| 1 |
mmazloff |
1.2 |
C $Header: $ |
| 2 |
|
|
C $Name: $ |
| 3 |
|
|
|
| 4 |
|
|
#include "BLING_OPTIONS.h" |
| 5 |
|
|
|
| 6 |
|
|
CBOP |
| 7 |
|
|
subroutine BLING_REMIN( |
| 8 |
|
|
I PTR_NO3, PTR_FE, PTR_O2, irr_inst, |
| 9 |
|
|
I N_spm, P_spm, Fe_spm, CaCO3_uptake, |
| 10 |
|
|
O N_reminp, P_reminp, Fe_reminsum, |
| 11 |
|
|
O N_den_benthic, CaCO3_diss, |
| 12 |
|
|
I bi, bj, imin, imax, jmin, jmax, |
| 13 |
|
|
I myIter, myTime, myThid ) |
| 14 |
|
|
|
| 15 |
|
|
C ================================================================= |
| 16 |
|
|
C | subroutine bling_remin |
| 17 |
|
|
C | o Organic matter export and remineralization |
| 18 |
|
|
C | - Sinking particulate flux and diel migration contribute to |
| 19 |
|
|
C | export. |
| 20 |
|
|
C | - Denitrification xxx |
| 21 |
|
|
C | o Sediments |
| 22 |
|
|
C ================================================================= |
| 23 |
|
|
|
| 24 |
|
|
implicit none |
| 25 |
|
|
|
| 26 |
|
|
C === Global variables === |
| 27 |
|
|
|
| 28 |
|
|
#include "SIZE.h" |
| 29 |
|
|
#include "DYNVARS.h" |
| 30 |
|
|
#include "EEPARAMS.h" |
| 31 |
|
|
#include "PARAMS.h" |
| 32 |
|
|
#include "GRID.h" |
| 33 |
|
|
#include "BLING_VARS.h" |
| 34 |
|
|
#include "PTRACERS_SIZE.h" |
| 35 |
|
|
#include "PTRACERS_PARAMS.h" |
| 36 |
|
|
#ifdef ALLOW_AUTODIFF |
| 37 |
|
|
# include "tamc.h" |
| 38 |
|
|
#endif |
| 39 |
|
|
|
| 40 |
|
|
C === Routine arguments === |
| 41 |
|
|
C bi,bj :: tile indices |
| 42 |
|
|
C iMin,iMax :: computation domain: 1rst index range |
| 43 |
|
|
C jMin,jMax :: computation domain: 2nd index range |
| 44 |
|
|
C myTime :: current time |
| 45 |
|
|
C myIter :: current timestep |
| 46 |
|
|
C myThid :: thread Id. number |
| 47 |
|
|
INTEGER bi, bj, imin, imax, jmin, jmax |
| 48 |
|
|
_RL myTime |
| 49 |
|
|
INTEGER myIter |
| 50 |
|
|
INTEGER myThid |
| 51 |
|
|
C === Input === |
| 52 |
|
|
C PTR_NO3 :: nitrate concentration |
| 53 |
|
|
C PTR_FE :: iron concentration |
| 54 |
|
|
C PTR_O2 :: oxygen concentration |
| 55 |
|
|
_RL PTR_NO3(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 56 |
|
|
_RL PTR_FE(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 57 |
|
|
_RL PTR_O2(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 58 |
|
|
_RL irr_inst(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 59 |
|
|
_RL N_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 60 |
|
|
_RL P_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 61 |
|
|
_RL Fe_spm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 62 |
|
|
_RL CaCO3_uptake(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 63 |
|
|
C === Output === |
| 64 |
|
|
C |
| 65 |
|
|
_RL N_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 66 |
|
|
_RL N_den_benthic(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 67 |
|
|
