#include "BLING_OPTIONS.h" CBOP subroutine BLING_BIO_NITROGEN( I PTR_O2, PTR_FE, PTR_PO4, PTR_DOP, I PTR_NO3, PTR_DON, #ifdef USE_SIBLING I PTR_SI, #endif #ifdef ADVECT_PHYTO I PTR_PHY, #endif O G_DIC, G_ALK, G_O2, G_FE, O G_PO4, G_DOP, G_NO3, G_DON, #ifdef USE_SIBLING O G_SI, #endif I bi, bj, imin, imax, jmin, jmax, I myTime, myIter, myThid) C ================================================================= C | subroutine bling_bio_nitrogen C | o Nutrient uptake and partitioning between organic pools. C | - Phytoplankton specific growth rate is calculated C | as a function of light, nutrient limitation, and C | temperature. C | - Population growth is calculated as a function of the local C | phytoplankton biomass. C | o Organic matter export and remineralization. C | - Sinking particulate flux and diel migration contribute to C | export. C | - Benthic denitrification C | - Iron source from sediments C | - Iron scavenging C | o Diel Vertical Migration C ================================================================= IMPLICIT NONE C === Global variables === C phyto_sm :: small phytoplankton biomass C phyto_lg :: large phytoplankton biomass C phyto_diaz :: diazotroph phytoplankton biomass C *** if ADVECT_PHYTO, these are fraction of total biomass instead *** #include "SIZE.h" #include "DYNVARS.h" #include "EEPARAMS.h" #include "PARAMS.h" #include "GRID.h" #include "BLING_VARS.h" #include "PTRACERS_SIZE.h" #include "PTRACERS_PARAMS.h" #ifdef ALLOW_AUTODIFF # include "tamc.h" #endif C === Routine arguments === C bi,bj :: tile indices C iMin,iMax :: computation domain: 1rst index range C jMin,jMax :: computation domain: 2nd index range C myTime :: current time C myIter :: current timestep C myThid :: thread Id. number INTEGER bi, bj, imin, imax, jmin, jmax _RL myTime INTEGER myIter INTEGER myThid C === Input === C PTR_O2 :: oxygen concentration C PTR_FE :: iron concentration C PTR_PO4 :: phosphate concentration C PTR_DOP :: dissolved organic phosphorus concentration C PTR_NO3 :: nitrate concentration C PTR_DON :: dissolved organic nitrogen concentration C PTR_SI :: silica concentration C PTR_PHY :: total phytoplankton biomass _RL PTR_O2 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PTR_FE (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PTR_PO4(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PTR_DOP(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PTR_NO3(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PTR_DON(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #ifdef USE_SIBLING _RL PTR_SI (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #endif #ifdef ADVECT_PHYTO _RL PTR_PHY(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #endif C === Output === C G_xxx :: tendency term for tracer xxx _RL G_DIC (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_ALK (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_O2 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_FE (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_PO4 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_DOP (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_NO3 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_DON (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #ifdef USE_SIBLING _RL G_SI (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #endif #ifdef ALLOW_BLING # ifndef USE_BLING_V1 C === Local variables === C i,j,k :: loop indices C Phy_lg_local :: biomass in large phytoplankton C Phy_sm_local :: biomass in small phytoplankton C Phy_diaz_local:: biomass in diazotroph phytoplankton C NO3_lim :: nitrate limitation C PO4_lim :: phosphate limitation C Fe_lim :: iron limitation for phytoplankton C Fe_lim_diaz :: iron limitation for diazotrophs C light_lim :: light limitation C expkT :: temperature function C Pc_m :: light-saturated max photosynthesis rate for phyto C Pc_m_diaz :: light-saturated max photosynthesis rate for diaz C theta_Fe :: Chl:C ratio C theta_Fe_inv :: C:Chl ratio C theta_Fe_max :: Fe-replete maximum Chl:C ratio C irrk :: nut-limited efficiency of algal photosystems C irr_inst :: instantaneous light C irr_eff :: effective irradiance C mld :: mixed layer depth C mu :: net carbon-specific growth rate for phyt C mu_diaz :: net carbon-specific growth rate for diaz C PtoN :: variable ratio of phosphorus to nitrogen C FetoN :: variable ratio of iron to nitrogen C N_uptake :: NO3 utilization by phytoplankton C N_fix :: Nitrogen fixation by diazotrophs C N_den_pelag :: Pelagic denitrification C N_den_benthic :: Benthic denitrification C P_uptake :: PO4 utilization by phytoplankton C Fe_uptake :: dissolved Fe utilization by phytoplankton C CaCO3_uptake :: Calcium carbonate uptake for shell formation C CaCO3_diss :: Calcium carbonate dissolution C G_CaCO3 :: tendency of calcium carbonate C DON_prod :: production of dissolved organic nitrogen C DOP_prod :: production of dissolved organic phosphorus C DON_remin :: remineralization of dissolved organic nitrogen C DOP_remin :: remineralization of dissolved organic phosphorus C O2_prod :: production of oxygen C frac_exp :: fraction of sinking particulate organic matter C N_spm :: particulate sinking of nitrogen C P_spm :: particulate sinking of phosphorus C Fe_spm :: particulate sinking of iron C N_dvm :: vertical transport of nitrogen by DVM C P_dvm :: vertical transport of phosphorus by DVM C Fe_dvm :: vertical transport of iron by DVM C N_recycle :: recycling of newly-produced organic nitrogen C P_recycle :: recycling of newly-produced organic phosphorus C Fe_recycle :: recycling of newly-produced organic iron C N_reminp :: remineralization of particulate organic nitrogen C P_reminp :: remineralization of particulate organic nitrogen C Fe_reminp :: remineralization of particulate organic iron C Fe_reminsum :: iron remineralization and adsorption C N_remindvm :: nitrogen remineralization due to diel vertical migration C P_remindvm :: phosphorus remineralization due to diel vertical migration C Fe_remindvm :: iron remineralization due to diel vertical migration C POC_flux :: particulate organic carbon flux C NPP :: net primary production C NCP :: net community production C depth_l :: depth of lower interface C *flux_u :: "*" flux through upper interface C *flux_l :: "*" flux through lower interface C zremin :: remineralization lengthscale for nutrients C zremin_caco3 :: remineralization lengthscale for CaCO3 C wsink :: speed of sinking particles C POC_sed :: flux of particulate organic carbon to sediment C Fe_sed :: sediment iron efflux C kFe_eq_lig :: iron ligand stability constant C FreeFe :: free (unbound) iron concentration C Fe_ads_inorg :: iron adsorption C Fe_ads_org :: iron adsorption (2nd order) C NO3_btmflx :: bottom flux of nitrate C PO4_btmflx :: bottom flux of phosphate C O2_btmflx :: bottom flux of oxygen C Fe_burial :: flux