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1.3 |
C $Header: /u/gcmpack/MITgcm_contrib/bling/pkg/bling_production.F,v 1.2 2016/02/28 21:49:24 mmazloff Exp $ |
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C $Name: $ |
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1.1 |
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#include "BLING_OPTIONS.h" |
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CBOP |
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subroutine BLING_PROD( |
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1.2 |
I PTR_NO3, PTR_PO4, PTR_FE, |
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I PTR_O2, PTR_DON, PTR_DOP, |
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O G_NO3, G_PO4, G_FE, |
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O G_O2, G_DON, G_DOP, G_CACO3, |
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1.1 |
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_prod |
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C | o Nutrient uptake and partitioning between organic pools. |
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C | - Phytoplankton biomass-specific growth rate is calculated |
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C | as a function of light, nutrient limitation, and |
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C | temperature. |
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1.2 |
C | - Biomass growth xxx |
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1.1 |
C ================================================================= |
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implicit none |
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C === Global variables === |
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C P_sm :: Small phytoplankton biomass |
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C P_lg :: Large phytoplankton biomass |
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1.2 |
C P_diaz :: Diazotroph phytoplankton biomass |
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1.1 |
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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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1.2 |
#ifdef ALLOW_AUTODIFF |
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1.1 |
# include "tamc.h" |
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#endif |
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C === Routine arguments === |
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C bi,bj :: tile indices |
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C iMin,iMax :: computation domain: 1rst index range |
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C jMin,jMax :: computation domain: 2nd index range |
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C myTime :: current time |
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C myIter :: current timestep |
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C myThid :: thread Id. number |
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INTEGER bi, bj, imin, imax, jmin, jmax |
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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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1.2 |
C PTR_NO3 :: nitrate concentration |
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C PTR_PO4 :: phosphate concentration |
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1.1 |
C PTR_FE :: iron concentration |
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1.2 |
C PTR_DON :: dissolved organic nitrogen concentration |
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C PTR_DOP :: dissolved organic phosphorus concentration |
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1.1 |
C PTR_O2 :: oxygen concentration |
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1.2 |
_RL PTR_NO3(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL PTR_PO4(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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1.1 |
_RL PTR_FE (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_DON(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL PTR_DOP(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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C === Output === |
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C G_xxx :: Tendency of xxx |
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_RL G_NO3 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL G_PO4 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL G_FE (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL G_O2 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL G_DON (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL G_DOP (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL G_CACO3 (1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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#ifdef ALLOW_BLING |
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C === Local variables === |
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C i,j,k :: loop indicesi |
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1.1 |
C irr_eff :: effective irradiance |
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C NO3_lim :: nitrate limitation |
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C PO4_lim :: phosphate limitation |
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C Fe_lim :: iron limitation for phytoplankton |
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C Fe_lim_diaz :: iron limitation for diazotrophs |
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C alpha_Fe :: initial slope of the P-I curve |
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C theta_Fe :: Chl:C ratio |