_RL P_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 68 |
|
|
_RL Fe_reminsum(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 69 |
|
|
_RL CaCO3_diss(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 70 |
|
|
|
| 71 |
|
|
#ifdef ALLOW_BLING |
| 72 |
|
|
C === Local variables === |
| 73 |
|
|
C i,j,k :: loop indices |
| 74 |
|
|
C irr_eff :: effective irradiance |
| 75 |
|
|
C NO3_lim :: nitrate limitation |
| 76 |
|
|
C PO4_lim :: phosphate limitation |
| 77 |
|
|
C Fe_lim :: iron limitation for phytoplankton |
| 78 |
|
|
C Fe_lim_diaz :: iron limitation for diazotrophs |
| 79 |
|
|
C alpha_Fe :: initial slope of the P-I curve |
| 80 |
|
|
C theta_Fe :: Chl:C ratio |
| 81 |
|
|
C theta_Fe_max :: Fe-replete maximum Chl:C ratio |
| 82 |
|
|
C irrk :: nut-limited efficiency of algal photosystems |
| 83 |
|
|
C Pc_m :: light-saturated max photosynthesis rate for phyt |
| 84 |
|
|
C Pc_m_diaz :: light-saturated max photosynthesis rate for diaz |
| 85 |
|
|
C Pc_tot :: carbon-specific photosynthesis rate |
| 86 |
|
|
C expkT :: temperature function |
| 87 |
|
|
C mu :: net carbon-specific growth rate for phyt |
| 88 |
|
|
C mu_diaz :: net carbon-specific growth rate for diaz |
| 89 |
|
|
C biomass_sm :: nitrogen concentration in small phyto biomass |
| 90 |
|
|
C biomass_lg :: nitrogen concentration in large phyto biomass |
| 91 |
|
|
C N_uptake :: nitrogen uptake |
| 92 |
|
|
C N_fix :: nitrogen fixation |
| 93 |
|
|
C P_uptake :: phosphorus uptake |
| 94 |
|
|
C POC_flux :: carbon export flux 3d field |
| 95 |
|
|
C chl :: chlorophyll diagnostic |
| 96 |
|
|
C PtoN :: variable ratio of phosphorus to nitrogen |
| 97 |
|
|
C FetoN :: variable ratio of iron to nitrogen |
| 98 |
|
|
C N_spm :: particulate sinking of nitrogen |
| 99 |
|
|
C P_spm :: particulate sinking of phosphorus |
| 100 |
|
|
C Fe_spm :: particulate sinking of iron |
| 101 |
|
|
C N_dvm :: vertical transport of nitrogen by DVM |
| 102 |
|
|
C P_dvm :: vertical transport of phosphorus by DVM |
| 103 |
|
|
C Fe_dvm :: vertical transport of iron by DVM |
| 104 |
|
|
C N_recycle :: recycling of newly-produced organic nitrogen |
| 105 |
|
|
C P_recycle :: recycling of newly-produced organic phosphorus |
| 106 |
|
|
C Fe_recycle :: recycling of newly-produced organic iron |
| 107 |
|
|
c xxx to be completed |
| 108 |
|
|
INTEGER i,j,k |
| 109 |
|
|
_RL PONflux_u |
| 110 |
|
|
_RL POPflux_u |
| 111 |
|
|
_RL PFEflux_u |
| 112 |
|
|
_RL CaCO3flux_u |
| 113 |
|
|
_RL PONflux_l |
| 114 |
|
|
_RL POPflux_l |
| 115 |
|
|
_RL PFEflux_l |
| 116 |
|
|
_RL CaCO3flux_l |
| 117 |
|
|
_RL depth_l |
| 118 |
|
|
_RL zremin |
| 119 |
|
|
_RL zremin_caco3 |
| 120 |
|
|
_RL wsink |
| 121 |
|
|
_RL POC_sed |
| 122 |
|
|
_RL Fe_sed(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 123 |
|
|
_RL NO3_sed(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
| 124 |
|
