| 1 |
jahn |
1.1 |
C $Header: /u/gcmpack/MITgcm_contrib/darwin/pkg/darwin/darwin_plankton.F,v 1.1y 2009/04/01 14:32:12 jahn Exp $ |
| 2 |
|
|
C $Name: $ |
| 3 |
|
|
#include "CPP_OPTIONS.h" |
| 4 |
|
|
#include "PTRACERS_OPTIONS.h" |
| 5 |
|
|
#include "DARWIN_OPTIONS.h" |
| 6 |
|
|
|
| 7 |
|
|
#ifdef ALLOW_PTRACERS |
| 8 |
|
|
#ifdef ALLOW_DARWIN |
| 9 |
|
|
#ifdef ALLOW_QUOTA |
| 10 |
|
|
|
| 11 |
|
|
c ==================================================================== |
| 12 |
|
|
c SUBROUTINE QUOTA_PLANKTON |
| 13 |
|
|
c 0. New version for mixotrophic QUOTA model |
| 14 |
|
|
c |
| 15 |
|
|
c 1. Local ecological interactions for models with many phytoplankton |
| 16 |
|
|
c "functional groups" |
| 17 |
|
|
c 2. Timestep plankton and nutrients locally |
| 18 |
|
|
c 3. Same equations for DOM and POM |
| 19 |
|
|
c 4. Remineralization of detritus also determined in routine |
| 20 |
|
|
c 5. Sinking particles and plankton |
| 21 |
|
|
c 6. NOT in this routine: iron chemistry |
| 22 |
|
|
c |
| 23 |
|
|
c Mick Follows, Scott Grant, Fall/Winter 2005 |
| 24 |
|
|
c Stephanie Dutkiewicz Spring/Summer 2006 |
| 25 |
|
|
c Ben Ward, 2009/10 |
| 26 |
|
|
c |
| 27 |
|
|
c - Dropped in initial quota version... |
| 28 |
|
|
c - R* diagnostics (#define DAR_DIAG_RSTAR) |
| 29 |
|
|
c - diazotrophy (#define ALLOW_DIAZ) |
| 30 |
|
|
c - mutation code (#define ALLOW_MUTANTS) |
| 31 |
|
|
c - new nitrogen limiting scheme (#undef OLD_NSCHEME) |
| 32 |
|
|
c - diversity diagnostics |
| 33 |
|
|
c - waveband dependence of light attenuation and absorption |
| 34 |
|
|
c ==================================================================== |
| 35 |
|
|
|
| 36 |
|
|
SUBROUTINE QUOTA_PLANKTON( |
| 37 |
|
|
I biomass, orgmat, nutrient, |
| 38 |
|
|
O PP, |
| 39 |
|
|
I bioabove, biobelow, |
| 40 |
|
|
I orgabove, |
| 41 |
|
|
#ifdef FQUOTA |
| 42 |
|
|
I freefelocal, inputFelocal, |
| 43 |
|
|
#endif |
| 44 |
|
|
I PARlocal, Tlocal, Slocal, |
| 45 |
|
|
I bottom, surface, dzlocal, |
| 46 |
|
|
O dbiomassdt,dorgmatdt, dnutrientdt, |
| 47 |
|
|
I debug, |
| 48 |
|
|
I runtim, |
| 49 |
|
|
I MyThid) |
| 50 |
|
|
|
| 51 |
|
|
|
| 52 |
|
|
implicit none |
| 53 |
|
|
#include "SIZE.h" |
| 54 |
|
|
#include "EEPARAMS.h" |
| 55 |
|
|
#include "DARWIN_PARAMS.h" |
| 56 |
|
|
#include "QUOTA_SIZE.h" |
| 57 |
|
|
#include "QUOTA.h" |
| 58 |
|
|
|
| 59 |
|
|
C !INPUT PARAMETERS: =================================================== |
| 60 |
|
|
C myThid :: thread number |
| 61 |
|
|
INTEGER myThid |
| 62 |
|
|
CEOP |
| 63 |
|
|
c === GLOBAL VARIABLES ===================== |
| 64 |
|
|
c iimax = no of nutrient species (1=Carbon,2=Nitrate, ...) |
| 65 |
|
|
c npmax = no of plankton species |
| 66 |
|
|
c komax = no of organic matter classes |
| 67 |
|