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C theta_Fe_max :: Fe-replete maximum Chl:C ratio |
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C irrk :: nut-limited efficiency of algal photosystems |
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C irr_inst :: instantaneous light |
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C irr_eff :: available light |
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C mld :: mixed layer depth |
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C Pc_m :: light-saturated max photosynthesis rate for phyt |
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C Pc_m_diaz :: light-saturated max photosynthesis rate for diaz |
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C Pc_tot :: carbon-specific photosynthesis rate |
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C expkT :: temperature function |
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C mu :: net carbon-specific growth rate for phyt |
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C mu_diaz :: net carbon-specific growth rate for diaz |
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C N_uptake :: NO3 utilization by phytoplankton |
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C N_fix :: Nitrogen fixation by diazotrophs |
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C P_uptake :: PO4 utilization by phytoplankton |
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C Fe_uptake :: dissolved Fe utilization by phytoplankton |
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C CaCO3_uptake :: Calcium carbonate uptake for shell formation |
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C DON_prod :: production of dissolved organic nitrogen |
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C DOP_prod :: production of dissolved organic phosphorus |
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C O2_prod :: production of oxygen |
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C |
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1.1 |
INTEGER i,j,k |
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1.2 |
INTEGER tmp |
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_RL th1 |
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_RL th2 |
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_RL th3 |
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_RL NO3_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL PO4_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_lim(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_lim_diaz(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL expkT(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Pc_m |
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_RL Pc_m_diaz |
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_RL theta_Fe_max |
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_RL theta_Fe |
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_RL irrk(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL irr_inst(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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mmazloff |
1.1 |
_RL irr_eff(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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mmazloff |
1.2 |
_RL mld(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
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_RL mu(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL mu_diaz(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL PtoN(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL FetoN(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_fix(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_den_pelag(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_den_benthic(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL P_uptake(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_uptake(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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_RL DON_prod(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL DOP_prod(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL DON_remin(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL DOP_remin(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL O2_prod(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL frac_exp |
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_RL N_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL P_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL P_dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL P_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_recycle(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL P_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_reminsum(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL N_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL P_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL Fe_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL POC_flux(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL NPP(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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_RL NCP(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
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#ifdef ML_MEAN_PHYTO |
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_RL tmp_p_sm_ML |
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_RL tmp_p_lg_ML |
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_RL tmp_p_diaz_ML |
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_RL tmp_ML |
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#endif |
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mmazloff |
1.1 |
CEOP |
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c --------------------------------------------------------------------- |