|
_RL PO4_sed(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
| 125 |
|
|
_RL O2_sed(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
| 126 |
|
|
_RL lig_stability |
| 127 |
|
|
_RL FreeFe |
| 128 |
|
|
_RL Fe_ads_inorg(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 129 |
|
|
_RL Fe_ads_org(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 130 |
|
|
_RL log_btm_flx |
| 131 |
|
|
_RL Fe_reminp(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 132 |
|
|
_RL o2_upper |
| 133 |
|
|
_RL o2_lower |
| 134 |
|
|
_RL dz_upper |
| 135 |
|
|
_RL dz_lower |
| 136 |
|
|
_RL temp_upper |
| 137 |
|
|
_RL temp_lower |
| 138 |
|
|
_RL z_dvm_regr |
| 139 |
|
|
_RL frac_migr |
| 140 |
|
|
_RL fdvm_migr |
| 141 |
|
|
_RL fdvm_stat |
| 142 |
|
|
_RL fdvmn_vint |
| 143 |
|
|
_RL fdvmp_vint |
| 144 |
|
|
_RL fdvmfe_vint |
| 145 |
|
|
_RL z_dvm |
| 146 |
|
|
_RL N_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 147 |
|
|
_RL P_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 148 |
|
|
_RL Fe_remindvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 149 |
|
|
_RL dvm(1-OLx:sNx+OLx,1-OLy:sNy+OLy,Nr) |
| 150 |
|
|
_RL mld(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
| 151 |
|
|
_RL Fe_burial(1-OLx:sNx+OLx,1-OLy:sNy+OLy) |
| 152 |
|
|
_RL x_erfcc,z_erfcc,t_erfcc,erfcc |
| 153 |
|
|
cxx order |
| 154 |
|
|
CEOP |
| 155 |
|
|
|
| 156 |
|
|
c --------------------------------------------------------------------- |
| 157 |
|
|
c Initialize output and diagnostics |
| 158 |
|
|
DO k=1,Nr |
| 159 |
|
|
DO j=jmin,jmax |
| 160 |
|
|
DO i=imin,imax |
| 161 |
|
|
Fe_ads_org(i,j,k) = 0. _d 0 |
| 162 |
|
|
Fe_ads_inorg(i,j,k) = 0. _d 0 |
| 163 |
|
|
N_reminp(i,j,k) = 0. _d 0 |
| 164 |
|
|
P_reminp(i,j,k) = 0. _d 0 |
| 165 |
|
|
Fe_reminp(i,j,k) = 0. _d 0 |
| 166 |
|
|
Fe_reminsum(i,j,k) = 0. _d 0 |
| 167 |
|
|
N_remindvm(i,j,k) = 0. _d 0 |
| 168 |
|
|
P_remindvm(i,j,k) = 0. _d 0 |
| 169 |
|
|
Fe_remindvm(i,j,k) = 0. _d 0 |
| 170 |
|
|
N_den_benthic(i,j,k)= 0. _d 0 |
| 171 |
|
|
CaCO3_diss(i,j,k) = 0. _d 0 |
| 172 |
|
|
ENDDO |
| 173 |
|
|
ENDDO |
| 174 |
|
|
ENDDO |
| 175 |
|
|
DO j=jmin,jmax |
| 176 |
|
|
DO i=imin,imax |
| 177 |
|
|
Fe_burial(i,j) = 0. _d 0 |
| 178 |
|
|
NO3_sed(i,j) = 0. _d 0 |
| 179 |
|
|
PO4_sed(i,j) = 0. _d 0 |
| 180 |
|
|
O2_sed(i,j) = 0. _d 0 |
| 181 |
|
|
ENDDO |
| 182 |
|
|
ENDDO |
| 183 |
|
|
|
| 184 |
|
|
c --------------------------------------------------------------------- |
| 185 |
|
|
c Remineralization |
| 186 |
|
|
|
| 187 |
|
|
CADJ STORE Fe_ads_org = comlev1, key = ikey_dynamics |
| 188 |
|
|
cxx needed? |
| 189 |
|
|
|
| 190 |
|
|
C$TAF LOOP = parallel |
| 191 |
|
|
DO j=jmin,jmax |
| 192 |
|
|
C$TAF LOOP = parallel |
| 193 |
|
|
DO i=imin,imax |
| 194 |
|
|
cmm C$TAF init upper_flux = static, Nr |
| 195 |
|
|
|
| 196 |
|
|
C Initialize upper flux |