|
c biomass = plankton biomass (auto/mixo/hetero) |
| 68 |
|
|
c x_num = cell density |
| 69 |
|
|
c quota = (average) cell quota |
| 70 |
|
|
c nutrient = ambient inorganic nutrient concntration |
| 71 |
|
|
c orgmat = organic matter biomass (dissolved and particulate) |
| 72 |
|
|
_RL biomass(iomax,npmax) |
| 73 |
|
|
_RL nutrient(iimax) |
| 74 |
|
|
_RL orgmat(iomax-iChl,komax) |
| 75 |
|
|
_RL quota(iomax-iChl,npmax) |
| 76 |
|
|
_RL PP |
| 77 |
|
|
_RL bioabove(iomax,npmax) |
| 78 |
|
|
_RL biobelow(iomax,npmax) |
| 79 |
|
|
_RL orgabove(iomax-iChl,komax) |
| 80 |
|
|
#ifdef FQUOTA |
| 81 |
|
|
_RL freefelocal |
| 82 |
|
|
_RL inputFelocal |
| 83 |
|
|
#endif |
| 84 |
|
|
_RL m_ref(npmax) |
| 85 |
|
|
_RL PARlocal |
| 86 |
|
|
_RL Tlocal |
| 87 |
|
|
_RL Slocal |
| 88 |
|
|
INTEGER bottom |
| 89 |
|
|
INTEGER surface |
| 90 |
|
|
_RL dzlocal |
| 91 |
|
|
INTEGER debug |
| 92 |
|
|
_RL dbiomassdt(iomax,npmax) |
| 93 |
|
|
_RL dchloro(npmax) |
| 94 |
|
|
_RL dnutrientdt(iimax) |
| 95 |
|
|
_RL dorgmatdt(iomax-iChl,komax) |
| 96 |
|
|
#ifdef ALLOW_PAR_DAY |
| 97 |
|
|
_RL PARdaylocal |
| 98 |
|
|
#endif |
| 99 |
|
|
_RL runtim |
| 100 |
|
|
|
| 101 |
|
|
c LOCAL VARIABLES |
| 102 |
|
|
c ------------------------------------------------------------- |
| 103 |
|
|
|
| 104 |
|
|
c WORKING VARIABLES |
| 105 |
|
|
c ii = nutrient element index |
| 106 |
|
|
integer ii,io |
| 107 |
|
|
c jp = plankton index |
| 108 |
|
|
integer jp,jp2 |
| 109 |
|
|
c ko = organic matter index |
| 110 |
|
|
integer ko |
| 111 |
|
|
c 'spare' indices |
| 112 |
|
|
integer ii2, ko2 |
| 113 |
|
|
integer jpred, jprey |
| 114 |
|
|
integer iin |
| 115 |
|
|
c variables for plankton growth rate limitation |
| 116 |
|
|
_RL limit |
| 117 |
|
|
_RL qlimit(npmax) |
| 118 |
|
|
#ifdef FQUOTA |
| 119 |
|
|
_RL felimit(npmax) |
| 120 |
|
|
#endif |
| 121 |
|
|
c plankton specific nutrient limitation terms |
| 122 |
|
|
_RL qreg(iomax,npmax) |
| 123 |
|
|
_RL qregmax |
| 124 |
|
|
c photosynthesis light limitation term |
| 125 |
|
|
_RL ilimit(npmax) |
| 126 |
|
|
c temperature limitation terms |
| 127 |
|
|
_RL photo_Tempfunction |
| 128 |
|
|
_RL activ_Tempfunction |
| 129 |
|
|
c uptake of inorganic nutrients |
| 130 |
|
|
_RL up_inorg(iimax,npmax) |
| 131 |
|
|
c plankton grazing rates |
| 132 |
|
|
_RL grazing(iomax,npmax,npmax) |
| 133 |
|
|
_RL food1,food2 |
| 134 |
|
|
_RL Psum,Zsum,Jsum |
| 135 |
|
|
_RL biomass2(npmax) |
| 136 |
|
|
c plankton respiration rates (carbon only) |
| 137 |
|
|
_RL C_resp(npmax) |
| 138 |
|
|
c varible for mimumum phyto |
| 139 |
|
|
_RL biomassmin(npmax) |
| 140 |
|
|
c variables for remineralization of organic matter |
| 141 |
|
|
c |
| 142 |
|
|
c variables for sinking/swimming |
| 143 |
|
|
_RL bvert(iomax,npmax) |
