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mmazloff |
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C $Header: $ |
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C $Name: $ |
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#include "BLING_OPTIONS.h" |
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CBOP |
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subroutine BLING_REMIN( |
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I PTR_O2, PTR_FE, |
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O POM_prod, Fe_uptake, CaCO3_prod, |
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O POM_remin, POM_diss, Fe_remin, CaCO3_diss, |
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I bi, bj, imin, imax, jmin, jmax, |
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I myIter, myTime, myThid) |
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C ================================================================= |
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C | subroutine bling_remin |
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C | o Calculate the nutrient flux to depth from bio activity. |
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C | Includes iron export and calcium carbonate (dissolution of |
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C | CaCO3 returns carbonate ions and changes alkalinity). |
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C | - Instant remineralization is assumed. |
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C | - A fraction of POM becomes DOM |
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C ================================================================= |
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implicit none |
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C === Global variables === |
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C irr_inst :: instantaneous irradiance |
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#include "SIZE.h" |
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#include "DYNVARS.h" |
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#include "EEPARAMS.h" |
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#include "PARAMS.h" |
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#include "GRID.h" |
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#include "BLING_VARS.h" |
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#include "PTRACERS_SIZE.h" |
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#include "PTRACERS_PARAMS.h" |
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#ifdef ALLOW_AUTODIFF_TAMC |
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# include "tamc.h" |
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#endif |
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C === Routine arguments === |
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C myTime :: current time |
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C myIter :: current timestep |
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C myThid :: thread number |
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_RL dt |
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_RL myTime |
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INTEGER myIter |
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INTEGER myThid |
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C === Input === |
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C POM_prod :: biological production of sinking particles |
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C Fe_uptake :: biological production of particulate iron |
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C CaCO3_prod :: biological production of CaCO3 shells |
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_RL POM_prod (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_uptake (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL CaCO3_prod (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL PTR_O2 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL PTR_FE (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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INTEGER imin, imax, jmin, jmax, bi, bj |
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C === Output === |
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C POM_remin :: remineralization of sinking particles |
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C Fe_remin :: remineralization of particulate iron |
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C CaCO3_diss :: dissolution of CaCO3 shells |
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_RL POM_remin (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL POM_diss (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_remin (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL CaCO3_diss (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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C === Local variables === |
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C i,j,k :: loop indices |
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C depth_l :: depth of lower interface |
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C deltaPOM :: change in POM due to remin & dissolution |
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C *flux_u, *flux_l :: "*" flux through upper and lower interfaces |
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C *_export :: vertically-integrated export of "*" |
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C zremin :: remineralization lengthscale for nutrients |
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C zremin_caco3 :: remineralization lengthscale for CaCO3 |
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C wsink :: speed of sinking particles |
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C fe_sed_source :: iron source from sediments |
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C FreeFe :: ligand-free iron |
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INTEGER i,j,k |
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_RL depth_l |
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_RL deltaPOM |
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_RL POMflux_u |
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_RL POMflux_l |
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_RL PFEflux_u |
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_RL PFEflux_l |
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_RL CaCO3flux_u |
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_RL CaCO3flux_l |
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_RL POM_export (1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
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_RL PFE_export (1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
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_RL CaCO3_export(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
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_RL zremin |
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_RL zremin_caco3 |
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_RL wsink |
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_RL fe_sed_source |
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_RL lig_stability |
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_RL FreeFe |
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CEOP |
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c --------------------------------------------------------------------- |
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c Initialize output and diagnostics |
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DO k=1,Nr |
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DO j=jmin,jmax |
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DO i=imin,imax |