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c Initialize output and diagnostics |
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mmazloff |
1.2 |
DO j=jmin,jmax |
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DO i=imin,imax |
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mld(i,j) = 0. _d 0 |
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ENDDO |
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ENDDO |
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mmazloff |
1.1 |
DO k=1,Nr |
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DO j=jmin,jmax |
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DO i=imin,imax |
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mmazloff |
1.2 |
G_NO3(i,j,k) = 0. _d 0 |
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G_PO4(i,j,k) = 0. _d 0 |
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G_Fe(i,j,k) = 0. _d 0 |
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G_O2(i,j,k) = 0. _d 0 |
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G_DON(i,j,k) = 0. _d 0 |
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G_DOP(i,j,k) = 0. _d 0 |
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G_CaCO3(i,j,k) = 0. _d 0 |
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N_uptake(i,j,k) = 0. _d 0 |
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N_fix(i,j,k) = 0. _d 0 |
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N_den_pelag(i,j,k) = 0. _d 0 |
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N_den_benthic(i,j,k)= 0. _d 0 |
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P_uptake(i,j,k) = 0. _d 0 |
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mmazloff |
1.1 |
Fe_uptake(i,j,k) = 0. _d 0 |
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mmazloff |
1.2 |
CaCO3_uptake(i,j,k) = 0. _d 0 |
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DON_prod(i,j,k) = 0. _d 0 |
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DOP_prod(i,j,k) = 0. _d 0 |
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O2_prod(i,j,k) = 0. _d 0 |
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mu_diaz(i,j,k) = 0. _d 0 |
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mmazloff |
1.1 |
irr_eff(i,j,k) = 0. _d 0 |
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mmazloff |
1.2 |
irr_inst(i,j,k) = 0. _d 0 |
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mmazloff |
1.3 |
irrk(i,j,k) = 0. _d 0 |
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NO3_lim(i,j,k) = 0. _d 0 |
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PO4_lim(i,j,k) = 0. _d 0 |
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Fe_lim(i,j,k) = 0. _d 0 |
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Fe_lim_diaz(i,j,k) = 0. _d 0 |
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mmazloff |
1.2 |
PtoN(i,j,k) = 0. _d 0 |
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FetoN(i,j,k) = 0. _d 0 |
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NPP(i,j,k) = 0. _d 0 |
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N_reminp(i,j,k) = 0. _d 0 |
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P_reminp(i,j,k) = 0. _d 0 |
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Fe_reminsum(i,j,k) = 0. _d 0 |
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N_remindvm(i,j,k) = 0. _d 0 |
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P_remindvm(i,j,k) = 0. _d 0 |
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mmazloff |
1.1 |
ENDDO |
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ENDDO |
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ENDDO |
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mmazloff |
1.2 |
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c----------------------------------------------------------- |
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c avoid negative nutrient concentrations that can result from |
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c advection when low concentrations |
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#ifdef BLING_NO_NEG |
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CALL TRACER_MIN_VAL( PTR_NO3, 1. _d -7) |
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CALL TRACER_MIN_VAL( PTR_PO4, 1. _d -8) |
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CALL TRACER_MIN_VAL( PTR_FE, 1. _d -11) |
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mmazloff |
1.3 |
CALL TRACER_MIN_VAL( PTR_O2, 1. _d -11) |
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CALL TRACER_MIN_VAL( PTR_DON, 1. _d -11) |
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CALL TRACER_MIN_VAL( PTR_DOP, 1. _d -11) |
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mmazloff |
1.2 |
#endif |
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| 230 |
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c----------------------------------------------------------- |
| 231 |
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c mixed layer depth calculation for light and dvm |
| 232 |
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c |
| 233 |
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CALL BLING_MIXEDLAYER( |
| 234 |
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U mld, |
| 235 |
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I bi, bj, imin, imax, jmin, jmax, |
| 236 |
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I myIter, myTime, myThid) |
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| 238 |
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c Phytoplankton mixing |
| 239 |
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c The mixed layer is assumed to homogenize vertical gradients of phytoplankton. |
| 240 |
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c This allows for basic Sverdrup dynamics in a qualitative sense. |