| 144 |
|
|
_RL pomsink(iomax-iChl) |
| 145 |
|
|
c variables for sums of plankton and organic matter |
| 146 |
|
|
_RL totplankton(iomax) |
| 147 |
|
|
_RL totorgmat(iomax-iChl) |
| 148 |
|
|
c ? |
| 149 |
|
|
_RL facpz |
| 150 |
|
|
_RL kpar, kinh |
| 151 |
|
|
_RL tmpr,tmpz, tmpgrow, tmp1, tmp2 |
| 152 |
|
|
integer ITEST |
| 153 |
|
|
c |
| 154 |
|
|
c ***************************************************************** |
| 155 |
|
|
c ******************** Evaluate Quota Status ********************** |
| 156 |
|
|
c ***************************************************************** |
| 157 |
|
|
c qlimit --> Function of most limiting nutrient |
| 158 |
|
|
c 1 = replete, 0 = no C assimilation |
| 159 |
|
|
c N,Si - linear from quota |
| 160 |
|
|
c P & Fe - Droop from quota |
| 161 |
|
|
c |
| 162 |
|
|
c qreg --> individual nutrient status for uptake regualtion |
| 163 |
|
|
c 0 = quota full, 1 = quota empty |
| 164 |
|
|
c linear for all elements (not needed for Si) |
| 165 |
|
|
c qreg(C) = inverse of qreg for most limiting element |
| 166 |
|
|
c |
| 167 |
|
|
do jp = 1,npmax |
| 168 |
|
|
c set diagnostic to zero |
| 169 |
|
|
qlimit(jp) = 1. _d 0 |
| 170 |
|
|
qreg(iCarb,jp) = 1. _d 0 |
| 171 |
|
|
c |
| 172 |
|
|
do io = 2,iomax-iChl ! skip carbon index; quota = X:C biomass ratio |
| 173 |
|
|
c quota = nutrient biomass to carbon biomass ratio |
| 174 |
|
|
if (biomass(iCarb,jp).gt.0. _d 0) then |
| 175 |
|
|
quota(io,jp) = biomass(io,jp) / biomass(iCarb,jp) |
| 176 |
|
|
else |
| 177 |
|
|
quota(io,jp) = 0. _d 0 |
| 178 |
|
|
endif |
| 179 |
|
|
c limit ranges from 1 to 0 between qmin and qmax |
| 180 |
|
|
if (quota(io,jp).le.qmin(io,jp)) then ! if quota empty... |
| 181 |
|
|
limit = 0. _d 0 |
| 182 |
|
|
qreg(io,jp) = 1. _d 0 |
| 183 |
|
|
elseif (quota(io,jp).ge.qmax(io,jp)) then ! if quota full... |
| 184 |
|
|
limit = 1. _d 0 |
| 185 |
|
|
qreg(io,jp) = 0. _d 0 |
| 186 |
|
|
else ! if quota somewhere in between... |
| 187 |
|
|
if (io.eq.iNitr.or.io.eq.iSili) then ! linear |
| 188 |
|
|
limit = (quota(io,jp) - qmin(io,jp)) |
| 189 |
|
|
& / ( qmax(io,jp) - qmin(io,jp)) |
| 190 |
|
|
else ! normalised Droop |
| 191 |
|
|
limit = (1. _d 0 - qmin(io,jp)/quota(io,jp)) |
| 192 |
|
|
& / (1. _d 0 - qmin(io,jp)/qmax(io,jp) ) |
| 193 |
|
|
endif |
| 194 |
|
|
! regulation term is always linear |
| 195 |
|
|
qreg(io,jp) = (qmax(io,jp) - quota(io,jp)) |
| 196 |
|
|
& / (qmax(io,jp) - qmin(io,jp) ) |
| 197 |
|
|
endif |
| 198 |
|
|
#ifdef FQUOTA |
| 199 |
|
|
if (io.eq.iIron) then |
| 200 |
|
|
felimit(jp) = limit |
| 201 |
|
|
limit = 1. _d 0 |
| 202 |
|
|
endif |
| 203 |
|
|
#endif |
| 204 |
|
|
#ifdef SQUOTA |
| 205 |
|
|
! non-diatoms are not Si limited |
| 206 |
|
|
if (io.eq.iSili.and.use_Si(jp).eq.0) then |