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POM_remin(i,j,k) = 0. _d 0 |
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Fe_remin(i,j,k) = 0. _d 0 |
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CaCO3_diss(i,j,k) = 0. _d 0 |
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ENDDO |
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ENDDO |
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ENDDO |
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DO j=jmin,jmax |
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DO i=imin,imax |
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POM_export(i,j) = 0. _d 0 |
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PFE_export(i,j) = 0. _d 0 |
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CaCO3_export(i,j) = 0. _d 0 |
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ENDDO |
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ENDDO |
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POMflux_u = 0. _d 0 |
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PFEflux_u = 0. _d 0 |
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CaCO3flux_u = 0. _d 0 |
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c --------------------------------------------------------------------- |
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c Nutrients export/remineralization, CaCO3 export/dissolution |
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c |
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c The flux at the bottom of a grid cell equals |
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C Fb = (Ft + prod*dz) / (1 + zremin*dz) |
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C where Ft is the flux at the top, and prod*dz is the integrated |
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C production of new sinking particles within the layer. |
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C Ft = 0 in the first layer. |
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CADJ STORE Fe_uptake = comlev1, key = ikey_dynamics |
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C$TAF LOOP = parallel |
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DO j=jmin,jmax |
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C$TAF LOOP = parallel |
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DO i=imin,imax |
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C$TAF init upper_flux = static, Nr |
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DO k=1,Nr |
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C$TAF STORE POMflux_u = upper_flux |
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C$TAF STORE PFEflux_u = upper_flux |
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C$TAF STORE CaCO3flux_u = upper_flux |
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IF ( hFacC(i,j,k,bi,bj).gt.0. _d 0 ) THEN |
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C Sinking speed is evaluated at the bottom of the cell |
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depth_l=-rF(k+1) |
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IF (depth_l .LE. wsink0z) THEN |
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wsink = wsink0 |
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ELSE |
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wsink = wsinkacc * (depth_l - wsink0z) + wsink0 |
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ENDIF |
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C Nutrient remineralization lengthscale |
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C Not an e-folding scale: this term increases with remineralization. |
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zremin = gamma_POM * ( PTR_O2(i,j,k)**2 / |
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& (k_O2**2 + PTR_O2(i,j,k)**2) * (1-remin_min) |
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& + remin_min )/(wsink + epsln) |
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C Calcium remineralization relaxed toward the inverse of the |
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C ca_remin_depth constant value as the calcite saturation approaches 0. |
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zremin_caco3 = 1. _d 0/ca_remin_depth*(1. _d 0-min(1. _d 0, |
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& omegaC(i,j,k,bi,bj))) |
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C POM flux leaving the cell |
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POMflux_l = (POMflux_u+POM_prod(i,j,k)*drF(k) |
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& *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) |
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& *hFacC(i,j,k,bi,bj)) |
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C CaCO3 flux leaving the cell |
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CaCO3flux_l = (caco3flux_u+CaCO3_prod(i,j,k)*drF(k) |
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& *hFacC(i,j,k,bi,bj))/(1+zremin_caco3*drF(k) |
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& *hFacC(i,j,k,bi,bj)) |
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C Start with cells that are not the deepest cells |
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IF ((k.LT.Nr) .AND. (hFacC(i,j,k+1,bi,bj).GT.0)) THEN |
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C Nutrient accumulation in a cell is given by the biological production |
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C (and instant remineralization) of particulate organic matter |
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C plus flux thought upper interface minus flux through lower interface. |
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C (Since not deepest cell: hFacC=1) |
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deltaPOM = (POMflux_u + POM_prod(i,j,k)*drF(k) |
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& - POMflux_l)*recip_drF(k) |
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CaCO3_diss(i,j,k) = (CaCO3flux_u + CaCO3_prod(i,j,k)*drF(k) |
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& - CaCO3flux_l)*recip_drF(k) |
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fe_sed_source = 0. _d 0 |
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ELSE |
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C If this layer is adjacent to bottom topography or it is the deepest |
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C cell of the domain, then remineralize/dissolve in this grid cell |
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C i.e. don't subtract off lower boundary fluxes when calculating remin |
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deltaPOM = POMflux_u*recip_drF(k) |
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& *recip_hFacC(i,j,k,bi,bj)+POM_prod(i,j,k) |
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CaCO3_diss(i,j,k) = caco3flux_u*recip_drF(k) |
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& *recip_hFacC(i,j,k,bi,bj)+CaCO3_prod(i,j,k) |
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C Iron from sediments: the phosphate flux hitting the bottom boundary |
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C is used to scale the return of iron to the water column. |
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C Maximum value added for numerical stability. |
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fe_sed_source = min(1. _d -11, |
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& max(0. _d 0,FetoPsed/NUTfac*POMflux_l*recip_drF(k) |
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& *recip_hFacC(i,j,k,bi,bj))) |
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#ifdef BLING_ADJOINT_SAFE |
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fe_sed_source = 0. _d 0 |