| 241 |
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c This has not been thoroughly tested, and care should be |
| 242 |
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c taken with its interpretation. |
| 243 |
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| 244 |
mmazloff |
1.3 |
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| 245 |
mmazloff |
1.2 |
#ifdef ML_MEAN_PHYTO |
| 246 |
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DO j=jmin,jmax |
| 247 |
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DO i=imin,imax |
| 248 |
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| 249 |
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tmp_p_sm_ML = 0. _d 0 |
| 250 |
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tmp_p_lg_ML = 0. _d 0 |
| 251 |
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tmp_p_diaz_ML = 0. _d 0 |
| 252 |
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tmp_ML = 0. _d 0 |
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| 254 |
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DO k=1,Nr |
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| 256 |
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IF (hFacC(i,j,k,bi,bj).gt.0. _d 0) THEN |
| 257 |
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IF ((-rf(k+1) .le. mld(i,j)).and. |
| 258 |
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& (-rf(k+1).lt.200. _d 0)) THEN |
| 259 |
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tmp_p_sm_ML = tmp_p_sm_ML+P_sm(i,j,k,bi,bj)*drF(k) |
| 260 |
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& *hFacC(i,j,k,bi,bj) |
| 261 |
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tmp_p_lg_ML = tmp_p_lg_ML+P_lg(i,j,k,bi,bj)*drF(k) |
| 262 |
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& *hFacC(i,j,k,bi,bj) |
| 263 |
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tmp_p_diaz_ML = tmp_p_diaz_ML+P_diaz(i,j,k,bi,bj)*drF(k) |
| 264 |
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& *hFacC(i,j,k,bi,bj) |
| 265 |
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tmp_ML = tmp_ML + drF(k) |
| 266 |
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ENDIF |
| 267 |
|
|
ENDIF |
| 268 |
|
|
|
| 269 |
|
|
ENDDO |
| 270 |
|
|
|
| 271 |
|
|
DO k=1,Nr |
| 272 |
|
|
|
| 273 |
|
|
IF (hFacC(i,j,k,bi,bj).gt.0. _d 0) THEN |
| 274 |
|
|
IF ((-rf(k+1) .le. mld(i,j)).and. |
| 275 |
|
|
& (-rf(k+1).lt.200. _d 0)) THEN |
| 276 |
|
|
|
| 277 |
|
|
P_sm(i,j,k,bi,bj) = max(1. _d -8,tmp_p_sm_ML/tmp_ML) |
| 278 |
|
|
P_lg(i,j,k,bi,bj) = max(1. _d -8,tmp_p_lg_ML/tmp_ML) |
| 279 |
|
|
P_diaz(i,j,k,bi,bj) = max(1. _d -8,tmp_p_diaz_ML/tmp_ML) |
| 280 |
|
|
|
| 281 |
|
|
ENDIF |
| 282 |
|
|
ENDIF |
| 283 |
|
|
|
| 284 |
|
|
ENDDO |
| 285 |
|
|
ENDDO |
| 286 |
|
|
ENDDO |
| 287 |
|
|
|
| 288 |
|
|
#endif |
| 289 |
|
|
|
| 290 |
|
|
|
| 291 |
|
|
c----------------------------------------------------------- |
| 292 |
|
|
c light availability for biological production |
| 293 |
|
|
CALL BLING_LIGHT( |
| 294 |
|
|
I mld, |
| 295 |
|
|
U irr_inst, irr_eff, |
| 296 |
mmazloff |
1.1 |
I bi, bj, imin, imax, jmin, jmax, |
| 297 |
|
|
I myIter, myTime, myThid ) |
| 298 |
mmazloff |
1.2 |
|
| 299 |
|
|
c phytoplankton photoadaptation to local light level |
| 300 |
|
|
DO k=1,Nr |
| 301 |
|
|
DO j=jmin,jmax |
| 302 |
|
|
DO i=imin,imax |
| 303 |
|
|
|
| 304 |
|
|
irr_mem(i,j,k,bi,bj) = irr_mem(i,j,k,bi,bj) + |
| 305 |
|
|
& (irr_eff(i,j,k) - irr_mem(i,j,k,bi,bj))* |
| 306 |
|
|
& min( 1. _d 0, gamma_irr_mem*PTRACERS_dTLev(k) ) |
| 307 |
|
|
|
| 308 |
|
|
ENDDO |
| 309 |
|
|
ENDDO |
| 310 |
|
|
ENDDO |
| 311 |
|
|
|
| 312 |
mmazloff |
1.1 |
c --------------------------------------------------------------------- |
| 313 |
|
|
c Nutrient uptake and partitioning between organic pools |
| 314 |
|
|
|
| 315 |
mmazloff |
1.2 |
C!! needed?? |
| 316 |
|
|
C$TAF STORE P_sm = comlev1, key = ikey_dynamics, kind=isbyte |
| 317 |
|
|
C$TAF STORE P_lg = comlev1, key = ikey_dynamics, kind=isbyte |
| 318 |
|
|
C$TAF STORE P_diaz = comlev1, key = ikey_dynamics, kind=isbyte |
| 319 |
|
|
|
| 320 |
mmazloff |
1.1 |
DO k=1,Nr |
| 321 |
|
|
DO j=jmin,jmax |
| 322 |
|
|
DO i=imin,imax |
| 323 |
|
|
|
| 324 |
|
|
IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN |
| 325 |
|
|
|
| 326 |
|
|
c --------------------------------------------------------------------- |
| 327 |
|
|
c First, calculate the limitation terms for NUT and Fe, and the |
| 328 |
|
|
c Fe-limited Chl:C maximum. The light-saturated maximal photosynthesis |
| 329 |
|
|
c rate term (Pc_m) is simply the product of a prescribed maximal |
| 330 |
|
|
c photosynthesis rate (Pc_0), the Eppley temperature dependence, and a |
| 331 |
|
|
c resource limitation term. The iron limitation term has a lower limit |
| 332 |
|
|
c of Fe_lim_min and is scaled by (k_Fe2P + Fe2P_max) / Fe2P_max so that |
| 333 |
|
|
c it approaches 1 as Fe approaches infinity. Thus, it is of comparable |
| 334 |
|
|
c magnitude to the macro-nutrient limitation term. |
| 335 |
|
|
|
| 336 |
|
|
c Macro-nutrient limitation |
| 337 |
mmazloff |
1.2 |
NO3_lim(i,j,k) = PTR_NO3(i,j,k)/(PTR_NO3(i,j,k)+k_NO3) |
| 338 |
mmazloff |
1.1 |
|
| 339 |
mmazloff |
1.2 |
PO4_lim(i,j,k) = PTR_PO4(i,j,k)/(PTR_PO4(i,j,k)+k_PO4) |
| 340 |
mmazloff |
1.1 |
|
| 341 |
|
|
c Iron limitation |
| 342 |
mmazloff |
1.2 |
|
| 343 |
|
|
Fe_lim(i,j,k) = PTR_FE(i,j,k) / (PTR_FE(i,j,k)+k_Fe) |
| 344 |
|
|
|
| 345 |
|
|
Fe_lim_diaz(i,j,k) = PTR_FE(i,j,k) / (PTR_FE(i,j,k)+k_Fe_diaz) |
| 346 |
mmazloff |
1.1 |
|
| 347 |
|
|
c --------------------------------------------------------------------- |
| 348 |
mmazloff |
1.2 |
c Diazotrophs are assumed to be more strongly temperature sensitive, |
| 349 |
|
|
c given their observed restriction to relatively warm waters. Presumably |