| 207 |
|
|
limit = 1. _d 0 |
| 208 |
|
|
qreg(iSili,jp) = 0. _d 0 |
| 209 |
|
|
biomass(iSili,jp) = 0. _d 0 |
| 210 |
|
|
bioabove(iSili,jp)= 0. _d 0 |
| 211 |
|
|
biobelow(iSili,jp)= 0. _d 0 |
| 212 |
|
|
quota(iSili,jp) = 0. _d 0 |
| 213 |
|
|
endif |
| 214 |
|
|
#endif |
| 215 |
|
|
qlimit(jp) = min(qlimit(jp),limit) |
| 216 |
|
|
qreg(iCarb,jp) = min(qreg(iCarb,jp),1. _d 0 - qreg(io,jp)) |
| 217 |
|
|
enddo ! io |
| 218 |
|
|
if (autotrophy(jp).eq. 0. _d 0) then |
| 219 |
|
|
biomass(iChlo,jp) = 0. _d 0 ! pure heterotroph, so chl is zero |
| 220 |
|
|
bioabove(iChlo,jp) = 0. _d 0 |
| 221 |
|
|
biobelow(iChlo,jp) = 0. _d 0 |
| 222 |
|
|
endif |
| 223 |
|
|
enddo ! jp |
| 224 |
|
|
c |
| 225 |
|
|
c **************************************************************** |
| 226 |
|
|
c * Determine temperature Dependent Growth function for Plankton * |
| 227 |
|
|
c **************************************************************** |
| 228 |
|
|
call quota_tempfunc( |
| 229 |
|
|
I Tlocal, |
| 230 |
|
|
O photo_Tempfunction, |
| 231 |
|
|
O activ_Tempfunction, |
| 232 |
|
|
I myThid) |
| 233 |
|
|
c |
| 234 |
|
|
c ***************************************************************** |
| 235 |
|
|
c ******************** Resource Acquisition *********************** |
| 236 |
|
|
c ***************************************************************** |
| 237 |
|
|
do jp=1,npmax |
| 238 |
|
|
if (autotrophy(jp).gt.0.0 _d 0) then |
| 239 |
|
|
do ii=2,iimax ! not carbon... |
| 240 |
|
|
if (ii.eq.iNO3.or.ii.eq.iNO2.or.ii.eq.iNH4) io=iNitr |
| 241 |
|
|
if (ii.eq.iPO4) io=iPhos |
| 242 |
|
|
if (ii.eq.iFeT) io=iIron |
| 243 |
|
|
if (ii.eq.iSi) io=iSili |
| 244 |
|
|
c C-specific nutrient uptake, modulated by quota fullness and temperature |
| 245 |
|
|
if (nutrient(ii).gt.0. _d 0) then |
| 246 |
|
|
up_inorg(ii,jp) = vmaxi(ii,jp) ! maximum uptake rate |
| 247 |
|
|
& * nutrient(ii)/(nutrient(ii)+kn(ii,jp)) ! ambient nutrients |
| 248 |
|
|
& * qreg(io,jp) ! quota satiation |
| 249 |
|
|
& * activ_Tempfunction ! temperature effects |
| 250 |
|
|
#ifdef AMMON |
| 251 |
|
|
c apply ammonium inhibition to NO3 and NO2 |
| 252 |
|
|
if (ii.eq.iNO3.or.ii.eq.iNO2) then |
| 253 |
|
|
up_inorg(ii,jp) = up_inorg(ii,jp) |
| 254 |
|
|
& * exp(-amminhib*nutrient(iNH4)) |
| 255 |
|
|
endif |
| 256 |
|
|
#endif |
| 257 |
|
|
else |
| 258 |
|
|
up_inorg(ii,jp) = 0. _d 0 |
| 259 |
|
|
endif |
| 260 |
|
|
enddo ! ii |
| 261 |
|
|
#ifdef FQUOTA |
| 262 |
|
|
up_inorg(iNO3,jp) = up_inorg(iNO3,jp) * felimit(jp) |
| 263 |
|
|
#endif |
| 264 |
|
|
else ! if autotrophy(jp).eq.0 |
| 265 |
|
|
do ii=1,iimax |
| 266 |
|
|
up_inorg(ii,jp) = 0. _d 0 |
| 267 |
|
|
enddo |
| 268 |
|
|
endif ! autotrophy |
| 269 |
|
|
enddo ! jp |
| 270 |
|
|
c |
| 271 |