of iron to sediment as particulate C INTEGER i,j,k INTEGER bottomlayer _RL Phy_lg_local(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Phy_sm_local(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Phy_diaz_local(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL NO3_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PO4_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_lim_diaz(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL light_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL expkT(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Pc_m _RL Pc_m_diaz _RL theta_Fe_max _RL theta_Fe(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL theta_Fe_inv(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL irrk(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL irr_inst(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL irr_eff(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL mld(1-OLx:sNx+OLx,1-OLy:sNy+OLy) _RL mu(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL mu_diaz(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL PtoN(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL FetoN(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_fix(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_den_pelag(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_den_benthic(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL P_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL CaCO3_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL CaCO3_diss(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL G_CACO3(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL DON_prod(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL DOP_prod(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL DON_remin(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL DOP_remin(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL O2_prod(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL frac_exp _RL N_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL P_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL P_dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL P_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL P_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_reminsum(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL N_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL P_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL POC_flux(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL NPP(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL NCP(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL depth_l _RL PONflux_u _RL PONflux_l _RL POPflux_u _RL POPflux_l _RL PFEflux_u _RL PFEflux_l _RL CaCO3flux_u _RL CaCO3flux_l _RL zremin _RL zremin_caco3 _RL wsink _RL POC_sed _RL Fe_sed(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL kFe_eq_lig _RL FreeFe _RL Fe_ads_inorg(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Fe_ads_org(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL log_btm_flx _RL NO3_btmflx(1-OLx:sNx+OLx,1-OLy:sNy+OLy) _RL PO4_btmflx(1-OLx:sNx+OLx,1-OLy:sNy+OLy) _RL O2_btmflx(1-OLx:sNx+OLx,1-OLy:sNy+OLy) _RL Fe_burial(1-OLx:sNx+OLx,1-OLy:sNy+OLy) _RL no3_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL po4_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL fe_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL o2_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL don_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL dop_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #ifdef ML_MEAN_PHYTO _RL tmp_p_sm_ML _RL tmp_p_lg_ML _RL tmp_p_diaz_ML _RL tmp_ML #endif #ifdef USE_BLING_DVM INTEGER tmp_dvm _RL o2_upper _RL o2_lower _RL dz_upper _RL dz_lower _RL temp_upper _RL temp_lower _RL z_dvm_regr _RL frac_migr _RL fdvm_migr _RL fdvm_stat _RL fdvmn_vint _RL fdvmp_vint _RL fdvmfe_vint _RL z_dvm _RL dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL x_erfcc,z_erfcc,t_erfcc,erfcc #endif #ifdef USE_SIBLING _RL Si_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Si_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Si_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Si_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL SitoP_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Phy_diatom_local(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL frac_diss_Si(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL Pc_m_diatom _RL mu_diatom(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) _RL zremin_Si _RL si_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #endif #ifdef ADVECT_PHYTO _RL phy_adj(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) #endif CEOP c Initialize output and diagnostics DO j=jmin,jmax DO i=imin,imax mld(i,j) = 0. _d 0 NO3_btmflx(i,j) = 0. _d 0 PO4_btmflx(i,j) = 0. _d 0 O2_btmflx(i,j) = 0. _d 0 Fe_burial(i,j) = 0. _d 0 ENDDO ENDDO DO k=1,Nr DO j=jmin,jmax DO i=imin,imax G_DIC(i,j,k) = 0. _d 0 G_ALK(i,j,k) = 0. _d 0 G_O2(i,j,k) = 0. _d 0 G_Fe(i,j,k) = 0. _d 0 G_PO4(i,j,k) = 0. _d 0 G_DOP(i,j,k) = 0. _d 0 G_NO3(i,j,k) = 0. _d 0 G_DON(i,j,k) = 0. _d 0 G_CaCO3(i,j,k) = 0. _d 0 Phy_lg_local(i,j,k) = 0. _d 0 Phy_sm_local(i,j,k) = 0. _d 0 Phy_diaz_local(i,j,k) = 0. _d 0 NO3_lim(i,j,k) = 0. _d 0 PO4_lim(i,j,k) = 0. _d 0 Fe_lim(i,j,k) = 0. _d 0 Fe_lim_diaz(i,j,k) = 0. _d 0 light_lim(i,j,k) = 0. _d 0 expkT(i,j,k) = 0. _d 0 theta_Fe(i,j,k) = 0. _d 0 theta_Fe_inv(i,j,k) = 0. _d 0 irrk(i,j,k) = 0. _d 0 irr_inst(i,j,k) = 0. _d 0 irr_eff(i,j,k) = 0. _d 0 mu(i,j,k) = 0. _d 0 mu_diaz(i,j,k) = 0. _d 0 PtoN(i,j,k) = 0. _d 0 FetoN(i,j,k) = 0. _d 0 N_uptake(i,j,k) = 0. _d 0 N_fix(i,j,k) = 0. _d 0 N_den_pelag(i,j,k) = 0. _d 0 N_den_benthic(i,j,k) = 0. _d 0 P_uptake(i,j,k) = 0. _d 0 Fe_uptake(i,j,k) = 0. _d 0 CaCO3_uptake(i,j,k) = 0. _d 0 CaCO3_diss(i,j,k) = 0. _d 0 DON_prod(i,j,k) = 0. _d 0 DOP_prod(i,j,k) = 0. _d 0 DON_remin(i,j,k) = 0. _d 0 DOP_remin(i,j,k) = 0. _d 0 O2_prod(i,j,k) = 0. _d 0 N_spm(i,j,k) = 0. _d 0 P_spm(i,j,k) = 0. _d 0 Fe_spm(i,j,k) = 0. _d 0 N_dvm(i,j,k) = 0. _d 0 P_dvm(i,j,k) = 0. _d 0 Fe_dvm(i,j,k) = 0. _d 0 N_recycle(i,j,k) = 0. _d 0 P_recycle(i,j,k) = 0. _d 0 Fe_recycle(i,j,k) = 0. _d 0 N_reminp(i,j,k) = 0. _d 0 P_reminp(i,j,k) = 0. _d 0 Fe_reminp(i,j,k) = 0. _d 0 Fe_reminsum(i,j,k) = 0. _d 0 N_remindvm(i,j,k) = 0. _d 0 P_remindvm(i,j,k) = 0. _d 0 Fe_remindvm(i,j,k) = 0. _d 0 POC_flux(i,j,k) = 0. _d 0 NPP(i,j,k) = 0. _d 0 NCP(i,j,k) = 0. _d 0 Fe_sed(i,j,k) = 0. _d 0 Fe_ads_org(i,j,k) = 0. _d 0 Fe_ads_inorg(i,j,k) = 0. _d 0 #ifdef USE_BLING_DVM dvm(i,j,k) = 0. _d 0 #endif #ifdef USE_SIBLING G_SI(i,j,k) = 0. _d 0 Si_lim(i,j,k) = 0. _d 0 Si_uptake(i,j,k) = 0. _d 0 Si_recycle(i,j,k) = 0. _d 0 Si_reminp(i,j,k) = 0. _d 0 SitoP_uptake(i,j,k) = 0. _d 0 Phy_diatom_local(i,j,k) = 0. _d 0 frac_diss_Si(i,j,k) = 0. _d 0 mu_diatom(i,j,k) = 0. _d 0 #endif