| 350 |
|
|
c this is because of the difficulty of achieving N2 fixation in an oxic |
| 351 |
|
|
c environment. Thus, they have lower pc_0 and higher kappa_eppley. |
| 352 |
|
|
c Taking the square root, to provide the geometric mean. |
| 353 |
mmazloff |
1.1 |
|
| 354 |
mmazloff |
1.2 |
expkT(i,j,k) = exp(kappa_eppley * theta(i,j,k,bi,bj)) |
| 355 |
|
|
|
| 356 |
mmazloff |
1.1 |
c Light-saturated maximal photosynthesis rate |
| 357 |
mmazloff |
1.2 |
|
| 358 |
|
|
#ifdef BLING_ADJOINT_SAFE_tmp_xxxxxxxxxxxxxxxxxx_needs_testing |
| 359 |
|
|
th1 = tanh( (NO3_lim(i,j,k)-PO4_lim(i,j,k))*1. _d 6 ) |
| 360 |
|
|
nut_lim = ( 1. _d 0 - th1 ) * NO3_lim(i,j,k) * 0.5 _d 0 |
| 361 |
|
|
& + ( 1. _d 0 + th1 ) * PO4_lim(i,j,k) * 0.5 _d 0 |
| 362 |
|
|
|
| 363 |
|
|
th2 = tanh( (nut_lim-Fe_lim(i,j,k))*1. _d 6 ) |
| 364 |
|
|
tot_lim = ( 1. _d 0 - th2 ) * nut_lim * 0.5 _d 0 |
| 365 |
|
|
& + ( 1. _d 0 + th2 ) * Fe_lim(i,j,k) * 0.5 _d 0 |
| 366 |
|
|
|
| 367 |
|
|
th3 = tanh( (PO4_lim(i,j,k)-Fe_lim(i,j,k))*1. _d 6 ) |
| 368 |
|
|
diaz_lim = ( 1. _d 0 - th3 ) * PO4_lim(i,j,k) * 0.5 _d 0 |
| 369 |
|
|
& + ( 1. _d 0 + th3 ) * Fe_lim(i,j,k) * 0.5 _d 0 |
| 370 |
|
|
|
| 371 |
|
|
|
| 372 |
|
|
Pc_m = Pc_0 * expkT(i,j,k) * tot_lim |
| 373 |
|
|
& * maskC(i,j,k,bi,bj) |
| 374 |
|
|
|
| 375 |
|
|
Pc_m_diaz = Pc_0_diaz |
| 376 |
|
|
& * exp(kappa_eppley_diaz * theta(i,j,k,bi,bj)) |
| 377 |
|
|
& * diaz_lim * maskC(i,j,k,bi,bj) |
| 378 |
|
|
|
| 379 |
mmazloff |
1.1 |
#else |
| 380 |
mmazloff |
1.2 |
|
| 381 |
|
|
Pc_m = Pc_0 * expkT(i,j,k) |
| 382 |
|
|
& * min(NO3_lim(i,j,k), PO4_lim(i,j,k), Fe_lim(i,j,k)) |
| 383 |
|
|
& * maskC(i,j,k,bi,bj) |
| 384 |
|
|
|
| 385 |
|
|
Pc_m_diaz = Pc_0_diaz |
| 386 |
|
|
& * exp(kappa_eppley_diaz * theta(i,j,k,bi,bj)) |
| 387 |
|
|
& * min(PO4_lim(i,j,k), Fe_lim_diaz(i,j,k)) |
| 388 |
|
|
& * maskC(i,j,k,bi,bj) |
| 389 |
|
|
|
| 390 |
mmazloff |
1.3 |
CMM( Pc_m and Pc_m_diaz crash adjoint if get too small |
| 391 |
|
|
#ifdef BLING_ADJOINT_SAFE |
| 392 |
|
|
Pc_m = MAX(Pc_m ,maskC(i,j,k,bi,bj)*1. _d -15) |
| 393 |
|
|
Pc_m_diaz = MAX(Pc_m_diaz,maskC(i,j,k,bi,bj)*1. _d -15) |
| 394 |
|
|
#endif |
| 395 |
|
|
CMM) |
| 396 |
mmazloff |
1.1 |
#endif |
| 397 |
|
|
|
| 398 |
mmazloff |
1.2 |
|
| 399 |
mmazloff |
1.1 |
c --------------------------------------------------------------------- |
| 400 |
|
|
c Fe limitation 1) reduces photosynthetic efficiency (alpha_Fe) |
| 401 |
|
|
c and 2) reduces the maximum achievable Chl:C ratio (theta_Fe) |
| 402 |
|
|
c below a prescribed, Fe-replete maximum value (theta_Fe_max), |
| 403 |
|
|
c to approach a prescribed minimum Chl:C (theta_Fe_min) under extreme |
| 404 |
|
|
c Fe-limitation. |
| 405 |
|
|
|
| 406 |
|
|
theta_Fe_max = theta_Fe_max_lo+ |
| 407 |
mmazloff |
1.2 |
& (theta_Fe_max_hi-theta_Fe_max_lo)*Fe_lim(i,j,k) |
| 408 |
|
|
|
| 409 |
|
|
theta_Fe = theta_Fe_max/(1. _d 0 + alpha_photo*theta_Fe_max |
| 410 |
|
|
& *irr_mem(i,j,k,bi,bj)/(epsln + 2. _d 0*Pc_m)) |
| 411 |
mmazloff |
1.1 |
|
| 412 |
|
|
c --------------------------------------------------------------------- |
| 413 |
|
|
c Nutrient-limited efficiency of algal photosystems, irrk, is calculated |
| 414 |
|
|
c with the iron limitation term included as a multiplier of the |
| 415 |
|
|
c theta_Fe_max to represent the importance of Fe in forming chlorophyll |
| 416 |
|
|
c accessory antennae, which do not affect the Chl:C but still affect the |
| 417 |
|
|
c phytoplankton ability to use light (eg Stzrepek & Harrison, Nature 2004). |
| 418 |
|
|
|
| 419 |
mmazloff |
1.2 |
irrk(i,j,k) = Pc_m/(epsln + alpha_photo*theta_Fe_max) + |
| 420 |
mmazloff |
1.1 |
& irr_mem(i,j,k,bi,bj)/2. _d 0 |
| 421 |
|
|
|
| 422 |
|
|
c Carbon-specific photosynthesis rate |
| 423 |
mmazloff |
1.2 |
mu(i,j,k) = Pc_m * ( 1. _d 0 - exp(-irr_eff(i,j,k) |
| 424 |
|
|
& /(epsln + irrk(i,j,k)))) |
| 425 |
|
|
|
| 426 |
|
|
mu_diaz(i,j,k) = Pc_m_diaz * ( 1. _d 0 - exp(-irr_eff(i,j,k) |
| 427 |
|
|
& /(epsln + irrk(i,j,k)))) |
| 428 |
|
|
|
| 429 |
|
|
ENDIF |
| 430 |
|
|
ENDDO |
| 431 |
|
|
ENDDO |
| 432 |
|
|
ENDDO |
| 433 |
|
|
|
| 434 |
|
|
|
| 435 |
|
|
C$TAF STORE P_sm = comlev1, key = ikey_dynamics, kind=isbyte |
| 436 |
|
|
C$TAF STORE P_lg = comlev1, key = ikey_dynamics, kind=isbyte |
| 437 |
|
|
C$TAF STORE P_diaz = comlev1, key = ikey_dynamics, kind=isbyte |
| 438 |
|
|
Cxx needed? |
| 439 |
|
|
|
| 440 |
|
|
c Instantaneous nutrient concentration in phyto biomass |
| 441 |
|
|
c Separate loop so adjoint stuff above can be outside loop |
| 442 |
|
|
c (fix for recomputations) |
| 443 |
mmazloff |
1.1 |
|
| 444 |
mmazloff |
1.2 |
DO k=1,Nr |
| 445 |
|
|
DO j=jmin,jmax |
| 446 |
|
|
DO i=imin,imax |
| 447 |
|
|
|
| 448 |
|
|
IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN |
| 449 |
|
|
|
| 450 |
|
|
c expkT = exp(kappa_eppley * theta(i,j,k,bi,bj)) |
| 451 |
mmazloff |
1.1 |
|
| 452 |
|
|
P_lg(i,j,k,bi,bj) = P_lg(i,j,k,bi,bj) + |
| 453 |
mmazloff |
1.2 |
& P_lg(i,j,k,bi,bj)*(mu(i,j,k) - lambda_0 |
| 454 |
|
|
& *expkT(i,j,k) * |
| 455 |
|
|
& (P_lg(i,j,k,bi,bj)/pivotal)**(1. / 3.)) |
| 456 |
|
|
& * PTRACERS_dTLev(k) |
| 457 |
|
|
|
| 458 |
|
|
P_sm(i,j,k,bi,bj) = P_sm(i,j,k,bi,bj) + |
| 459 |
|
|
& P_sm(i,j,k,bi,bj)*(mu(i,j,k) - lambda_0 |
| 460 |
|
|
& *expkT(i,j,k) * (P_sm(i,j,k,bi,bj)/pivotal) ) |
| 461 |
|
|
& * PTRACERS_dTLev(k) |
| 462 |
|
|
|
| 463 |
|
|
P_diaz(i,j,k,bi,bj) = P_diaz(i,j,k,bi,bj) + |
| 464 |
|
|
& P_diaz(i,j,k,bi,bj)*(mu_diaz(i,j,k) - lambda_0 |
| 465 |
|
|
& *expkT(i,j,k) * (P_diaz(i,j,k,bi,bj)/pivotal) ) |
| 466 |
|
|
& * PTRACERS_dTLev(k) |
| 467 |
mmazloff |
1.1 |
|
| 468 |
mmazloff |
1.2 |
ENDIF |
| 469 |
|
|
ENDDO |
| 470 |
|
|
ENDDO |
| 471 |
|
|
ENDDO |
| 472 |
|
|
|
| 473 |
|
|
C$TAF STORE P_sm = comlev1, key = ikey_dynamics, kind=isbyte |
| 474 |
|
|