| 197 |
|
|
PONflux_u = 0. _d 0 |
| 198 |
|
|
POPflux_u = 0. _d 0 |
| 199 |
|
|
PFEflux_u = 0. _d 0 |
| 200 |
|
|
CaCO3flux_u = 0. _d 0 |
| 201 |
|
|
|
| 202 |
|
|
DO k=1,Nr |
| 203 |
|
|
c C$TAF STORE PONflux_u = upper_flux |
| 204 |
|
|
c C$TAF STORE POPflux_u = upper_flux |
| 205 |
|
|
c C$TAF STORE PFEflux_u = upper_flux |
| 206 |
|
|
c C$TAF STORE CaCO3flux_u = upper_flux |
| 207 |
|
|
CADJ STORE PONflux_u, POPflux_u, PFEflux_u, CaCO3flux_u = |
| 208 |
|
|
CADJ & comlev1, key = ikey_dynamics, kind = isbyte |
| 209 |
|
|
CADJ STORE Fe_ads_org = |
| 210 |
|
|
CADJ & comlev1, key = ikey_dynamics, kind = isbyte |
| 211 |
|
|
CMM) |
| 212 |
|
|
|
| 213 |
|
|
IF ( hFacC(i,j,k,bi,bj).gt.0. _d 0 ) THEN |
| 214 |
|
|
|
| 215 |
|
|
C Sinking speed is evaluated at the bottom of the cell |
| 216 |
|
|
depth_l=-rF(k+1) |
| 217 |
|
|
IF (depth_l .LE. wsink0z) THEN |
| 218 |
|
|
wsink = wsink0 |
| 219 |
|
|
ELSE |
| 220 |
|
|
wsink = wsinkacc * (depth_l - wsink0z) + wsink0 |
| 221 |
|
|
ENDIF |
| 222 |
|
|
|
| 223 |
|
|
C Nutrient remineralization lengthscale |
| 224 |
|
|
C Not an e-folding scale: this term increases with remineralization. |
| 225 |
|
|
zremin = gamma_POM * ( PTR_O2(i,j,k)**2 / |
| 226 |
|
|
& (k_O2**2 + PTR_O2(i,j,k)**2) * (1-remin_min) |
| 227 |
|
|
& + remin_min )/(wsink + epsln) |
| 228 |
|
|
|
| 229 |
|
|
C Calcium remineralization relaxed toward the inverse of the |
| 230 |
|
|
C ca_remin_depth constant value as the calcite saturation approaches 0. |
| 231 |
|
|
zremin_caco3 = 1. _d 0/ca_remin_depth*(1. _d 0 - min(1. _d 0, |
| 232 |
|
|
& omegaC(i,j,k,bi,bj) + epsln )) |
| 233 |
|
|
|
| 234 |
|
|
|
| 235 |
|
|
C POM flux leaving the cell |
| 236 |
|
|
PONflux_l = (PONflux_u+N_spm(i,j,k)*drF(k) |
| 237 |
|
|
& *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) |
| 238 |
|
|
& *hFacC(i,j,k,bi,bj)) |
| 239 |
|
|
C!! multiply by intercept_frac ??? |
| 240 |
|
|
|
| 241 |
|
|
POPflux_l = (POPflux_u+P_spm(i,j,k)*drF(k) |
| 242 |
|
|
& *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) |
| 243 |
|
|
& *hFacC(i,j,k,bi,bj)) |
| 244 |
|
|
C!! multiply by intercept_frac ??? |
| 245 |
|
|
|
| 246 |
|
|
C CaCO3 flux leaving the cell |
| 247 |
|
|
CaCO3flux_l = (caco3flux_u+CaCO3_uptake(i,j,k)*drF(k) |
| 248 |
|
|
& *hFacC(i,j,k,bi,bj))/(1+zremin_caco3*drF(k) |
| 249 |
|
|
& *hFacC(i,j,k,bi,bj)) |
| 250 |
|
|
C!! multiply by intercept_frac ??? |
| 251 |
|
|
|
| 252 |
|
|
|
| 253 |
|
|
C Start with cells that are not the deepest cells |
| 254 |
|
|
IF ((k.LT.Nr) .AND. (hFacC(i,j,k+1,bi,bj).GT.0)) THEN |
| 255 |
|
|
|
| 256 |
|
|
C Nutrient accumulation in a cell is given by the biological production |
| 257 |
|
|
C (and instant remineralization) of particulate organic matter |
| 258 |
|
|
C plus flux thought upper interface minus flux through lower interface. |
| 259 |
|
|