ENDDO ENDDO ENDDO c----------------------------------------------------------- c avoid negative nutrient concentrations that can result from c advection when low concentrations #ifdef BLING_NO_NEG CALL BLING_MIN_VAL(PTR_O2, 1. _d -11, o2_adj, bi, bj) CALL BLING_MIN_VAL(PTR_FE, 1. _d -11, fe_adj, bi, bj) CALL BLING_MIN_VAL(PTR_PO4, 1. _d -8, po4_adj, bi, bj) CALL BLING_MIN_VAL(PTR_DOP, 1. _d -11, dop_adj, bi, bj) CALL BLING_MIN_VAL(PTR_NO3, 1. _d -7, no3_adj, bi, bj) CALL BLING_MIN_VAL(PTR_DON, 1. _d -11, don_adj, bi, bj) # ifdef USE_SIBLING CALL BLING_MIN_VAL(PTR_SI , 1. _d -7, si_adj, bi, bj) # endif # ifdef ADVECT_PHYTO CALL BLING_MIN_VAL(PTR_PHY, 1. _d -11, phy_adj, bi, bj) # endif #endif c----------------------------------------------------------- c Phytoplankton size classes DO k=1,Nr DO j=jmin,jmax DO i=imin,imax #ifdef ADVECT_PHYTO Phy_lg_local(i,j,k) = PTR_PHY(i,j,k)*phyto_lg(i,j,k,bi,bj) Phy_sm_local(i,j,k) = PTR_PHY(i,j,k)*phyto_sm(i,j,k,bi,bj) Phy_diaz_local(i,j,k) = PTR_PHY(i,j,k)*phyto_diaz(i,j,k,bi,bj) #else Phy_lg_local(i,j,k) = phyto_lg(i,j,k,bi,bj) Phy_sm_local(i,j,k) = phyto_sm(i,j,k,bi,bj) Phy_diaz_local(i,j,k) = phyto_diaz(i,j,k,bi,bj) #endif ENDDO ENDDO ENDDO c----------------------------------------------------------- c Mixed layer depth calculation for light, phytoplankton and dvm. c Do not need to calculate if not using ML_MEAN_LIGHT, ML_MEAN_PHYTO, c and USE_BLING_DVM c (with BLING_ADJOINT_SAFE flag, USE_BLING_DVM is undefined) #if ( defined (ML_MEAN_LIGHT) || \ defined (ML_MEAN_PHYTO) || \ defined (USE_BLING_DVM) ) CALL BLING_MIXEDLAYER( U mld, I bi, bj, imin, imax, jmin, jmax, I myTime, myIter, myThid) #endif c Phytoplankton mixing c The mixed layer is assumed to homogenize vertical gradients of phytoplankton. c This allows for basic Sverdrup dynamics in a qualitative sense. c This has not been thoroughly tested, and care should be c taken with its interpretation. #ifdef ML_MEAN_PHYTO DO j=jmin,jmax DO i=imin,imax tmp_p_sm_ML = 0. _d 0 tmp_p_lg_ML = 0. _d 0 tmp_p_diaz_ML = 0. _d 0 tmp_ML = 0. _d 0 DO k=1,Nr IF (hFacC(i,j,k,bi,bj).gt.0. _d 0) THEN IF ((-rf(k+1) .le. mld(i,j)).and. & (-rf(k+1).lt.MLmix_max)) THEN tmp_p_sm_ML = tmp_p_sm_ML+Phy_sm_local(i,j,k)*drF(k) & *hFacC(i,j,k,bi,bj) tmp_p_lg_ML = tmp_p_lg_ML+Phy_lg_local(i,j,k)*drF(k) & *hFacC(i,j,k,bi,bj) tmp_p_diaz_ML = tmp_p_diaz_ML+Phy_diaz_local(i,j,k)*drF(k) & *hFacC(i,j,k,bi,bj) tmp_ML = tmp_ML + drF(k) ENDIF ENDIF ENDDO DO k=1,Nr IF (hFacC(i,j,k,bi,bj).gt.0. _d 0) THEN IF ((-rf(k+1) .le. mld(i,j)).and. & (-rf(k+1).lt.MLmix_max)) THEN Phy_lg_local(i,j,k) = max(1. _d -8,tmp_p_lg_ML/tmp_ML) Phy_sm_local(i,j,k) = max(1. _d -8,tmp_p_sm_ML/tmp_ML) Phy_diaz_local(i,j,k) = max(1. _d -8,tmp_p_diaz_ML/tmp_ML) ENDIF ENDIF ENDDO ENDDO ENDDO #endif #ifdef USE_SIBLING DO k=1,Nr DO j=jmin,jmax DO i=imin,imax Phy_diatom_local(i,j,k) = Phy_lg_local(i,j,k) ENDDO ENDDO ENDDO #endif c----------------------------------------------------------- c light availability for biological production CALL BLING_LIGHT( I mld, U irr_inst, irr_eff, I bi, bj, imin, imax, jmin, jmax, I myTime, myIter, myThid ) c phytoplankton photoadaptation to local light level c This represents the fact that phytoplankton cells are adapted c to the averaged light field to which they've been exposed over c their lifetimes, rather than the instantaneous light. The c timescale is set by gamma_irr_mem. DO k=1,Nr DO j=jmin,jmax DO i=imin,imax irr_mem(i,j,k,bi,bj) = irr_mem(i,j,k,bi,bj) + & (irr_eff(i,j,k) - irr_mem(i,j,k,bi,bj))* & min( 1. _d 0, gamma_irr_mem*PTRACERS_dTLev(k) ) ENDDO ENDDO ENDDO c --------------------------------------------------------------------- c Nutrient uptake and partitioning between organic pools DO k=1,Nr DO j=jmin,jmax DO i=imin,imax IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN c --------------------------------------------------------------------- c First, calculate the limitation terms for NUT and Fe, and the c Fe-limited Chl:C maximum. The light-saturated maximal photosynthesis c rate term (Pc_m) is simply the product of a prescribed maximal c photosynthesis rate (Pc_0), the Eppley temperature dependence, and a c resource limitation term. The iron limitation term has a lower limit c of Fe_lim_min and is scaled by (k_Fe2P + Fe2P_max) / Fe2P_max so that c it approaches 1 as Fe approaches infinity. Thus, it is of comparable c magnitude to the macro-nutrient limitation term. c Macro-nutrient limitation NO3_lim(i,j,k) = PTR_NO3(i,j,k)/(PTR_NO3(i,j,k)+k_NO3) PO4_lim(i,j,k) = PTR_PO4(i,j,k)/(PTR_PO4(i,j,k)+k_PO4) c Iron limitation Fe_lim(i,j,k) = PTR_FE(i,j,k) & / (PTR_FE(i,j,k)+k_Fe_2d(i,j,bi,bj)) Fe_lim_diaz(i,j,k) = PTR_FE(i,j,k) & / (PTR_FE(i,j,k)+k_Fe_diaz_2d(i,j,bi,bj)) #ifdef USE_SIBLING Si_lim(i,j,k) = PTR_Si(i,j,k)/(PTR_Si(i,j,k)+k_Si) #endif c --------------------------------------------------------------------- c Temperature functionality of growth and grazing c NB The temperature function of Eppley (1972) is used to represent the c effects of temperature on uptake, synthesis and ecosystem function. c The reference value is 0 C. Note that this differs slightly from the c more common Arrhenius form of the equation, but by a tiny amount (less c than 4% difference over the range -2 to 32 C for an Arrhenius constant c (Ae) of 5150). expkT(i,j,k) = exp(kappa_eppley * theta(i,j,k,bi,bj)) c The light-saturated maximal photosynthesis rate term (pc_m) is c the product of a prescribed maximal photosynthesis rate (pc_0), the c Eppley temperature dependence, and a co-limitation term (the product c of Michaelis-Menten no3-limitation, po4-limitation, or iron-limitation). c Note this was altered from the Liebig limitation of BLINGv0, following c the arguments of Danger (Oikos, 2008) and Harpole (Ecol. Letters 2011). c Taking the cube root, to provide the geometric mean. c Geometric mean is causing instability in b-SOSE. Returning to Liebig #ifdef MIN_NUT_LIM Pc_m = Pc_0_2d(i,j,bi,bj) * expkT(i,j,k) & * min(NO3_lim(i,j,k), PO4_lim(i,j,k), Fe_lim(i,j,k)) & * maskC(i,j,k,bi,bj) #else Pc_m = Pc_0_2d(i,j,bi,bj) * expkT(i,j,k) & * (NO3_lim(i,j,k) * PO4_lim(i,j,k) * Fe_lim(i,j,k)) & **(1./3.) * maskC(i,j,k,bi,bj) #endif c Diazotrophs are assumed to be more strongly temperature sensitive, c given their observed restriction to relatively warm waters. Presumably c this is because of the difficulty of achieving N2 fixation in an oxic c environment. Thus, they have lower pc_0 and higher kappa_eppley. c Taking the square root, to provide the geometric mean. #ifdef MIN_NUT_LIM Pc_m_diaz = Pc_0_diaz_2d(i,j,bi,bj) & * exp(kappa_eppley_diaz * theta(i,j,k,bi,bj)) & * min(PO4_lim(i,j,k), Fe_lim_diaz(i,j,k)) & * maskC(i,j,k,bi,bj) #else Pc_m_diaz = Pc_0_diaz_2d(i,j,bi,bj) & * exp(kappa_eppley_diaz * theta(i,j,k,bi,bj)) & * (PO4_lim(i,j,k) * Fe_lim_diaz(i,j,k))**(1./2.) & * maskC(i,j,k,bi,bj) #endif