C$TAF STORE P_lg = comlev1, key = ikey_dynamics, kind=isbyte |
| 475 |
|
|
C$TAF STORE P_diaz = comlev1, key = ikey_dynamics, kind=isbyte |
| 476 |
|
|
cxx needed? |
| 477 |
|
|
|
| 478 |
|
|
|
| 479 |
|
|
DO k=1,Nr |
| 480 |
|
|
DO j=jmin,jmax |
| 481 |
|
|
DO i=imin,imax |
| 482 |
|
|
|
| 483 |
|
|
IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN |
| 484 |
|
|
|
| 485 |
mmazloff |
1.1 |
c use the diagnostic biomass to calculate the chl concentration |
| 486 |
mmazloff |
1.2 |
chl(i,j,k,bi,bj) = max(chl_min, CtoN * 12.01 * theta_Fe * |
| 487 |
|
|
& (P_lg(i,j,k,bi,bj) + P_sm(i,j,k,bi,bj) |
| 488 |
|
|
& + P_diaz(i,j,k,bi,bj))) |
| 489 |
|
|
|
| 490 |
|
|
c stoichiometry |
| 491 |
|
|
PtoN(i,j,k) = PtoN_min + (PtoN_max - PtoN_min) * |
| 492 |
|
|
& PTR_PO4(i,j,k) / (k_PtoN + PTR_PO4(i,j,k)) |
| 493 |
|
|
|
| 494 |
|
|
FetoN(i,j,k) = FetoN_min + (FetoN_max - FetoN_min) * |
| 495 |
|
|
& PTR_FE(i,j,k) / (k_FetoN + PTR_FE(i,j,k)) |
| 496 |
|
|
|
| 497 |
mmazloff |
1.1 |
c Nutrient uptake |
| 498 |
mmazloff |
1.2 |
N_uptake(i,j,k) = mu(i,j,k)*(P_sm(i,j,k,bi,bj) |
| 499 |
|
|
& + P_lg(i,j,k,bi,bj)) |
| 500 |
mmazloff |
1.1 |
|
| 501 |
mmazloff |
1.2 |
N_fix(i,j,k) = mu_diaz(i,j,k) * P_diaz(i,j,k,bi,bj) |
| 502 |
|
|
|
| 503 |
|
|
P_uptake(i,j,k) = (N_uptake(i,j,k) + |
| 504 |
|
|
& N_fix(i,j,k)) * PtoN(i,j,k) |
| 505 |
|
|
|
| 506 |
|
|
Fe_uptake(i,j,k) = (N_uptake(i,j,k) + |
| 507 |
|
|
& N_fix(i,j,k)) * FetoN(i,j,k) |
| 508 |
|
|
|
| 509 |
|
|
c --------------------------------------------------------------------- |
| 510 |
|
|
c Alkalinity is consumed through the production of CaCO3. Here, this is |
| 511 |
|
|
c simply a linear function of the implied growth rate of small |
| 512 |
|
|
c phytoplankton, which gave a reasonably good fit to the global |
| 513 |
|
|
c observational synthesis of Dunne (2009). This is consistent |
| 514 |
|
|
c with the findings of Jin et al. (GBC,2006). |
| 515 |
|
|
|
| 516 |
|
|
CaCO3_uptake(i,j,k) = P_sm(i,j,k,bi,bj) * phi_sm *expkT(i,j,k) |
| 517 |
|
|
& * mu(i,j,k) * CatoN |
| 518 |
|
|
|
| 519 |
mmazloff |
1.1 |
c --------------------------------------------------------------------- |
| 520 |
|
|
c Partitioning between organic pools |
| 521 |
|
|
|
| 522 |
|
|
c The uptake of nutrients is assumed to contribute to the growth of |
| 523 |
|
|
c phytoplankton, which subsequently die and are consumed by heterotrophs. |
| 524 |
|
|
c This can involve the transfer of nutrient elements between many |
| 525 |
|
|
c organic pools, both particulate and dissolved, with complex histories. |
| 526 |
|
|
c We take a simple approach here, partitioning the total uptake into two |
| 527 |
|
|
c fractions - sinking and non-sinking - as a function of temperature, |
| 528 |
|
|
c following Dunne et al. (2005). |
| 529 |
|
|
c Then, the non-sinking fraction is further subdivided, such that the |
| 530 |
|
|
c majority is recycled instantaneously to the inorganic nutrient pool, |
| 531 |
|
|
c representing the fast turnover of labile dissolved organic matter via |
| 532 |
|
|
c the microbial loop, and the remainder is converted to semi-labile |
| 533 |
|
|
c dissolved organic matter. Iron and macro-nutrient are treated |
| 534 |
|
|
c identically for the first step, but all iron is recycled |
| 535 |
|
|
c instantaneously in the second step (i.e. there is no dissolved organic |
| 536 |
|
|
c iron pool). |
| 537 |
|
|
|
| 538 |
|
|
c sinking fraction: particulate organic matter |
| 539 |
mmazloff |
1.2 |
|
| 540 |
|
|
c expkT(i,j,k) = exp(kappa_eppley * theta(i,j,k,bi,bj)) |
| 541 |
|
|
|
| 542 |
|
|
frac_exp = (phi_sm + phi_lg * (mu(i,j,k)/ |
| 543 |
|
|
& (epsln + lambda_0*expkT(i,j,k)))**2.)/ |
| 544 |
|
|
& (1. + (mu(i,j,k)/(epsln + lambda_0*expkT(i,j,k)))**2.)* |
| 545 |
|
|
& exp(kappa_remin * theta(i,j,k,bi,bj)) |
| 546 |
|
|
|
| 547 |
|
|
N_spm(i,j,k) = frac_exp * (1.0 - phi_dvm) * |
| 548 |
|
|
& (N_uptake(i,j,k) + N_fix(i,j,k)) |
| 549 |
|
|
|
| 550 |
|
|
P_spm(i,j,k) = frac_exp * (1.0 - phi_dvm) * |
| 551 |
|
|
& P_uptake(i,j,k) |
| 552 |
|
|
|
| 553 |
|
|
Fe_spm(i,j,k) = frac_exp * (1.0 - phi_dvm) * |
| 554 |
|
|
& Fe_uptake(i,j,k) |
| 555 |
|
|
|
| 556 |
|
|
N_dvm(i,j,k) = frac_exp * |
| 557 |
|
|
& (N_uptake(i,j,k) + N_fix(i,j,k)) - N_spm(i,j,k) |
| 558 |
|
|
|
| 559 |
|
|
P_dvm(i,j,k) = frac_exp * P_uptake(i,j,k) - |
| 560 |
|
|
& P_spm(i,j,k) |
| 561 |
|
|
|
| 562 |
|
|
Fe_dvm(i,j,k) = frac_exp * Fe_uptake(i,j,k) - |
| 563 |
|
|
& Fe_spm(i,j,k) |
| 564 |
|
|
|
| 565 |
mmazloff |
1.1 |
c the remainder is divided between instantaneously recycled and |
| 566 |
|
|
c long-lived dissolved organic matter. |
| 567 |
|
|
|
| 568 |
mmazloff |
1.2 |
DON_prod(i,j,k) = phi_DOM*(N_uptake(i,j,k) |
| 569 |
|
|
& + N_fix(i,j,k) - N_spm(i,j,k) |
| 570 |
|
|
& - N_dvm(i,j,k)) |
| 571 |
|
|
|
| 572 |
|
|
DOP_prod(i,j,k) = phi_DOM*(P_uptake(i,j,k) |
| 573 |
|
|
& - P_spm(i,j,k) - P_dvm(i,j,k)) |
| 574 |
|
|
|
| 575 |
|
|
N_recycle(i,j,k) = N_uptake(i,j,k) + N_fix(i,j,k) |
| 576 |
|
|
& - N_spm(i,j,k) - DON_prod(i,j,k) |
| 577 |
|
|
& - N_dvm(i,j,k) |
| 578 |
|
|
|
| 579 |
|
|
P_recycle(i,j,k) = P_uptake(i,j,k) |
| 580 |
|
|
& - P_spm(i,j,k) - DOP_prod(i,j,k) |
| 581 |
|
|
& - P_dvm(i,j,k) |
| 582 |
|
|
|
| 583 |
|
|
Fe_recycle(i,j,k) = Fe_uptake(i,j,k) |
| 584 |
|
|
& - Fe_spm(i,j,k) - Fe_dvm(i,j,k) |
| 585 |
|
|
|
| 586 |
|
|
ENDIF |
| 587 |
|
|
|
| 588 |
|
|
ENDDO |
| 589 |
|
|
ENDDO |
| 590 |
|
|
ENDDO |
| 591 |
|
|
|
| 592 |
|
|
|
| 593 |
|
|
c----------------------------------------------------------- |
| 594 |
|
|
c remineralization of sinking organic matter |
| 595 |
|
|
CALL BLING_REMIN( |
| 596 |
|
|
I PTR_NO3, PTR_FE, PTR_O2, irr_inst, |
| 597 |
|
|
I N_spm, P_spm, Fe_spm, CaCO3_uptake, |
| 598 |
|
|
U N_reminp, P_reminp, Fe_reminsum, |
| 599 |
|
|
U N_den_benthic, CACO3_diss, |
| 600 |
|
|
I bi, bj, imin, imax, jmin, jmax, |