C (Since not deepest cell: hFacC=1) |
| 260 |
|
|
N_reminp(i,j,k) = (PONflux_u + N_spm(i,j,k)*drF(k) |
| 261 |
|
|
& - PONflux_l)*recip_drF(k) |
| 262 |
|
|
|
| 263 |
|
|
P_reminp(i,j,k) = (POPflux_u + P_spm(i,j,k)*drF(k) |
| 264 |
|
|
& - POPflux_l)*recip_drF(k) |
| 265 |
|
|
|
| 266 |
|
|
CaCO3_diss(i,j,k) = (CaCO3flux_u + CaCO3_uptake(i,j,k) |
| 267 |
|
|
& *drF(k) - CaCO3flux_l)*recip_drF(k) |
| 268 |
|
|
|
| 269 |
|
|
Fe_sed(i,j,k) = 0. _d 0 |
| 270 |
|
|
|
| 271 |
|
|
|
| 272 |
|
|
ELSE |
| 273 |
|
|
C If this layer is adjacent to bottom topography or it is the deepest |
| 274 |
|
|
C cell of the domain, then remineralize/dissolve in this grid cell |
| 275 |
|
|
C i.e. don't subtract off lower boundary fluxes when calculating remin |
| 276 |
|
|
|
| 277 |
|
|
N_reminp(i,j,k) = PONflux_u*recip_drF(k) |
| 278 |
|
|
& *recip_hFacC(i,j,k,bi,bj) + N_spm(i,j,k) |
| 279 |
|
|
|
| 280 |
|
|
P_reminp(i,j,k) = POPflux_u*recip_drF(k) |
| 281 |
|
|
& *recip_hFacC(i,j,k,bi,bj) + P_spm(i,j,k) |
| 282 |
|
|
|
| 283 |
|
|
CaCO3_diss(i,j,k) = CaCO3flux_u*recip_drF(k) |
| 284 |
|
|
& *recip_hFacC(i,j,k,bi,bj) + CaCO3_uptake(i,j,k) |
| 285 |
|
|
|
| 286 |
|
|
|
| 287 |
|
|
c Efflux Fed out of sediments |
| 288 |
|
|
C The phosphate flux hitting the bottom boundary |
| 289 |
|
|
C is used to scale the return of iron to the water column. |
| 290 |
|
|
C Maximum value added for numerical stability. |
| 291 |
|
|
|
| 292 |
|
|
POC_sed = PONflux_l * CtoN |
| 293 |
|
|
|
| 294 |
|
|
Fe_sed(i,j,k) = min(1. _d -11, |
| 295 |
|
|
& max(epsln, FetoC_sed * POC_sed * recip_drF(k) |
| 296 |
|
|
& *recip_hFacC(i,j,k,bi,bj))) |
| 297 |
|
|
|
| 298 |
|
|
#ifdef BLING_ADJOINT_SAFE |
| 299 |
|
|
Fe_sed(i,j,k) = 0. _d 0 |
| 300 |
|
|
#endif |
| 301 |
|
|
|
| 302 |
|
|
|
| 303 |
|
|
cav temporary until I figure out why this is problematic for adjoint |
| 304 |
|
|
#ifndef BLING_ADJOINT_SAFE |
| 305 |
|
|
|
| 306 |
|
|
#ifndef USE_SGS_SED |
| 307 |
|
|
c Calculate benthic denitrification and Fe efflux here, if the subgridscale sediment module is not being used. |
| 308 |
|
|
|
| 309 |
|
|
IF (POC_sed .gt. 0. _d 0) THEN |
| 310 |
|
|
|
| 311 |
|
|
log_btm_flx = 0. _d 0 |
| 312 |
|
|
|
| 313 |
|
|
c Convert from mol N m-2 s-1 to umol C cm-2 d-1 and take the log |
| 314 |
|
|
|
| 315 |
|
|
log_btm_flx = log10(min(43.0 _d 0, POC_sed * |
| 316 |
|
|
& 86400. _d 0 * 100.0 _d 0)) |
| 317 |
|
|
|
| 318 |
|
|
c Metamodel gives units of umol C cm-2 d-1, convert to mol N m-2 s-1 and multiply by |
| 319 |
|
|
c no3_2_n to give NO3 consumption rate |
| 320 |
|
|
|
| 321 |
|
|
N_den_benthic(i,j,k) = min (POC_sed * NO3toN / CtoN, |
| 322 |
|
|
& (10 _d 0)**(-0.9543 _d 0 + 0.7662 _d 0 * |
| 323 |
|
|
& log_btm_flx - 0.235 _d 0 * log_btm_flx * log_btm_flx) |
| 324 |
|
|
& / (CtoN * 86400. _d 0 * 100.0 _d 0) * NO3toN * |
| 325 |
|
|