c Diatoms are limited by the abundance of silica c Note: this is not in original SiBLING code #ifdef USE_SIBLING # ifdef MIN_NUT_LIM Pc_m_diatom = Pc_0_2d(i,j,bi,bj) * expkT(i,j,k) & * min(NO3_lim(i,j,k), PO4_lim(i,j,k), Fe_lim(i,j,k), & Si_lim(i,j,k)) * maskC(i,j,k,bi,bj) # else Pc_m_diatom = Pc_0_2d(i,j,bi,bj) * expkT(i,j,k) & * (NO3_lim(i,j,k) * PO4_lim(i,j,k) * Fe_lim(i,j,k) & * Si_lim(i,j,k)) **(1./4.) * maskC(i,j,k,bi,bj) # endif #endif c (Pc_m and Pc_m_diaz crash adjoint if get too small) #ifdef BLING_ADJOINT_SAFE Pc_m = max(Pc_m ,maskC(i,j,k,bi,bj)*1. _d -15) Pc_m_diaz = max(Pc_m_diaz ,maskC(i,j,k,bi,bj)*1. _d -15) # ifdef USE_SIBLING Pc_m_diatom = max(Pc_m_diatom,maskC(i,j,k,bi,bj)*1. _d -15) # endif #endif c --------------------------------------------------------------------- c Fe limitation reduces the maximum achievable Chl:C ratio (theta_Fe) c below a prescribed, Fe-replete maximum value (theta_Fe_max), c to approach a prescribed minimum Chl:C (theta_Fe_min) under extreme c Fe-limitation. theta_Fe_max = theta_Fe_max_lo+ & (theta_Fe_max_hi-theta_Fe_max_lo)*Fe_lim(i,j,k) theta_Fe(i,j,k) = theta_Fe_max & / (1. _d 0 + alpha_photo_2d(i,j,bi,bj) & *theta_Fe_max & *irr_mem(i,j,k,bi,bj)/(epsln + 2. _d 0*Pc_m)) c for diagnostics: C:Chl ratio in g C / g Chl IF ( theta_Fe(i,j,k) .EQ.0. ) THEN theta_Fe_inv(i,j,k) = 0. ELSE theta_Fe_inv(i,j,k) = 1./theta_Fe(i,j,k) ENDIF c --------------------------------------------------------------------- c Nutrient-limited efficiency of algal photosystems, irrk, is calculated c with the iron limitation term included as a multiplier of the c theta_Fe_max to represent the importance of Fe in forming chlorophyll c accessory antennae, which do not affect the Chl:C but still affect the c phytoplankton ability to use light (eg Stzrepek & Harrison, Nature 2004). c Use same thetamax for diazotrophs, since their extra Fe requirement c is for nitrogenase, not for the photosystem. irrk(i,j,k) = Pc_m & /(epsln + alpha_photo_2d(i,j,bi,bj)*theta_Fe_max) & + irr_mem(i,j,k,bi,bj)/2. _d 0 light_lim(i,j,k) = ( 1. _d 0 - exp(-irr_eff(i,j,k) & /(epsln + irrk(i,j,k)))) c Carbon-specific photosynthesis rate mu(i,j,k) = Pc_m * light_lim(i,j,k) #ifdef USE_SIBLING mu_diatom(i,j,k) = Pc_m_diatom * light_lim(i,j,k) #endif c Temperature threshold for diazotrophs IF (theta(i,j,k,bi,bj) .gt. 14) THEN mu_diaz(i,j,k) = Pc_m_diaz * light_lim(i,j,k) ELSE mu_diaz(i,j,k) = 0. _d 0 ENDIF c Stoichiometry PtoN(i,j,k) = PtoN_min + (PtoN_max - PtoN_min) * & PTR_PO4(i,j,k) / (k_PtoN + PTR_PO4(i,j,k)) FetoN(i,j,k) = FetoN_min + (FetoN_max - FetoN_min) * & PTR_FE(i,j,k) / (k_FetoN + PTR_FE(i,j,k)) #ifdef USE_SIBLING c Si uptake by diatoms varies with both Si-limitation and growth-rate c limitation by other factors: increasing Si limitation decreases Si c uptake, but growth limitation by other factors under high Si conditions c results in increase Si:P of uptake. SitoP_uptake(i,j,k) = min(SitoP_uptake_max, 16. & * Si_lim(i,j,k) * max(SitoP_uptake_min/16., & (1. / epsln + SitoP_uptake_scale + min( & PO4_lim(i,j,k), Fe_lim(i,j,k) ) * (1. - & exp(-irr_eff(i,j,k)/(epsln + irrk(i,j,k) )) )) & **SitoP_uptake_exp)) #endif c Nutrient uptake N_uptake(i,j,k) = mu(i,j,k) * (Phy_sm_local(i,j,k) & + Phy_lg_local(i,j,k)) N_fix(i,j,k) = mu_diaz(i,j,k) * Phy_diaz_local(i,j,k) P_uptake(i,j,k) = (N_uptake(i,j,k) + & N_fix(i,j,k)) * PtoN(i,j,k) Fe_uptake(i,j,k) = (N_uptake(i,j,k) + & N_fix(i,j,k)) * FetoN(i,j,k) #ifdef USE_SIBLING Si_uptake(i,j,k) = mu(i,j,k) * Phy_diatom_local(i,j,k) & * SitoP_uptake(i,j,k) #endif c Calcium carbonate production c Alkalinity is consumed through the production of CaCO3. Here, this is c simply a linear function of the implied growth rate of small c phytoplankton, which gave a reasonably good fit to the global c observational synthesis of Dunne (2009). This is consistent c with the findings of Jin et al. (GBC,2006). CaCO3_uptake(i,j,k) = mu(i,j,k) * Phy_sm_local(i,j,k) & * phi_sm_2d(i,j,bi,bj) * CatoN ENDIF ENDDO ENDDO ENDDO c --------------------------------------------------------------------- c Grazing is treated using the size-dependent grazing laws of c Dunne et al. (GBC, 2005), with alpha=1/3 (eq. 5b): c lambda_small = lambda0 * e^kT * (small/pivotal) c lambda_large = lambda0 * e^hT * (large/pivotal)^alpha c where small/large are the biomasses of small and large phytoplankton, c and lambda is mortality. The constants were determined empirically c from a global dataset. c Basically, small phytoplankton have a linear increase in mortality c with biomass, reflecting the rapid increase of small zooplankton as c growth rates increase, while large zooplankton respond weakly to c increases in the growth rates of large phytoplankton. This produces c a simple bloom dynamic. c Because diazotrophs have specialized grazers (O'Neil and Roman, 1992; c Mulholland, Biogeosciences 2007), they are treated independently from c other phytoplankton. This has an important impact, reducing direct c competition between diazotrophs and other phytoplankton. c Note that the phytoplankton concentrations here are not part of the c conserved nutrient pools: they are only used to keep track of the c biomass, which is required to calculate the uptake fluxes. DO k=1,Nr DO j=jmin,jmax DO i=imin,imax IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN c Silicate uptake: diatom biomass is first diagnosed based on the c fraction of large phytoplankton and the degree of Si limitation, c analogous to TOPAZ. Diatom biomass adjusts on the same timescale as c total biomass. Phy_lg_local(i,j,k) = Phy_lg_local(i,j,k) + & Phy_lg_local(i,j,k)*(mu(i,j,k) - lambda_0 & * expkT(i,j,k) * & (Phy_lg_local(i,j,k)/pivotal)**(1. / 3.)) & * PTRACERS_dTLev(k) Phy_sm_local(i,j,k) = Phy_sm_local(i,j,k) + & Phy_sm_local(i,j,k)*(mu(i,j,k) - lambda_0 & * expkT(i,j,k) * (Phy_sm_local(i,j,k)/pivotal)) & * PTRACERS_dTLev(k) Phy_diaz_local(i,j,k) = Phy_diaz_local(i,j,k) + & Phy_diaz_local(i,j,k)*(mu_diaz(i,j,k) - lambda_0 & * expkT(i,j,k) * (Phy_diaz_local(i,j,k)/pivotal)) & * PTRACERS_dTLev(k) #ifdef USE_SIBLING c For now: assuming that all large phyto are diatoms c Another option would be to have a separate diatom population and give c them a higher growth rate to be competitive. Would also need to add c a global variable "phyto_diatom" Phy_diatom_local(i,j,k) = Phy_lg_local(i,j,k) c Phy_diatom_local(i,j,k) = Phy_diatom_local(i,j,k) + c & Phy_diatom_local(i,j,k)*(mu_diatom(i,j,k)-lambda_0 c & * expkT(i,j,k) * (Phy_diatom_local(i,j,k)/pivotal)) c & * PTRACERS_dTLev(k) #endif ENDIF ENDDO ENDDO ENDDO c Separate loop for adjoint stores CADJ STORE Phy_sm_local = comlev1, key = ikey_dynamics, kind=isbyte CADJ STORE Phy_lg_local = comlev1, key = ikey_dynamics, kind=isbyte CADJ STORE Phy_diaz_local = comlev1, key = ikey_dynamics, kind=isbyte DO