| 601 |
|
|
I myIter, myTime, myThid) |
| 602 |
|
|
|
| 603 |
|
|
c----------------------------------------------------------- |
| 604 |
|
|
c remineralization from diel vertical migration |
| 605 |
|
|
CALL BLING_DVM( |
| 606 |
|
|
I N_dvm,P_dvm,Fe_dvm, |
| 607 |
|
|
I PTR_O2, mld, |
| 608 |
|
|
O N_remindvm, P_remindvm, Fe_remindvm, |
| 609 |
|
|
I bi, bj, imin, imax, jmin, jmax, |
| 610 |
|
|
I myIter, myTime, myThid) |
| 611 |
mmazloff |
1.1 |
|
| 612 |
|
|
|
| 613 |
mmazloff |
1.2 |
c----------------------------------------------------------- |
| 614 |
|
|
c sub grid scale sediments |
| 615 |
|
|
#ifdef USE_SGS_SED |
| 616 |
|
|
CALL BLING_SGS( |
| 617 |
|
|
I xxx, |
| 618 |
|
|
O xxx, |
| 619 |
|
|
I bi, bj, imin, imax, jmin, jmax, |
| 620 |
|
|
I myIter, myTime, myThid)#endif |
| 621 |
|
|
#endif |
| 622 |
|
|
|
| 623 |
|
|
|
| 624 |
|
|
c----------------------------------------------------------- |
| 625 |
|
|
c |
| 626 |
mmazloff |
1.1 |
|
| 627 |
mmazloff |
1.2 |
DO k=1,Nr |
| 628 |
|
|
DO j=jmin,jmax |
| 629 |
|
|
DO i=imin,imax |
| 630 |
|
|
|
| 631 |
|
|
IF (hFacC(i,j,k,bi,bj) .gt. 0. _d 0) THEN |
| 632 |
|
|
|
| 633 |
|
|
|
| 634 |
|
|
c Dissolved organic matter slow remineralization |
| 635 |
|
|
|
| 636 |
|
|
#ifdef BLING_NO_NEG |
| 637 |
|
|
DON_remin(i,j,k) = MAX(maskC(i,j,k,bi,bj)*gamma_DON |
| 638 |
|
|
& *PTR_DON(i,j,k),0. _d 0) |
| 639 |
|
|
DOP_remin(i,j,k) = MAX(maskC(i,j,k,bi,bj)*gamma_DOP |
| 640 |
|
|
& *PTR_DOP(i,j,k),0. _d 0) |
| 641 |
|
|
#else |
| 642 |
|
|
DON_remin(i,j,k) = maskC(i,j,k,bi,bj)*gamma_DON |
| 643 |
|
|
& *PTR_DON(i,j,k) |
| 644 |
|
|
DOP_remin(i,j,k) = maskC(i,j,k,bi,bj)*gamma_DOP |
| 645 |
|
|
& *PTR_DOP(i,j,k) |
| 646 |
|
|
#endif |
| 647 |
mmazloff |
1.1 |
|
| 648 |
mmazloff |
1.2 |
|
| 649 |
|
|
c Pelagic denitrification |
| 650 |
|
|
c If anoxic |
| 651 |
|
|
cxx IF (PTR_O2(i,j,k) .lt. 0. _d 0) THEN |
| 652 |
|
|
|
| 653 |
|
|
IF (PTR_O2(i,j,k) .lt. oxic_min) THEN |
| 654 |
|
|
IF (PTR_NO3(i,j,k) .gt. oxic_min) THEN |
| 655 |
|
|
N_den_pelag(i,j,k) = max(epsln, (NO3toN * |
| 656 |
|
|
& ((1. _d 0 - phi_DOM) * (N_reminp(i,j,k) |
| 657 |
|
|
& + N_remindvm(i,j,k)) + DON_remin(i,j,k) + |
| 658 |
|
|
& N_recycle(i,j,k))) - N_den_benthic(i,j,k)) |
| 659 |
|
|
ENDIF |
| 660 |
|
|
ENDIF |
| 661 |
|
|
|
| 662 |
|
|
c Carbon flux diagnostic |
| 663 |
|
|
POC_flux(i,j,k) = CtoN * N_spm(i,j,k) |
| 664 |
|
|
|
| 665 |
|
|
NPP(i,j,k) = (N_uptake(i,j,k) + N_fix(i,j,k)) * CtoN |
| 666 |
|
|
|
| 667 |
|
|
c oxygen production through photosynthesis |
| 668 |
|
|
O2_prod(i,j,k) = O2toN * N_uptake(i,j,k) |
| 669 |
|
|
& + (O2toN - 1.25 _d 0) * N_fix(i,j,k) |
| 670 |
|
|
|
| 671 |
|
|
|
| 672 |
|
|
|
| 673 |
|
|
c----------------------------------------------------------- |
| 674 |
|
|
C ADD TERMS |
| 675 |
|
|
|
| 676 |
|
|
c Nutrients |
| 677 |
|
|
c Sum of fast recycling, decay of sinking POM, and decay of DOM, |
| 678 |
|
|
c less uptake, (less denitrification). |
| 679 |
|
|
|
| 680 |
|
|
G_PO4(i,j,k) = -P_uptake(i,j,k) + P_recycle(i,j,k) |
| 681 |
|
|
& + (1. _d 0 - phi_DOM) * (P_reminp(i,j,k) |
| 682 |
|
|
& + P_remindvm(i,j,k)) + DOP_remin(i,j,k) |
| 683 |
|
|
|
| 684 |
|
|
G_NO3(i,j,k) = -N_uptake(i,j,k) |
| 685 |
|
|
IF (PTR_O2(i,j,k) .lt. oxic_min) THEN |
| 686 |
|
|
c Anoxic |
| 687 |
|
|
G_NO3(i,j,k) = G_NO3(i,j,k) |
| 688 |
|
|
& - N_den_pelag(i,j,k) - N_den_benthic(i,j,k) |
| 689 |
|
|
ELSE |
| 690 |
|
|
c Oxic |
| 691 |
|
|
G_NO3(i,j,k) = G_NO3(i,j,k) |
| 692 |
|
|
& + N_recycle(i,j,k) + (1. _d 0 - phi_DOM) * |
| 693 |
|
|
& (N_reminp(i,j,k) + N_remindvm(i,j,k)) |
| 694 |
|
|
& + DON_remin(i,j,k) |
| 695 |
|
|
ENDIF |
| 696 |
|
|
|
| 697 |
|
|
cxxxx check |
| 698 |
|
|
NCP(i,j,k) = (-G_NO3(i,j,k) + N_fix(i,j,k)) * CtoN |
| 699 |
|
|
|
| 700 |
|
|
c Iron |
| 701 |
|
|
c remineralization, sediments and adsorption are all bundled into |
| 702 |
|
|
c Fe_reminsum |
| 703 |
|
|
|
| 704 |
|
|
G_FE(i,j,k) = -Fe_uptake(i,j,k) + Fe_reminsum(i,j,k) |
| 705 |
|
|
& + Fe_remindvm(i,j,k) + Fe_recycle(i,j,k) |
| 706 |
|
|
|
| 707 |
|
|
c Dissolved Organic Matter |
| 708 |
|
|
c A fraction of POM remineralization goes into dissolved pools. |
| 709 |
|
|
|
| 710 |
|
|
G_DON(i,j,k) = DON_prod(i,j,k) + phi_DOM * |
| 711 |
|
|
& (N_reminp(i,j,k) + N_remindvm(i,j,k)) |
| 712 |
|
|
& - DON_remin(i,j,k) |
| 713 |
|
|
|
| 714 |
|
|
G_DOP(i,j,k) = DOP_prod(i,j,k) + phi_DOM * |
| 715 |
|
|
& (P_reminp(i,j,k) + P_remindvm(i,j,k)) |
| 716 |
|
|
& - DOP_remin(i,j,k) |
| 717 |
|
|
|
| 718 |
|
|
c Oxygen: |
| 719 |
|
|
c Assuming constant O2:N ratio in terms of oxidant required per mol of organic N. |
| 720 |
|
|
c This implies a constant stoichiometry of C:N and H:N (where H is reduced, organic H). |
| 721 |
|
|
c Because the N provided by N2 fixation is reduced from N2, rather than NO3-, the |
| 722 |
|
|
c o2_2_n_fix is slightly less than the NO3- based ratio (by 1.25 mol O2/ mol N). |
| 723 |
|
|
c Account for the organic matter respired through benthic denitrification by |
| 724 |
|
|
c subtracting 5/4 times the benthic denitrification NO3 utilization rate from |
| 725 |
|
|
c the overall oxygen consumption. |
| 726 |
|
|
|
| 727 |
|
|
G_O2(i,j,k) = O2_prod(i,j,k) |
| 728 |
|
|
c If oxic |
| 729 |
|
|
IF (PTR_O2(i,j,k) .gt. oxic_min) THEN |
| 730 |
|
|
G_O2(i,j,k) = G_O2(i,j,k) |
| 731 |
|
|
& -O2toN * ((1. _d 0 - phi_DOM) * |
| 732 |
|
|
& (N_reminp(i,j,k) + N_remindvm(i,j,k)) |
| 733 |
|
|
& + DON_remin(i,j,k) + N_recycle(i,j,k)) |
| 734 |
|
|
c If anoxic but NO3 concentration is very low |
| 735 |
|
|
c (generate negative O2; proxy for HS-). |
| 736 |
|
|
ELSEIF (PTR_NO3(i,j,k) .lt. oxic_min) THEN |
| 737 |
|
|
G_O2(i,j,k) = G_O2(i,j,k) |
| 738 |
|
|
& -O2toN * ((1. _d 0 - phi_DOM) * |
| 739 |
|
|
& (N_reminp(i,j,k) + N_remindvm(i,j,k)) |
| 740 |
|
|
& + DON_remin(i,j,k) + N_recycle(i,j,k)) |
| 741 |
