytoplankton - Basic
The flux of carbon from phytoplankton as a result of mortality for a phytoplankton group. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via mortality in that interval
\(F_{N-excr}^{phy}\) - Phytoplankton Excretion - Nitrogen
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_EXCR_N_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_EXCR_N_MMOL_M3_D Science: Equation K.3
Core Constituent Model: Phytoplankton - Basic
The flux of nitrogen from phytoplankton as a result of excretion for a phytoplankton group. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via excretion in that interval
\(F_{N-mort}^{phy}\) - Phytoplankton Mortality - Nitrogen
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_MORT_N_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_MORT_N_MMOL_M3_D Science: Equation K.4
Core Constituent Model: Phytoplankton - Basic
The flux of nitrogen from phytoplankton as a result of mortality for a phytoplankton group. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via mortality in that interval
\(F_{P-excr}^{phy}\) - Phytoplankton Excretion - Phosphorus
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_EXCR_P_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_EXCR_P_MMOL_M3_D Science: Equation K.5
Core Constituent Model: Phytoplankton - Basic
The flux of phosphorus from phytoplankton as a result of excretion for a phytoplankton group. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via excretion in that interval
\(F_{P-mort}^{phy}\) - Phytoplankton Mortality - Phosphorus
Units Output Variable Name mg/L/d WQ_DIAG_PHY_NAME_MORT_P_MG_L_D mmol/m\(^3\)/d WQ_DIAG_PHY_NAME_MORT_P_MMOL_M3_D Science: Equation K.6
Core Constituent Model: Phytoplankton - Basic
The flux of phosphorus from phytoplankton as a result of mortality for a phytoplankton group. Values are only negative. Multiply by cell volume (m\(^3\)) and time interval of interest (seconds / 86400) to compute the mass (or moles) that would be lost via mortality in that interval
\(F_{sed\langle computed\rangle}^{FRPAds}\) - Adsorbed FRP Sedimentation Rate
Units Output Variable Name mg/L/d WQ_DIAG_FRP_ADS_SEDMTN_FLUX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_FRP_ADS_SEDMTN_FLUX_MMOL_M3_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{resus}^{FRPads}\) - Adsorbed FRP Resuspension Rate
Units Output Variable Name mg/L/d WQ_DIAG_FRP_ADS_RESUS_FLUX_MG_L_D mmol/m\(^3\)/d WQ_DIAG_FRP_ADS_RESUS_FLUX_MMOL_M3_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{ads\langle computed\rangle}^{FRP}\) - FRP Adsorption Rate
Units Output Variable Name mg/L/d WQ_DIAG_FRP_ADSORPTION_RATE_MG_L_D mmol/m\(^3\)/d WQ_DIAG_FRP_ADSORPTION_RATE_MMOL_M3_D
Currently unused and reported as zero. Will be activated in future releases
\(F_{mor}^{pth}\) - Pathogen Mortality
Output Variable Name: WQ_DIAG_PATH_NAME_MORTALITY_CFU_100ML_D
Units: CFU/100mL/d
Science: Equation N.1
Core Constituent Model: Pathogen - Free
The flux of pathogens from alive to dead, as a result of natural (dark death) mortality. This flux includes the mortality of attached pathogens, if they are simulated. This is not the inactivation flux due to irradiation.
\(F_{invn}^{pth}\) - Pathogen Inactivation
Output Variable Name: WQ_DIAG_PATH_NAME_LIGHT_CFU_100ML_D
Units: CFU/100mL/d
Science: Equation N.3
Core Constituent Model: Pathogen - Free
The flux of pathogens from alive to dead, as a result of irradiation. This flux includes the inactivation of attached pathogens, if they are simulated. This is not the dark death flux due to mortality.
\(F_{att}^{pth}\) - Pathogen Attachment
Output Variable Name: WQ_DIAG_PATH_NAME_ATTACHMENT_CFU_100ML_D
Units: CFU/100mL/d
Science: Equation N.4
Core Constituent Model: Pathogen - Attached
The flux of pathogens from free to attached, if attached pathogens are simulated. A positive (negative) flux is attachment (detachment)
\(F_{sedmtn\langle computed\rangle}^{pth_a}\) - Pathogen Alive Sedimentation
Output Variable Name: WQ_DIAG_PATH_NAME_ALIVE_SEDMTN_CFU_100ML_D
Units: CFU/100mL/d
Science: Equation N.6
Core Constituent Model: Pathogen - Free
The flux of alive pathogens into the sediments as a result of settling for a pathogen group. Values are only losses and are only negative. Multiply by volume and time interval of interest (seconds / 86400) to compute the CFU that would be lost to settling in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic have been chosen deliberately for consistency with other analogous volumetric losses such as mortality. This is intended to assist in simplifying post processing
\(F_{sedmtn\langle computed\rangle}^{pth_d}\) - Pathogen Alive Sedimentation
Output Variable Name: WQ_DIAG_PATH_NAME_DEAD_SEDMTN_CFU_100ML_D
Units: CFU/100mL/d
Science: Equation N.6
Core Constituent Model: Pathogen - Free
The flux of dead pathogens into the sediments as a result of settling for a pathogen group. Values are only losses and are only negative. Multiply by volume and time interval of interest (seconds / 86400) to compute the CFU that would be lost to settling in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic have been chosen deliberately for consistency with other analogous volumetric losses such as mortality. This is intended to assist in simplifying post processing
\(F_{sedmtn\langle computed\rangle}^{pth_t}\) - Pathogen Attached Sedimentation
Output Variable Name: WQ_DIAG_PATH_NAME_ATTCHD_SEDMTN_CFU_100ML_D
Units: CFU/100mL/d
Science: Equation N.7
Core Constituent Model: Pathogen - Attached
The flux of attached pathogens into the sediments as a result of settling for a pathogen group. Values are only losses and are only negative. Multiply by volume and time interval of interest (seconds / 86400) to compute the CFU that would be lost to settling in that interval. Although often thought of as being a per area (per m\(^2\)) loss, the volumetric units of this diagnostic have been chosen deliberately for consistency with other analogous volumetric losses such as mortality. This is intended to assist in simplifying post processing
\(F_{growth\langle computed\rangle}^{pth_a}\) - Pathogen Growth
Output Variable Name: WQ_DIAG_PATH_NAME_GROWTH_CFU_100ML_D
Units: CFU/100mL/d
Currently unused and reported as zero. Will be activated in future releases
\(\left[ PTH\right]^{TOT}\) - Total Pathogens
Output Variable Name: WQ_DIAG_PATH_NAME_TOTAL_CFU_100ML_D
Units: CFU/100mL
Science: Equation N.8
Core Constituent Model: Pathogen - Free
The sum of alive, dead and attached (if the latter is simulated) pathogens for a pathogen group