k=1,Nr DO j=jmin,jmax DO i=imin,imax IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN #ifdef ADVECT_PHYTO c update tracer here PTR_PHY(i,j,k) = Phy_lg_local(i,j,k) + Phy_sm_local(i,j,k) & + Phy_diaz_local(i,j,k) c update fractional abundance phyto_lg(i,j,k,bi,bj) = Phy_lg_local(i,j,k)/PTR_PHY(i,j,k) phyto_sm(i,j,k,bi,bj) = Phy_sm_local(i,j,k)/PTR_PHY(i,j,k) phyto_diaz(i,j,k,bi,bj) = Phy_diaz_local(i,j,k)/PTR_PHY(i,j,k) #else c update biomass phyto_lg(i,j,k,bi,bj) = Phy_lg_local(i,j,k) phyto_sm(i,j,k,bi,bj) = Phy_sm_local(i,j,k) phyto_diaz(i,j,k,bi,bj) = Phy_diaz_local(i,j,k) #endif c use the diagnostic biomass to calculate the chl concentration c in mg/m3 (carbon = 12.01 g/mol) chl(i,j,k,bi,bj) = max(chl_min, CtoN * 12.01 * 1. _d 3 * & theta_Fe(i,j,k) * & (Phy_lg_local(i,j,k) + Phy_sm_local(i,j,k) & + Phy_diaz_local(i,j,k))) ENDIF ENDDO ENDDO ENDDO c --------------------------------------------------------------------- c Partitioning between organic pools c The uptake of nutrients is assumed to contribute to the growth of c phytoplankton, which subsequently die and are consumed by heterotrophs. c This can involve the transfer of nutrient elements between many c organic pools, both particulate and dissolved, with complex histories. c We take a simple approach here, partitioning the total uptake into two c fractions - sinking and non-sinking - as a function of temperature, c following Dunne et al. (2005). c Then, the non-sinking fraction is further subdivided, such that the c majority is recycled instantaneously to the inorganic nutrient pool, c representing the fast turnover of labile dissolved organic matter via c the microbial loop, and the remainder is converted to semi-labile c dissolved organic matter. Iron and macro-nutrient are treated c identically for the first step, but all iron is recycled c instantaneously in the second step (i.e. there is no dissolved organic c iron pool). c Assume that the fraction of uptake that produces sinking particulate c organic matter is the same for diazotrophic and non-diazotrophic c phytoplankton. DO k=1,Nr DO j=jmin,jmax DO i=imin,imax IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN c sinking fraction: particulate organic matter frac_exp = (phi_sm_2d(i,j,bi,bj) + phi_lg_2d(i,j,bi,bj) * & (mu(i,j,k)/(epsln + lambda_0*expkT(i,j,k)))**2.)/ & (1. + (mu(i,j,k)/(epsln + lambda_0*expkT(i,j,k)))**2.)* & exp(kappa_remin * theta(i,j,k,bi,bj)) #ifdef USE_BLING_DVM N_dvm(i,j,k) = phi_dvm * frac_exp * & (N_uptake(i,j,k) + N_fix(i,j,k)) P_dvm(i,j,k) = phi_dvm * frac_exp * P_uptake(i,j,k) Fe_dvm(i,j,k) = phi_dvm * frac_exp * Fe_uptake(i,j,k) N_spm(i,j,k) = frac_exp * (1.0 - phi_dvm) * & (N_uptake(i,j,k) + N_fix(i,j,k)) P_spm(i,j,k) = frac_exp * (1.0 - phi_dvm) * & P_uptake(i,j,k) Fe_spm(i,j,k) = frac_exp * (1.0 - phi_dvm) * & Fe_uptake(i,j,k) #else N_spm(i,j,k) = frac_exp * (N_uptake(i,j,k) + N_fix(i,j,k)) P_spm(i,j,k) = frac_exp * P_uptake(i,j,k) Fe_spm(i,j,k) = frac_exp * Fe_uptake(i,j,k) N_dvm(i,j,k) = 0 P_dvm(i,j,k) = 0 Fe_dvm(i,j,k) = 0 #endif c the remainder is divided between instantaneously recycled and c long-lived dissolved organic matter. DON_prod(i,j,k) = phi_DOM_2d(i,j,bi,bj)*(N_uptake(i,j,k) & + N_fix(i,j,k) - N_spm(i,j,k) & - N_dvm(i,j,k)) DOP_prod(i,j,k) = phi_DOM_2d(i,j,bi,bj)*(P_uptake(i,j,k) & - P_spm(i,j,k) - P_dvm(i,j,k)) N_recycle(i,j,k) = N_uptake(i,j,k) + N_fix(i,j,k) & - N_spm(i,j,k) - DON_prod(i,j,k) & - N_dvm(i,j,k) P_recycle(i,j,k) = P_uptake(i,j,k) & - P_spm(i,j,k) - DOP_prod(i,j,k) & - P_dvm(i,j,k) Fe_recycle(i,j,k) = Fe_uptake(i,j,k) & - Fe_spm(i,j,k) - Fe_dvm(i,j,k) ENDIF ENDDO ENDDO ENDDO C --------------------------------------------------------------------- c Remineralization c In general, the flux at the bottom of a grid cell should equal c Fb = (Ft + Prod*dz) / (1 + zremin*dz) c where Ft is the flux at the top, and prod*dz is the integrated c production of new sinking particles within the layer. c This is also multiplied by the fraction of the grid cell that is c not intercepted by the bottom at this level, according to the c subgridscale sediment interception fraction. c Since Ft=0 in the first layer, C$TAF LOOP = parallel DO j=jmin,jmax C$TAF LOOP = parallel DO i=imin,imax c Initialize upper flux PONflux_u = 0. _d 0 POPflux_u = 0. _d 0 PFEflux_u = 0. _d 0 CaCO3flux_u = 0. _d 0 DO k=1,Nr c Initialization here helps taf Fe_ads_org(i,j,k) = 0. _d 0 c check if we are at a bottom cell bottomlayer = 1 IF (k.LT.Nr) THEN IF (hFacC(i,j,k+1,bi,bj).GT.0) THEN c not a bottom cell bottomlayer = 0 ENDIF ENDIF IF ( hFacC(i,j,k,bi,bj).gt.0. _d 0 ) THEN c Calculate the remineralization lengthscale matrix, zremin, a function c of z. Sinking rate (wsink) is constant over the upper wsink0_z metres, c then increases linearly with depth. c The remineralization rate is a function of oxygen concentrations, c following a Holling type 2 dependence, decreasing to a minimum value c of remin_min. This is ad hoc, following work by Bianchi, Sarmiento, c Galbraith and Kwon (unpublished). c Sinking speed is evaluated at the bottom of the cell depth_l=-rF(k+1) IF (depth_l .LE. wsink0z) THEN wsink = wsink0_2d(i,j,bi,bj) ELSE wsink = wsinkacc * (depth_l - wsink0z) + wsink0_2d(i,j,bi,bj) ENDIF zremin = gamma_POM_2d(i,j,bi,bj) * ( PTR_O2(i,j,k)**2 / & (k_O2**2 + PTR_O2(i,j,k)**2) * (1-remin_min) & + remin_min )/(wsink + epsln) C Calcium remineralization relaxed toward the inverse of the C ca_remin_depth constant value as the calcite saturation approaches 0. zremin_caco3 = 1. _d 0/ca_remin_depth*(1. _d 0 - min(1. _d 0, & omegaC(i,j,k,bi,bj) + epsln )) C POM flux leaving the cell PONflux_l = (PONflux_u+N_spm(i,j,k)*drF(k) & *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) & *hFacC(i,j,k,bi,bj)) POPflux_l = (POPflux_u+P_spm(i,j,k)*drF(k) & *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) & *hFacC(i,j,k,bi,bj)) C CaCO3 flux leaving the cell CaCO3flux_l = (caco3flux_u+CaCO3_uptake(i,j,k)*drF(k) & *hFacC(i,j,k,bi,bj))/(1+zremin_caco3*drF(k) & *hFacC(i,j,k,bi,bj)) C Start with cells that are not the deepest cells IF (bottomlayer.EQ.0) THEN C Nutrient accumulation in a cell is given by the biological production C (and instant remineralization) of particulate organic matter C plus flux thought upper interface minus flux through lower interface. C (Since not deepest cell: hFacC=1) N_reminp(i,j,k) = (PONflux_u + N_spm(i,j,k)*drF(k) & - PONflux_l)*recip_drF(k) P_reminp(i,j,k) = (POPflux_u + P_spm(i,j,k)*drF(k) & - POPflux_l)*recip_drF(k) CaCO3_diss(i,j,k) = (CaCO3flux_u + CaCO3_uptake(i,j,k) & *drF(k) - CaCO3flux_l)*recip_drF(k) Fe_sed(i,j,k) = 0. _d 0 C Now do bottom layer ELSE C If this layer is adjacent to bottom topography or it is the deepest C cell of the domain, then remineralize/dissolve in this grid cell C i.e. do not subtract off lower boundary fluxes when calculating