& PTR_NO3(i,j,k) / (k_no3 + PTR_NO3(i,j,k)) ) * |
| 326 |
|
|
& recip_drF(k) |
| 327 |
|
|
|
| 328 |
|
|
endif |
| 329 |
|
|
|
| 330 |
|
|
#endif |
| 331 |
|
|
|
| 332 |
|
|
#endif |
| 333 |
|
|
|
| 334 |
|
|
c --------------------------------------------------------------------- |
| 335 |
|
|
c Calculate external bottom fluxes for tracer_vertdiff. Positive fluxes are into the water |
| 336 |
|
|
c column from the seafloor. For P, the bottom flux puts the sinking flux reaching the bottom |
| 337 |
|
|
c cell into the water column through diffusion. For iron, the sinking flux disappears into the |
| 338 |
|
|
c sediments if bottom waters are oxic (assumed adsorbed as oxides). If bottom waters are anoxic, |
| 339 |
|
|
c the sinking flux of Fe is returned to the water column. |
| 340 |
|
|
c |
| 341 |
|
|
c For oxygen, the consumption of oxidant required to respire |
| 342 |
|
|
c the settling flux of organic matter (in support of the |
| 343 |
|
|
c no3 bottom flux) diffuses from the bottom water into the sediment. |
| 344 |
|
|
|
| 345 |
|
|
c Assume all NO3 for benthic denitrification is supplied from the bottom water, and that |
| 346 |
|
|
c all organic N is also consumed under denitrification (Complete Denitrification, sensu |
| 347 |
|
|
c Paulmier, Biogeosciences 2009). Therefore, no NO3 is regenerated from organic matter |
| 348 |
|
|
c respired by benthic denitrification (necessitating the second term in b_no3). |
| 349 |
|
|
|
| 350 |
|
|
NO3_sed(i,j) = PONflux_l*drF(k)*hFacC(i,j,k,bi,bj) |
| 351 |
|
|
& - N_den_benthic(i,j,k) / NO3toN |
| 352 |
|
|
|
| 353 |
|
|
PO4_sed(i,j) = POPflux_l*drF(k)*hFacC(i,j,k,bi,bj) |
| 354 |
|
|
|
| 355 |
|
|
c Oxygen flux into sediments is that required to support non-denitrification respiration, |
| 356 |
|
|
c assuming a 4/5 oxidant ratio of O2 to NO3. Oxygen consumption is allowed to continue |
| 357 |
|
|
c at negative oxygen concentrations, representing sulphate reduction. |
| 358 |
|
|
|
| 359 |
|
|
O2_sed(i,j) = -(O2toN * PONflux_l*drF(k)*hFacC(i,j,k,bi,bj) |
| 360 |
|
|
& - N_den_benthic(i,j,k)* 1.25) |
| 361 |
|
|
|
| 362 |
|
|
ENDIF |
| 363 |
|
|
|
| 364 |
|
|
|
| 365 |
|
|
C Begin iron uptake calculations by determining ligand bound and free iron. |
| 366 |
|
|
C Both forms are available for biology, but only free iron is scavenged |
| 367 |
|
|
C onto particles and forms colloids. |
| 368 |
|
|
|
| 369 |
|
|
lig_stability = kFe_eq_lig_max-(KFe_eq_lig_max-kFe_eq_lig_min) |
| 370 |
|
|
& *(irr_inst(i,j,k)**2 |
| 371 |
|
|
& /(kFe_eq_lig_irr**2+irr_inst(i,j,k)**2)) |
| 372 |
|
|
& *max(epsln,min(1. _d 0,(PTR_FE(i,j,k) |
| 373 |
|
|
& -kFe_eq_lig_Femin)/ |
| 374 |
|
|
& (PTR_FE(i,j,k)+epsln)*1.2 _d 0)) |
| 375 |
|
|
|
| 376 |
|
|
C Use the quadratic equation to solve for binding between iron and ligands |
| 377 |
|
|
|
| 378 |
|
|
FreeFe = (-(1+lig_stability*(ligand-PTR_FE(i,j,k))) |