|
|
& + N_den_benthic(i,j,k) * 1.25 _d 0 |
| 742 |
|
|
ENDIF |
| 743 |
|
|
|
| 744 |
|
|
G_CaCO3(i,j,k) = CaCO3_diss(i,j,k) - CaCO3_uptake(i,j,k) |
| 745 |
|
|
cxx sediments not accounted for |
| 746 |
mmazloff |
1.1 |
|
| 747 |
|
|
ENDIF |
| 748 |
mmazloff |
1.2 |
|
| 749 |
mmazloff |
1.1 |
ENDDO |
| 750 |
|
|
ENDDO |
| 751 |
|
|
ENDDO |
| 752 |
|
|
|
| 753 |
mmazloff |
1.2 |
|
| 754 |
mmazloff |
1.1 |
c --------------------------------------------------------------------- |
| 755 |
|
|
|
| 756 |
|
|
#ifdef ALLOW_DIAGNOSTICS |
| 757 |
|
|
IF ( useDiagnostics ) THEN |
| 758 |
mmazloff |
1.2 |
|
| 759 |
|
|
c 3d global variables |
| 760 |
|
|
CALL DIAGNOSTICS_FILL(P_sm,'BLGPSM ',0,Nr,1,bi,bj,myThid) |
| 761 |
|
|
CALL DIAGNOSTICS_FILL(P_lg,'BLGPLG ',0,Nr,1,bi,bj,myThid) |
| 762 |
|
|
CALL DIAGNOSTICS_FILL(P_diaz,'BLGPDIA ',0,Nr,1,bi,bj,myThid) |
| 763 |
|
|
CALL DIAGNOSTICS_FILL(chl,'BLGCHL ',0,Nr,1,bi,bj,myThid) |
| 764 |
|
|
CALL DIAGNOSTICS_FILL(irr_mem,'BLGIMEM ',0,Nr,1,bi,bj,myThid) |
| 765 |
|
|
c 3d local variables |
| 766 |
|
|
CALL DIAGNOSTICS_FILL(irrk,'BLGIRRK ',0,Nr,2,bi,bj,myThid) |
| 767 |
|
|
CALL DIAGNOSTICS_FILL(irr_eff,'BLGIEFF ',0,Nr,2,bi,bj,myThid) |
| 768 |
|
|
CALL DIAGNOSTICS_FILL(Fe_lim,'BLGFELIM',0,Nr,2,bi,bj,myThid) |
| 769 |
|
|
CALL DIAGNOSTICS_FILL(NO3_lim,'BLGNLIM ',0,Nr,2,bi,bj,myThid) |
| 770 |
|
|
CALL DIAGNOSTICS_FILL(POC_flux,'BLGPOCF ',0,Nr,2,bi,bj,myThid) |
| 771 |
|
|
CALL DIAGNOSTICS_FILL(NPP,'BLGNPP ',0,Nr,2,bi,bj,myThid) |
| 772 |
|
|
CALL DIAGNOSTICS_FILL(NCP,'BLGNCP ',0,Nr,2,bi,bj,myThid) |
| 773 |
|
|
c CALL DIAGNOSTICS_FILL(Fe_ads_inorg,'BLGFEAI',0,Nr,2,bi,bj, |
| 774 |
|
|
c & myThid) |
| 775 |
|
|
c CALL DIAGNOSTICS_FILL(Fe_dvm,'BLGFEDVM',0,Nr,2,bi,bj,myThid) |
| 776 |
|
|
c CALL DIAGNOSTICS_FILL(Fe_sed,'BLGFESED',0,Nr,2,bi,bj,myThid) |
| 777 |
|
|
CALL DIAGNOSTICS_FILL(Fe_spm,'BLGFESPM',0,Nr,2,bi,bj,myThid) |
| 778 |
|
|
CALL DIAGNOSTICS_FILL(Fe_recycle,'BLGFEREC',0,Nr,2,bi,bj, |
| 779 |
|
|
& myThid) |
| 780 |
|
|
CALL DIAGNOSTICS_FILL(Fe_remindvm,'BLGFERD',0,Nr,2,bi,bj, |
| 781 |
|
|
& myThid) |
| 782 |
|
|
c CALL DIAGNOSTICS_FILL(Fe_reminp,'BLGFEREM',0,Nr,2,bi,bj,myThid) |
| 783 |
|
|
CALL DIAGNOSTICS_FILL(Fe_reminsum,'BLGFEREM',0,Nr,2,bi,bj, |
| 784 |
|
|
& myThid) |
| 785 |
|
|
CALL DIAGNOSTICS_FILL(Fe_uptake,'BLGFEUP ',0,Nr,2,bi,bj,myThid) |
| 786 |
|
|
CALL DIAGNOSTICS_FILL(N_den_benthic,'BLGNDENB',0,Nr,2,bi,bj, |
| 787 |
|
|
& myThid) |
| 788 |
|
|
CALL DIAGNOSTICS_FILL(N_den_pelag,'BLGNDENP',0,Nr,2,bi,bj, |
| 789 |
|
|
& myThid) |
| 790 |
|
|
CALL DIAGNOSTICS_FILL(N_dvm,'BLGNDVM ',0,Nr,2,bi,bj,myThid) |
| 791 |
|
|
CALL DIAGNOSTICS_FILL(N_fix,'BLGNFIX ',0,Nr,2,bi,bj,myThid) |
| 792 |
|
|
CALL DIAGNOSTICS_FILL(DON_prod,'BLGDONP ',0,Nr,2,bi,bj,myThid) |
| 793 |
|
|
CALL DIAGNOSTICS_FILL(N_spm,'BLGNSPM ',0,Nr,2,bi,bj,myThid) |
| 794 |
|
|
CALL DIAGNOSTICS_FILL(N_recycle,'BLGNREC ',0,Nr,2,bi,bj,myThid) |
| 795 |
|
|
CALL DIAGNOSTICS_FILL(N_remindvm,'BLGNRD ',0,Nr,2,bi,bj,myThid) |
| 796 |
|
|
CALL DIAGNOSTICS_FILL(N_reminp,'BLGNREM ',0,Nr,2,bi,bj,myThid) |
| 797 |
|
|
CALL DIAGNOSTICS_FILL(N_uptake,'BLGNUP ',0,Nr,2,bi,bj,myThid) |
| 798 |
|
|
CALL DIAGNOSTICS_FILL(P_dvm,'BLGPDVM ',0,Nr,2,bi,bj,myThid) |
| 799 |
|
|
CALL DIAGNOSTICS_FILL(DOP_prod,'BLGDOPP ',0,Nr,2,bi,bj,myThid) |
| 800 |
|
|
CALL DIAGNOSTICS_FILL(P_spm,'BLGPSPM ',0,Nr,2,bi,bj,myThid) |
| 801 |
|
|
CALL DIAGNOSTICS_FILL(P_recycle,'BLGPREC ',0,Nr,2,bi,bj,myThid) |
| 802 |
|
|
CALL DIAGNOSTICS_FILL(P_remindvm,'BLGPRD ',0,Nr,2,bi,bj,myThid) |
| 803 |
|
|
CALL DIAGNOSTICS_FILL(P_reminp,'BLGPREM ',0,Nr,2,bi,bj,myThid) |
| 804 |
|
|
CALL DIAGNOSTICS_FILL(P_uptake,'BLGPUP ',0,Nr,2,bi,bj,myThid) |
| 805 |
|
|
c CALL DIAGNOSTICS_FILL(dvm,'BLGDVM ',0,Nr,2,bi,bj,myThid) |
| 806 |
|
|
CALL DIAGNOSTICS_FILL(mu,'BLGMU ',0,Nr,2,bi,bj,myThid) |
| 807 |
|
|
CALL DIAGNOSTICS_FILL(mu_diaz,'BLGMUDIA',0,Nr,2,bi,bj,myThid) |
| 808 |
|
|
c 2d local variables |
| 809 |
|
|
c CALL DIAGNOSTICS_FILL(Fe_burial,'BLGFEBUR',0,1,2,bi,bj,myThid) |
| 810 |
|
|
c CALL DIAGNOSTICS_FILL(NO3_sed,'BLGNSED ',0,1,2,bi,bj,myThid) |
| 811 |
|
|
c CALL DIAGNOSTICS_FILL(PO4_sed,'BLGPSED ',0,1,2,bi,bj,myThid) |
| 812 |
|
|
c CALL DIAGNOSTICS_FILL(O2_sed,'BLGO2SED',0,1,2,bi,bj,myThid) |
| 813 |
|
|
c these variables are currently 1d, could be 3d for diagnostics |
| 814 |
|
|
c (or diag_fill could be called inside loop - which is faster?) |
| 815 |
|
|
c CALL DIAGNOSTICS_FILL(frac_exp,'BLGFEXP ',0,Nr,2,bi,bj,myThid) |
| 816 |
|
|
c CALL DIAGNOSTICS_FILL(irr_mix,'BLGIRRM ',0,Nr,2,bi,bj,myThid) |
| 817 |
|
|
c CALL DIAGNOSTICS_FILL(irrk,'BLGIRRK ',0,Nr,2,bi,bj,myThid) |
| 818 |
|
|
c CALL DIAGNOSTICS_FILL(kFe_eq_lig,'BLGPUP ',0,Nr,2,bi,bj,myThid) |
| 819 |
|
|
c CALL DIAGNOSTICS_FILL(mu,'BLGMU ',0,Nr,2,bi,bj,myThid) |
| 820 |
|
|
c CALL DIAGNOSTICS_FILL(mu_diaz,'BLGMUDIA',0,Nr,2,bi,bj,myThid) |
| 821 |
|
|
c CALL DIAGNOSTICS_FILL(PtoN,'BLGP2N ',0,Nr,2,bi,bj,myThid) |
| 822 |
|
|
c CALL DIAGNOSTICS_FILL(FetoN,'BLGFE2N ',0,Nr,2,bi,bj,myThid) |
| 823 |
|
|
c CALL DIAGNOSTICS_FILL(Pc_m,'BLGPCM ',0,Nr,2,bi,bj,myThid) |
| 824 |
|
|
c CALL DIAGNOSTICS_FILL(Pc_m_diaz,'BLGPCMD',0,Nr,2,bi,bj,myThid) |
| 825 |
|
|
c CALL DIAGNOSTICS_FILL(theta_Fe,'BLGTHETA',0,Nr,2,bi,bj,myThid) |
| 826 |
|
|
c CALL DIAGNOSTICS_FILL(theta_Fe_max,'BLGTHETM',0,Nr,2,bi,bj,myThid) |
| 827 |
|
|
c CALL DIAGNOSTICS_FILL(wsink,'BLGWSINK',0,Nr,2,bi,bj,myThid) |
| 828 |
|
|
c CALL DIAGNOSTICS_FILL(zremin,'BLGZREM ',0,Nr,2,bi,bj,myThid) |
| 829 |
|
|
c CALL DIAGNOSTICS_FILL(z_dvm,'BLGZDVM ',0,Nr,2,bi,bj,myThid) |
| 830 |
|
|
|
| 831 |
mmazloff |
1.1 |
ENDIF |
| 832 |
|
|
#endif /* ALLOW_DIAGNOSTICS */ |
| 833 |
|
|
|
| 834 |
|
|
#endif /* ALLOW_BLING */ |
| 835 |
|
|
|
| 836 |
|
|
RETURN |
| 837 |
mmazloff |
1.2 |
|
| 838 |
mmazloff |
1.1 |
END |
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