remin N_reminp(i,j,k) = PONflux_u*recip_drF(k) & *recip_hFacC(i,j,k,bi,bj) + N_spm(i,j,k) P_reminp(i,j,k) = POPflux_u*recip_drF(k) & *recip_hFacC(i,j,k,bi,bj) + P_spm(i,j,k) CaCO3_diss(i,j,k) = CaCO3flux_u*recip_drF(k) & *recip_hFacC(i,j,k,bi,bj) + CaCO3_uptake(i,j,k) C Efflux Fed out of sediments C The phosphate flux hitting the bottom boundary C is used to scale the return of iron to the water column. C Maximum value added for numerical stability. POC_sed = PONflux_l * CtoN Fe_sed(i,j,k) = max(epsln, FetoC_sed * POC_sed * recip_drF(k) & *recip_hFacC(i,j,k,bi,bj)) log_btm_flx = 1. _d -20 CMM: this is causing instability in the adjoint. Needs debugging #ifndef BLING_ADJOINT_SAFE IF (POC_sed .gt. 0. _d 0) THEN C Convert from mol N m-2 s-1 to umol C cm-2 d-1 and take the log log_btm_flx = log10(min(43.0 _d 0, POC_sed * & 86400. _d 0 * 100.0 _d 0)) C Metamodel gives units of umol C cm-2 d-1, convert to mol N m-2 s-1 and C multiply by no3_2_n to give NO3 consumption rate N_den_benthic(i,j,k) = min (POC_sed * NO3toN / CtoN, & (10 _d 0)**(-0.9543 _d 0 + 0.7662 _d 0 * & log_btm_flx - 0.235 _d 0 * log_btm_flx * log_btm_flx) & / (CtoN * 86400. _d 0 * 100.0 _d 0) * NO3toN * & PTR_NO3(i,j,k) / (k_no3 + PTR_NO3(i,j,k)) ) * & recip_drF(k) ENDIF #endif C --------------------------------------------------------------------- C Calculate external bottom fluxes. Positive fluxes C are into the water column from the seafloor. For P, the bottom flux puts C the sinking flux reaching the bottom cell into the water column through C diffusion. For iron, the sinking flux disappears into the sediments if C bottom waters are oxic (assumed adsorbed as oxides). If bottom waters are C anoxic, the sinking flux of Fe is returned to the water column. C C For oxygen, the consumption of oxidant required to respire the settling flux C of organic matter (in support of the no3 bottom flux) diffuses from the C bottom water into the sediment. C Assume all NO3 for benthic denitrification is supplied from the bottom water, C and that all organic N is also consumed under denitrification (Complete C Denitrification, sensu Paulmier, Biogeosciences 2009). Therefore, no NO3 is C regenerated from organic matter respired by benthic denitrification C (necessitating the second term in b_no3). NO3_btmflx(i,j) = PONflux_l*drF(k)*hFacC(i,j,k,bi,bj) & - N_den_benthic(i,j,k) / NO3toN PO4_btmflx(i,j) = POPflux_l*drF(k)*hFacC(i,j,k,bi,bj) C Oxygen flux into sediments is that required to support non-denitrification C respiration, assuming a 4/5 oxidant ratio of O2 to NO3. Oxygen consumption C is allowed to continue at negative oxygen concentrations, representing C sulphate reduction. O2_btmflx(i,j) = -(O2toN * PONflux_l*drF(k)*hFacC(i,j,k,bi,bj) & - N_den_benthic(i,j,k)* 1.25) ENDIF c Calculate free and inorganically associated iron concentration for c scavenging. We assume that there is a spectrum of iron ligands present c in seawater, with varying binding strengths and whose composition c varies with light and iron concentrations. For example, c photodissocation of ligand complexes occurs under bright light, c weakening the binding strength (e.g. Barbeau et al., Nature 2001), c while at very low iron concentrations (order kfe_eq_lig_femin), c siderophores are thought to be produced as a response to extreme iron c stress. In anoxic waters, iron should be reduced, and therefore mostly c immune to scavenging; therefore, the feprime calculation is not made c if oxygen is less than 0. kFe_eq_lig = kFe_eq_lig_max-(kFe_eq_lig_max-kFe_eq_lig_min) & *(irr_inst(i,j,k)**2 & /(kFe_eq_lig_irr**2+irr_inst(i,j,k)**2)) & *max(epsln,min(1. _d 0,(PTR_FE(i,j,k) & -kFe_eq_lig_Femin)/ & (PTR_FE(i,j,k)+epsln)*1.2 _d 0)) FreeFe = (-(1+kFe_eq_lig*(ligand-PTR_FE(i,j,k))) & +((1+kFe_eq_lig*(ligand-PTR_FE(i,j,k)))**2+4* & kFe_eq_lig*PTR_FE(i,j,k))**(0.5))/(2* & kFe_eq_lig) IF (PTR_O2(i,j,k) .LT. oxic_min) THEN FreeFe = 0. _d 0 ENDIF Fe_ads_inorg(i,j,k) = & kFe_inorg*(max(1. _d -8,FreeFe))**(1.5) c Calculate the Fe adsorption using this PONflux_l: c The absolute first order rate constant is calculated from the c concentration of organic particles, after Parekh et al. (2005). c (Galbraith's code limits the value to 1/2dt for numerical stability). IF ( PONflux_l .GT. 0. _d 0 ) THEN Fe_ads_org(i,j,k) = & kFE_org*(PONflux_l/(epsln + wsink) & * MasstoN)**(0.58)*FreeFe ENDIF PFEflux_l = (PFEflux_u+(Fe_spm(i,j,k)+Fe_ads_inorg(i,j,k) & +Fe_ads_org(i,j,k))*drF(k) & *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) & *hFacC(i,j,k,bi,bj)) C Added the burial flux of sinking particulate iron here as a C diagnostic, needed to calculate mass balance of iron. C this is calculated last for the deepest cell Fe_burial(i,j) = PFEflux_l IF ( PTR_O2(i,j,k) .LT. oxic_min ) THEN PFEflux_l = 0. _d 0 ENDIF Fe_reminp(i,j,k) = (PFEflux_u+(Fe_spm(i,j,k) & +Fe_ads_inorg(i,j,k) & +Fe_ads_org(i,j,k))*drF(k) & *hFacC(i,j,k,bi,bj)-PFEflux_l)*recip_drF(k) & *recip_hFacC(i,j,k,bi,bj) Fe_reminsum(i,j,k) = Fe_reminp(i,j,k) + Fe_sed(i,j,k) & - Fe_ads_org(i,j,k) - Fe_ads_inorg(i,j,k) C Prepare the tracers for the next layer down PONflux_u = PONflux_l POPflux_u = POPflux_l PFEflux_u = PFEflux_l CaCO3flux_u = CaCO3flux_l ENDIF ENDDO ENDDO ENDDO c----------------------------------------------------------- c remineralization from diel vertical migration #ifdef USE_BLING_DVM c DIEL VERTICAL MIGRATOR EXPORT c The effect of vertically-migrating animals on the export flux of organic c matter from the ocean surface is treated similarly to the scheme of c Bianchi et al., Nature Geoscience 2013. c This involves calculating the stationary depth of vertical migrators, using c an empirical multivariate regression, and ensuring that this remains c above the bottom as well as any suboxic waters. c The total DVM export flux is partitioned between a swimming migratory c component and the stationary component, and these are summed. C$TAF LOOP = parallel DO j=jmin,jmax C$TAF LOOP = parallel DO i=imin,imax c Initialize o2_upper = 0. o2_lower = 0. dz_upper = 0. dz_lower = 0. temp_upper = 0. temp_lower = 0. z_dvm_regr = 0. z_dvm = 0. frac_migr = 0. fdvm_migr = 0. fdvm_stat = 0. fdvmn_vint = 0. fdvmp_vint = 0. fdvmfe_vint = 0. DO k=1,Nr IF ( hFacC(i,j,k,bi,bj).gt.0. _d 0 ) THEN c Calculate the depth of migration based on linear regression. depth_l=-rF(k+1) c Average temperature and oxygen over upper 35 m, and 140-515m. c Also convert O2 to mmol m-3. if ( abs(depth_l) .lt. 35.) then dz_upper = dz_upper + drf(k) temp_upper = temp_upper + theta(i,j,k,bi,bj)*drf(k) o2_upper = o2_upper + PTR_O2(i,j,k) * drf(k)*1.0 _d 3 endif if ( (abs(depth_l) .gt. 140.0 _d 0) .and. & (abs(depth_l) .lt. 515. _d 0)) then dz_lower = dz_lower + drf(k) temp_lower = temp_lower + theta(i,j,k,bi,bj)*drf(k) o2_lower = o2_lower + PTR_O2(i,j,k) * drf(k)*1.0 _d 3 endif ENDIF ENDDO o2_upper = o2_upper / (epsln + dz_upper) temp_upper = temp_upper / (epsln + dz_upper) o2_lower = o2_lower / (epsln + dz_lower) temp_lower = temp_lower / (epsln + dz_lower) c Calculate the regression, using the constants given in Bianchi et al. (2013). c The variable values are bounded to lie within reasonable ranges: c O2 gradient : [-10,300] mmol/m3 c Log10 Chl : [-1.8,0.85] log10(mg/m3) c mld : [0,500] m c T gradient : [-3,20] C z_dvm_regr = 398. _d 0 & - 0.56 _d 0*min(300. _d 0,max(-10. _d 0,(o2_upper - o2_lower))) & - 115. _d 0*min(0.85 _d 0,max(-1.80 _d 0, & log10(max(chl(i,j,1,bi,bj),chl_min)))) & + 0.36 _d 0*min(500. _d 0,max(epsln,mld(i,j))) & - 2.40 _d 0*min(20. _d 0,max(-3. _d 0,(temp_upper-temp_lower))) c Limit the depth of migration in polar winter. c Use irr_mem since this is averaged over multiple days, dampening the c diurnal cycle. c Tapers Z_DVM to the minimum when surface irradince is below a given c threshold (here 10 W/m2). if ( irr_mem(i,j,1,bi,bj) .lt. 10. ) then z_dvm_regr = 150. _d 0 + (z_dvm_regr - 150. _d 0) * & irr_mem(i,j,1,bi,bj) / 10. _d 0 endif c Check for suboxic water within the column. If found, set dvm c stationary depth to 2 layers above it. This is not meant to c represent a cessation of downward migration, but rather the c requirement for aerobic DVM respiration to occur above the suboxic c water, where O2 is available. tmp_dvm = 0 DO k=1,Nr-2 IF ( (hFacC(i,j,k,bi,bj).gt.0. _d 0) .and. (tmp_dvm.eq.0)) THEN z_dvm = -rf(k+1) if (PTR_O2(i,j,k+2) .lt. (5. _d 0*oxic_min)) tmp_dvm = 1 ENDIF enddo c The stationary depth is constrained between 150 and 700, above any c anoxic waters found, and above the bottom. z_dvm = min(700. _d 0,max(150. _d 0,z_dvm_regr),z_dvm,-rf(k+1)) c Calculate the fraction of migratory respiration that occurs c during upwards and downwards swimming. The remainder is c respired near the stationary depth. c Constants for swimming speed and resting time are hard-coded c after Bianchi et al, Nature Geoscience 2013. frac_migr = max( 0.0 _d 0, min( 1.0 _d 0, (2.0 _d 0 * z_dvm) / & (epsln + 0.05 _d 0 * 0.5 _d 0 * 86400. _d 0))) c Calculate the vertical profile shapes of DVM fluxes. c These are given as the downward organic flux due to migratory c DVM remineralization, defined at the bottom of each layer k. tmp_dvm = 0 DO k=1,Nr IF ( (hFacC(i,j,k,bi,bj).gt.0. _d 0) .and. (tmp_dvm.eq.0)) THEN c First, calculate the part due to active migration above c the stationary depth. if (-rf(k+1) .lt. z_dvm) then fdvm_migr = frac_migr / (epsln + z_dvm - (-rf(2))) * & (z_dvm - (-rf(k+1)) ) else fdvm_migr = 0.0 endif c Then, calculate the part at the stationary depth. c Approximation of the complementary error function c From Numerical Recipes (F90, Ch. 6, p. 216) c Returns the complementary error function erfc(x) c with fractional error everywhere less than 1.2e-7 x_erfcc = (-rf(k) - z_dvm) / & ( (epsln + 2. _d 0 * sigma_dvm**2. _d 0)**0.5) z_erfcc = abs(x_erfcc) t_erfcc = 1. _d 0/(1. _d 0+0.5 _d 0*z_erfcc) erfcc = t_erfcc*exp(-z_erfcc*z_erfcc-1.26551223+t_erfcc* & (1.00002368+t_erfcc*(0.37409196+t_erfcc* & (.09678418+t_erfcc*(-.18628806+t_erfcc*(.27886807+ & t_erfcc*(-1.13520398+t_erfcc*(1.48851587+ & t_erfcc*(-0.82215223+t_erfcc*0.17087277))))))))) if (x_erfcc .lt. 0.0) then erfcc = 2.0 - erfcc endif fdvm_stat = (1. _d 0 - frac_migr) / 2. _d 0 * erfcc c Add the shapes, resulting in the 3-d DVM flux operator. If the c current layer is the bottom layer, or the layer beneath the c underlying layer is suboxic, all fluxes at and below the current c layer remain at the initialized value of zero. This will cause all c remaining DVM remineralization to occur in this layer. IF (k.LT.NR-1) THEN if (PTR_O2(i,j,k+2) .lt. (5. _d 0*oxic_min)) tmp_dvm = 1 ENDIF c!! if (k .eq. grid_kmt(i,j)) exit dvm(i,j,k) = fdvm_migr + fdvm_stat ENDIF enddo c Sum up the total organic flux to be transported by DVM do k = 1, nr fdvmn_vint = fdvmn_vint + N_dvm(i,j,k) * drf(k) fdvmp_vint = fdvmp_vint + P_dvm(i,j,k) * drf(k) fdvmfe_vint = fdvmfe_vint + Fe_dvm(i,j,k) * drf(k) enddo c Calculate the remineralization terms as the divergence of the flux N_remindvm(i,j,1) = fdvmn_vint * (1 - dvm(i,j,1)) / & (epsln + drf(1)) P_remindvm(i,j,1) = fdvmp_vint * (1 - dvm(i,j,1)) / & (epsln + drf(1)) Fe_remindvm(i,j,1) = fdvmfe_vint * (1 - dvm(i,j,1)) / & (epsln + drf(1)) do k = 2, nr N_remindvm(i,j,k) = fdvmn_vint * & (dvm(i,j,k-1) - dvm(i,j,k)) / (epsln + drf(k)) P_remindvm(i,j,k) = fdvmp_vint * & (dvm(i,j,k-1) - dvm(i,j,k)) / (epsln + drf(k)) Fe_remindvm(i,j,k) = fdvmfe_vint * & (dvm(i,j,k-1) - dvm(i,j,k)) / (epsln + drf(k)) enddo enddo enddo #endif c----------------------------------------------------------- c DO k=1,Nr DO j=jmin,jmax DO i=imin,imax IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN c Dissolved organic matter slow remineralization #ifdef BLING_NO_NEG DON_remin(i,j,k) = MAX(maskC(i,j,k,bi,bj)*gamma_DON & *PTR_DON(i,j,k),0. _d 0) DOP_remin(i,j,k) = MAX(maskC(i,j,k,bi,bj)*gamma_DOP & *PTR_DOP(i,j,k),0. _d 0) #else DON_remin(i,j,k) = maskC(i,j,k,bi,bj)*gamma_DON & *PTR_DON(i,j,k) DOP_remin(i,j,k) = maskC(i,j,k,bi,bj)*gamma_DOP & *PTR_DOP(i,j,k) #endif c Pelagic denitrification c If anoxic IF (PTR_O2(i,j,k) .lt. oxic_min) THEN IF (PTR_NO3(i,j,k) .gt. oxic_min) THEN N_den_pelag(i,j,k) = max(epsln, (NO3toN * & ((1. _d 0 - phi_DOM_2d(i,j,bi,bj)) & * (N_reminp(i,j,k) & + N_remindvm(i,j,k)) + DON_remin(i,j,k) + & N_recycle(i,j,k))) - N_den_benthic(i,j,k)) ENDIF ENDIF c oxygen production through photosynthesis O2_prod(i,j,k) = O2toN * N_uptake(i,j,k) & + (O2toN - 1.25 _d 0) * N_fix(i,j,k) c----------------------------------------------------------- C ADD TERMS c Nutrients c Sum of fast recycling, decay of sinking POM, and decay of DOM, c less uptake, (less denitrification). G_PO4(i,j,k) = -P_uptake(i,j,k) + P_recycle(i,j,k) & + (1. _d 0 - phi_DOM_2d(i,j,bi,bj)) & * (P_reminp(i,j,k) & + P_remindvm(i,j,k)) + DOP_remin(i,j,k) G_NO3(i,j,k) = -N_uptake(i,j,k) IF (PTR_O2(i,j,k) .lt. oxic_min) THEN c Anoxic G_NO3(i,j,k) = G_NO3(i,j,k) & - N_den_pelag(i,j,k) - N_den_benthic(i,j,k) ELSE c Oxic G_NO3(i,j,k) = G_NO3(i,j,k) & + N_recycle(i,j,k) & + (1. _d 0 - phi_DOM_2d(i,j,bi,bj)) & * (N_reminp(i,j,k) + N_remindvm(i,j,k)) & + DON_remin(i,j,k) ENDIF c Iron c remineralization, sediments and adsorption are all bundled into c Fe_reminsum G_FE(i,j,k) = -Fe_uptake(i,j,k) + Fe_reminsum(i,j,k) & + Fe_remindvm(i,j,k) + Fe_recycle(i,j,k) c Dissolved Organic Matter c A fraction of POM remineralization goes into dissolved pools. G_DON(i,j,k) = DON_prod(i,j,k) + phi_DOM_2d(i,j,bi,bj) & * (N_reminp(i,j,k) + N_remindvm(i,j,k)) & - DON_remin(i,j,k) G_DOP(i,j,k) = DOP_prod(i,j,k) + phi_DOM_2d(i,j,bi,bj) & * (P_reminp(i,j,k) + P_remindvm(i,j,k)) & - DOP_remin(i,j,k) c Oxygen: c Assuming constant O2:N ratio in terms of oxidant required per mol of c