| 379 |
|
|
& +((1+lig_stability*(ligand-PTR_FE(i,j,k)))**2+4* |
| 380 |
|
|
& lig_stability*PTR_FE(i,j,k))**(0.5))/(2* |
| 381 |
|
|
& lig_stability) |
| 382 |
|
|
|
| 383 |
|
|
C Iron scavenging doesn't occur in anoxic water (Fe2+ is soluble), so set |
| 384 |
|
|
C FreeFe = 0 when anoxic. FreeFe should be interpreted the free iron that |
| 385 |
|
|
C participates in scavenging. |
| 386 |
|
|
|
| 387 |
|
|
#ifndef BLING_ADJOINT_SAFE |
| 388 |
|
|
IF (PTR_O2(i,j,k) .LT. oxic_min) THEN |
| 389 |
|
|
FreeFe = 0. _d 0 |
| 390 |
|
|
ENDIF |
| 391 |
|
|
#endif |
| 392 |
|
|
|
| 393 |
|
|
c Two mechanisms for iron uptake, in addition to biological production: |
| 394 |
|
|
c colloidal scavenging and scavenging by organic matter. |
| 395 |
|
|
|
| 396 |
|
|
c Colloidal scavenging: |
| 397 |
|
|
c Minimum function for numerical stability |
| 398 |
|
|
c Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
| 399 |
|
|
c & min(0.5/PTRACERS_dTLev(1), kFe_inorg*FreeFe**(0.5))*FreeFe |
| 400 |
|
|
|
| 401 |
|
|
Fe_ads_inorg(i,j,k) = |
| 402 |
|
|
& kFe_inorg*(max(1. _d -8,FreeFe))**(1.5) |
| 403 |
|
|
|
| 404 |
|
|
C Scavenging of iron by organic matter: |
| 405 |
|
|
c The POM value used is the bottom boundary flux. This doesn't occur in |
| 406 |
|
|
c oxic waters, but FreeFe is set to 0 in such waters earlier. |
| 407 |
|
|
IF ( PONflux_l .GT. 0. _d 0 ) THEN |
| 408 |
|
|
|
| 409 |
|
|
c Minimum function for numerical stability |
| 410 |
|
|
c Fe_uptake(i,j,k) = Fe_uptake(i,j,k)+ |
| 411 |
|
|
c & min(0.5/PTRACERS_dTLev(1), kFE_org*(POMflux_l |
| 412 |
|
|
c & *CtoP/NUTfac*12.01/wsink)**(0.58)*FreeFe |
| 413 |
|
|
|
| 414 |
|
|
#ifndef BLING_ADJOINT_SAFE |
| 415 |
|
|
Fe_ads_org(i,j,k) = |
| 416 |
|
|
& kFE_org*(PONflux_l/(epsln + wsink) |
| 417 |
|
|
& * MasstoN)**(0.58)*FreeFe |
| 418 |
|
|
#else |
| 419 |
|
|
Fe_ads_org(i,j,k) = |
| 420 |
|
|
& kFE_org*(PONflux_l/(epsln + wsink0) |
| 421 |
|
|
& * MasstoN)**(0.58)*FreeFe |
| 422 |
|
|
#endif |
| 423 |
|
|
ENDIF |
| 424 |
|
|
|
| 425 |
|
|
|
| 426 |
|
|
|
| 427 |
|
|
C If water is oxic then the iron is remineralized normally. Otherwise |
| 428 |
|
|
C it is completely remineralized (fe 2+ is soluble, but unstable |
| 429 |
|
|
C in oxidizing environments). |
| 430 |
|
|
|
| 431 |
|
|
PFEflux_l = (PFEflux_u+(Fe_spm(i,j,k)+Fe_ads_inorg(i,j,k) |
| 432 |
|
|
& +Fe_ads_org(i,j,k))*drF(k) |
| 433 |
|
|
& *hFacC(i,j,k,bi,bj))/(1+zremin*drF(k) |
| 434 |
|
|
& *hFacC(i,j,k,bi,bj)) |
| 435 |
|
|
|
| 436 |
|
|
|
| 437 |
|
|
c Added the burial flux of sinking particulate iron here as a |
| 438 |
|
|
c diagnostic, needed to calculate mass balance of iron. |
| 439 |
|
|
c this is calculated last for the deepest cell |
| 440 |
|
|
|
| 441 |
|
|
Fe_burial(i,j) = PFeflux_l |
| 442 |
|
|
|
| 443 |
|
|
|
| 444 |
|
|
#ifndef BLING_ADJOINT_SAFE |