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#endif |
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ENDIF |
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C A fraction of POM becomes DOM |
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POM_diss(i,j,k) = deltaPOM*phi_DOM |
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POM_remin(i,j,k) = deltaPOM*(1-phi_DOM) |
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C Begin iron uptake calculations by determining ligand bound and free iron. |
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C Both forms are available for biology, but only free iron is scavenged |
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C onto particles and forms colloids. |
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lig_stability = KFeLeq_max-(KFeLeq_max-KFeLeq_min) |
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& *(irr_inst(i,j,k,bi,bj)**2 |
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& /(IFeL**2+irr_inst(i,j,k,bi,bj)**2)) |
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& *max(0. _d 0,min(1. _d 0,(PTR_FE(i,j,k)-Fe_min)/ |
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& (PTR_FE(i,j,k)+epsln)*b_const)) |
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C Use the quadratic equation to solve for binding between iron and ligands |
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FreeFe = (-(1+lig_stability*(ligand-PTR_FE(i,j,k))) |
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& +((1+lig_stability*(ligand-PTR_FE(i,j,k)))**2+4* |
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& lig_stability*PTR_FE(i,j,k))**(0.5))/(2* |
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& lig_stability) |
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C Iron scavenging doesn't occur in anoxic water (Fe2+ is soluble), so set |
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C FreeFe = 0 when anoxic. FreeFe should be interpreted the free iron that |
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C participates in scavenging. |
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#ifndef BLING_ADJOINT_SAFE |
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IF (PTR_O2(i,j,k) .LT. O2_min) THEN |
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FreeFe = 0 |
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ENDIF |
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#endif |
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c Two mechanisms for iron uptake, in addition to biological production: |
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c colloidal scavenging and scavenging by organic matter. |
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c Colloidal scavenging: |
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c Minimum function for numerical stability |
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c Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
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c & min(0.5/PTRACERS_dTLev(1), kFe_inorg*FreeFe**(0.5))*FreeFe |
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Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
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& kFe_inorg*FreeFe**(0.5)*FreeFe |
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C Scavenging of iron by organic matter: |
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c The POM value used is the bottom boundary flux. This doesn't occur in |
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c oxic waters, but FreeFe is set to 0 in such waters earlier. |
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IF ( POMflux_l .GT. 0. _d 0 ) THEN |
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c Minimum function for numerical stability |
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c Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
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c & min(0.5/PTRACERS_dTLev(1), kFE_org*(POMflux_l |
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c & *CtoP/NUTfac*12.01/wsink)**(0.58)*FreeFe |
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#ifndef BLING_ADJOINT_SAFE |
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Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
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& kFE_org*(POMflux_l*CtoP/NUTfac |
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& *12.01/wsink)**(0.58)*FreeFe |
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#else |
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Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
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& kFE_org*(POMflux_l*CtoP/NUTfac |
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& *12.01/wsink0)**(0.58)*FreeFe |
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#endif |
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ENDIF |
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C If water is oxic then the iron is remineralized normally. Otherwise |
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C it is completely remineralized (fe 2+ is soluble, but unstable |
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C in oxidizing environments). |
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pfeflux_l = (pfeflux_u+Fe_uptake(i,j,k)*drF(k) |
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& *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) |
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& *hFacC(i,j,k,bi,bj)) |
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#ifndef BLING_ADJOINT_SAFE |
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IF ( PTR_O2(i,j,k) .LT. O2_min ) THEN |
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pfeflux_l = 0 |
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ENDIF |
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#endif |
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Fe_remin(i,j,k) = (pfeflux_u+Fe_uptake(i,j,k)*drF(k) |
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& *hFacC(i,j,k,bi,bj)-pfeflux_l)*recip_drF(k) |
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& *recip_hFacC(i,j,k,bi,bj) |
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C Add sediment source |
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Fe_remin(i,j,k) = Fe_remin(i,j,k) + fe_sed_source |
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C Prepare the tracers for the next layer down |
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POMflux_u = POMflux_l |
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PFEflux_u = PFEflux_l |
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CaCO3flux_u = CaCO3flux_l |
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C Depth-integrated export (through bottom of water column) |
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C This is calculated last for the deepest cell |
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POM_export(i,j) = POMflux_l |
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PFE_export(i,j) = PFEflux_l |
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CACO3_export(i,j) = CaCO3flux_l |
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ENDIF |
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ENDDO |
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C Reset for next location (i,j) |
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POMflux_u = 0. _d 0 |
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PFEflux_u = 0. _d 0 |
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CaCO3flux_u = 0. _d 0 |
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ENDDO |
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ENDDO |
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RETURN |
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END |
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