organic N. This implies a constant stoichiometry of C:N and H:N (where H is c reduced, organic H). Because the N provided by N2 fixation is reduced from c N2, rather than NO3-, the o2_2_n_fix is slightly less than the NO3- based c ratio (by 1.25 mol O2/ mol N). Account for the organic matter respired c through benthic denitrification by subtracting 5/4 times the benthic c denitrification NO3 utilization rate from the overall oxygen consumption. G_O2(i,j,k) = O2_prod(i,j,k) c If oxic IF (PTR_O2(i,j,k) .gt. oxic_min) THEN G_O2(i,j,k) = G_O2(i,j,k) & -O2toN * ((1. _d 0 - phi_DOM_2d(i,j,bi,bj)) & * (N_reminp(i,j,k) + N_remindvm(i,j,k)) & + DON_remin(i,j,k) + N_recycle(i,j,k)) c If anoxic but NO3 concentration is very low c (generate negative O2; proxy for HS-). ELSEIF (PTR_NO3(i,j,k) .lt. oxic_min) THEN G_O2(i,j,k) = G_O2(i,j,k) & -O2toN * ((1. _d 0 - phi_DOM_2d(i,j,bi,bj)) & * (N_reminp(i,j,k) + N_remindvm(i,j,k)) & + DON_remin(i,j,k) + N_recycle(i,j,k)) & + N_den_benthic(i,j,k) * 1.25 _d 0 ENDIF c Carbon flux diagnostic POC_flux(i,j,k) = CtoN * N_spm(i,j,k) NPP(i,j,k) = (N_uptake(i,j,k) + N_fix(i,j,k)) * CtoN NCP(i,j,k) = (N_uptake(i,j,k) + N_fix(i,j,k) & - N_recycle(i,j,k) & - (1. _d 0 - phi_DOM_2d(i,j,bi,bj)) & * (N_reminp(i,j,k) + N_remindvm(i,j,k)) & - DON_remin(i,j,k) ) * CtoN G_CaCO3(i,j,k) = CaCO3_diss(i,j,k) - CaCO3_uptake(i,j,k) G_ALK(i,j,k) = - G_NO3(i,j,k) & + 2. _d 0*G_CaCO3(i,j,k) G_DIC(i,j,k) = -NCP(i,j,k) + G_CaCO3(i,j,k) c for diagnostics: convert to mol C/m3 Phy_lg_local(i,j,k) = Phy_lg_local(i,j,k) * CtoN Phy_sm_local(i,j,k) = Phy_sm_local(i,j,k) * CtoN Phy_diaz_local(i,j,k) = Phy_diaz_local(i,j,k) * CtoN c for constraints determine POC, assuming that phytoplankton carbon c is 30% of POC poc(i,j,k,bi,bj) = (Phy_lg_local(i,j,k) + Phy_sm_local(i,j,k) + & Phy_diaz_local(i,j,k) ) * 3.33333 _d 0 ENDIF ENDDO ENDDO ENDDO c --------------------------------------------------------------------- #ifdef ALLOW_DIAGNOSTICS IF ( useDiagnostics ) THEN c 3d global variables CALL DIAGNOSTICS_FILL(chl, 'BLGCHL ',0,Nr,1,bi,bj,myThid) CALL DIAGNOSTICS_FILL(poc, 'BLGPOC ',0,Nr,1,bi,bj,myThid) CALL DIAGNOSTICS_FILL(irr_mem,'BLGIMEM ',0,Nr,1,bi,bj,myThid) c 3d local variables CALL DIAGNOSTICS_FILL(G_DIC ,'BLGBIOC ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(G_ALK ,'BLGBIOAL',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(G_O2 ,'BLGBIOO2',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(G_Fe ,'BLGBIOFE',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(G_PO4 ,'BLGBIOP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(G_NO3 ,'BLGBION ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(Phy_sm_local,'BLGPSM ',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Phy_lg_local,'BLGPLG ',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Phy_diaz_local,'BLGPDIA ',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(irrk, 'BLGIRRK ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(irr_eff, 'BLGIEFF ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(theta_Fe,'BLGCHL2C',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(theta_Fe_inv,'BLGC2CHL',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Fe_lim, 'BLGFELIM',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(NO3_lim, 'BLGNLIM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(PO4_lim, 'BLGPLIM ',0,Nr,2,bi,bj,myThid) #ifdef USE_SIBLING CALL DIAGNOSTICS_FILL(Si_lim, 'BLGSILIM',0,Nr,2,bi,bj,myThid) #endif CALL DIAGNOSTICS_FILL(light_lim,'BLGLLIM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(POC_flux,'BLGPOCF ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(PtoN, 'BLGP2N ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(FetoN, 'BLGFE2N ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(NPP, 'BLGNPP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(NCP, 'BLGNCP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(Fe_dvm, 'BLGFEDVM',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(Fe_spm, 'BLGFESPM',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(Fe_recycle, 'BLGFEREC',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Fe_remindvm, 'BLGFERD ',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Fe_uptake,'BLGFEUP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_den_benthic,'BLGNDENB',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(N_den_pelag, 'BLGNDENP',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(N_dvm, 'BLGNDVM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_fix, 'BLGNFIX ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(DON_prod, 'BLGDONP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(DON_remin,'BLGDONR ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_spm, 'BLGNSPM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_recycle,'BLGNREC ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_remindvm,'BLGNRD ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_reminp, 'BLGNREM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_uptake, 'BLGNUP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_dvm, 'BLGPDVM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(DOP_prod, 'BLGDOPP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(DOP_remin,'BLGDOPR ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_spm, 'BLGPSPM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_recycle,'BLGPREC ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_remindvm,'BLGPRD ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_reminp, 'BLGPREM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_uptake, 'BLGPUP ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(mu, 'BLGMU ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(mu_diaz, 'BLGMUDIA',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(CaCO3_diss, 'BLGCCdis',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(CaCO3_uptake,'BLGCCpro',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Fe_ads_org, 'BLGFEADO',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Fe_ads_inorg,'BLGFEADI',0,Nr,2,bi,bj, & myThid) CALL DIAGNOSTICS_FILL(Fe_sed, 'BLGFESED',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(Fe_reminp, 'BLGFEREM',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(N_reminp, 'BLGNREM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(P_reminp, 'BLGPREM ',0,Nr,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(no3_adj, 'BLGNONEN',0,Nr,2,bi,bj,myThid) c 2d local variables CALL DIAGNOSTICS_FILL(mld, 'BLGMLD ',0,1,1,bi,bj,myThid) CALL DIAGNOSTICS_FILL(Fe_burial, 'BLGFEBUR',0,1,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(NO3_btmflx,'BLGNSED ',0,1,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(PO4_btmflx,'BLGPSED ',0,1,2,bi,bj,myThid) CALL DIAGNOSTICS_FILL(O2_btmflx, 'BLGO2SED',0,1,2,bi,bj,myThid) ENDIF #endif /* ALLOW_DIAGNOSTICS */ #endif /* USE_BLING_V1 */ #endif /* ALLOW_BLING */ RETURN END