| 445 |
|
|
IF ( PTR_O2(i,j,k) .LT. oxic_min ) THEN |
| 446 |
|
|
pfeflux_l = 0 |
| 447 |
|
|
ENDIF |
| 448 |
|
|
#endif |
| 449 |
|
|
|
| 450 |
|
|
Fe_reminp(i,j,k) = (pfeflux_u+(Fe_spm(i,j,k) |
| 451 |
|
|
& +Fe_ads_inorg(i,j,k) |
| 452 |
|
|
& +Fe_ads_org(i,j,k))*drF(k) |
| 453 |
|
|
& *hFacC(i,j,k,bi,bj)-pfeflux_l)*recip_drF(k) |
| 454 |
|
|
& *recip_hFacC(i,j,k,bi,bj) |
| 455 |
|
|
C!! there's an intercept_frac here... need to add |
| 456 |
|
|
|
| 457 |
|
|
|
| 458 |
|
|
C Prepare the tracers for the next layer down |
| 459 |
|
|
PONflux_u = PONflux_l |
| 460 |
|
|
POPflux_u = POPflux_l |
| 461 |
|
|
PFEflux_u = PFEflux_l |
| 462 |
|
|
CaCO3flux_u = CaCO3flux_l |
| 463 |
|
|
|
| 464 |
|
|
c |
| 465 |
|
|
Fe_reminsum(i,j,k) = Fe_reminp(i,j,k) + Fe_sed(i,j,k) |
| 466 |
|
|
& - Fe_ads_org(i,j,k) - Fe_ads_inorg(i,j,k) |
| 467 |
|
|
cc Fe_reminsum(i,j,k) = 0. _d 0 |
| 468 |
|
|
|
| 469 |
|
|
ENDIF |
| 470 |
|
|
|
| 471 |
|
|
ENDDO |
| 472 |
|
|
ENDDO |
| 473 |
|
|
ENDDO |
| 474 |
|
|
|
| 475 |
|
|
CADJ STORE Fe_ads_org = comlev1, key = ikey_dynamics |
| 476 |
|
|
cxx needed? |
| 477 |
|
|
|
| 478 |
|
|
|
| 479 |
|
|
c --------------------------------------------------------------------- |
| 480 |
|
|
|
| 481 |
|
|
#ifdef ALLOW_DIAGNOSTICS |
| 482 |
|
|
IF ( useDiagnostics ) THEN |
| 483 |
|
|
|
| 484 |
|
|
c 3d local variables |
| 485 |
|
|
c CALL DIAGNOSTICS_FILL(POC_flux,'BLGPOCF ',0,Nr,2,bi,bj,myThid) |
| 486 |
|
|
CALL DIAGNOSTICS_FILL(Fe_ads_inorg,'BLGFEAI',0,Nr,2,bi,bj, |
| 487 |
|
|
& myThid) |
| 488 |
|
|
CALL DIAGNOSTICS_FILL(Fe_sed,'BLGFESED',0,Nr,2,bi,bj,myThid) |
| 489 |
|
|
CALL DIAGNOSTICS_FILL(Fe_reminp,'BLGFEREM',0,Nr,2,bi,bj,myThid) |
| 490 |
|
|
CALL DIAGNOSTICS_FILL(N_den_benthic,'BLGNDENB',0,Nr,2,bi,bj, |
| 491 |
|
|
& myThid) |
| 492 |
|
|
c CALL DIAGNOSTICS_FILL(N_den_pelag,'BLGNDENP',0,Nr,2,bi,bj,myThid) |
| 493 |
|
|
CALL DIAGNOSTICS_FILL(N_reminp,'BLGNREM ',0,Nr,2,bi,bj,myThid) |
| 494 |
|
|
CALL DIAGNOSTICS_FILL(P_reminp,'BLGPREM ',0,Nr,2,bi,bj,myThid) |
| 495 |
|
|
c 2d local variables |
| 496 |
|
|
CALL DIAGNOSTICS_FILL(Fe_burial,'BLGFEBUR',0,1,2,bi,bj,myThid) |
| 497 |
|
|
CALL DIAGNOSTICS_FILL(NO3_sed,'BLGNSED ',0,1,2,bi,bj,myThid) |
| 498 |
|
|
CALL DIAGNOSTICS_FILL(PO4_sed,'BLGPSED ',0,1,2,bi,bj,myThid) |
| 499 |
|
|
CALL DIAGNOSTICS_FILL(O2_sed,'BLGO2SED',0,1,2,bi,bj,myThid) |
| 500 |
|
|
c these variables are currently 1d, could be 3d for diagnostics |
| 501 |
|
|
c (or diag_fill could be called inside loop - which is faster?) |
| 502 |
|
|
c CALL DIAGNOSTICS_FILL(zremin,'BLGZREM ',0,Nr,2,bi,bj,myThid) |
| 503 |
|
|
|
| 504 |
|
|
ENDIF |
| 505 |
|
|
#endif /* ALLOW_DIAGNOSTICS */ |
| 506 |
|
|
|
| 507 |
|
|
|
| 508 |
|
|
|
| 509 |
|
|
#endif /* ALLOW_BLING */ |
| 510 |
|
|
|
| 511 |
|
|
RETURN |
| 512 |
|
|
END |
Parent Directory
| 
Revision Log
| 
Revision Graph