|
|
c **************************************************************** |
| 272 |
|
|
c ************* Photosynthetic Carbon Assimilation *************** |
| 273 |
|
|
c **************************************************************** |
| 274 |
|
|
call GEIDER98( |
| 275 |
|
|
I PARlocal, |
| 276 |
|
|
I biomass, |
| 277 |
|
|
I qlimit, |
| 278 |
|
|
#ifdef FQUOTA |
| 279 |
|
|
I felimit, |
| 280 |
|
|
#endif |
| 281 |
|
|
U up_inorg, |
| 282 |
|
|
I photo_Tempfunction, |
| 283 |
|
|
O dchloro, ! chlorophyll synthesis rate |
| 284 |
|
|
I myThid) |
| 285 |
|
|
c |
| 286 |
|
|
c **************************************************************** |
| 287 |
|
|
c ********************* Heterotrophic Grazing ******************** |
| 288 |
|
|
c **************************************************************** |
| 289 |
|
|
c PRE-ASSIMILATION grazing of type jpredator by type jprey |
| 290 |
|
|
do jpred=1,npmax ! loop predators |
| 291 |
|
|
if (autotrophy(jpred).lt.1. _d 0) then ! not for pure autotrophs |
| 292 |
|
|
food1 = 0. _d 0 |
| 293 |
|
|
#ifdef SWITCH3 |
| 294 |
|
|
food2 = 0. _d 0 |
| 295 |
|
|
#else |
| 296 |
|
|
Psum = 0. _d 0 |
| 297 |
|
|
Zsum = 0. _d 0 |
| 298 |
|
|
#endif |
| 299 |
|
|
do jprey=1,npmax ! sum all the prey carbon of predator, weighted by preference |
| 300 |
|
|
food1 = food1 |
| 301 |
|
|
& + graz_pref(jpred,jprey) * biomass(iCarb,jprey) |
| 302 |
|
|
#ifdef SWITCH3 |
| 303 |
|
|
food2 = food2 |
| 304 |
|
|
& + graz_pref(jpred,jprey) * biomass(iCarb,jprey) |
| 305 |
|
|
& * graz_pref(jpred,jprey) * biomass(iCarb,jprey) |
| 306 |
|
|
#else |
| 307 |
|
|
if (pft(jprey).ne.6) then |
| 308 |
|
|
Psum = Psum |
| 309 |
|
|
& + graz_pref(jpred,jprey) |
| 310 |
|
|
& * biomass(iCarb,jprey) * biomass(iCarb,jprey) |
| 311 |
|
|
else |
| 312 |
|
|
Zsum = Zsum |
| 313 |
|
|
& + graz_pref(jpred,jprey) |
| 314 |
|
|
& * biomass(iCarb,jprey) * biomass(iCarb,jprey) |
| 315 |
|
|
endif |
| 316 |
|
|
#endif |
| 317 |
|
|
enddo |
| 318 |
|
|
! calculate grazing effort |
| 319 |
|
|
if (food1.gt.0. _d 0) then |
| 320 |
|
|
tmp1 = graz(jpred) * activ_Tempfunction ! saturated grazing |
| 321 |
|
|
& * food1 / (food1+kg(jpred)) ! grazing effort |
| 322 |
|
|
& * (1.0 _d 0 - exp(-1. _d 0 * food1)) |
| 323 |
|
|
else |
| 324 |
|
|
tmp1 = 0. _d 0 |
| 325 |
|
|
endif |
| 326 |
|
|
do jprey=1,npmax ! loop prey carbon consumption |
| 327 |
|
|
#ifdef SWITCH3 |
| 328 |
|
|
if (food1.gt.0. _d 0) then |
| 329 |
|
|
tmp2=food2 |
| 330 |
|
|
#else |
| 331 |
|
|
if (food1.gt.0. _d 0 .and.(Psum+Zsum).gt.0) then |
| 332 |
|
|
tmp2=food1 |
| 333 |
|
|
if (pft(jprey).ne.6) then |
| 334 |
|
|
Jsum = Psum |
| 335 |
|
|
else |
| 336 |
|
|
Jsum = Zsum |
| 337 |
|
|
endif |
| 338 |
|
|
#endif |
| 339 |
|
|
grazing(iCarb,jpred,jprey) ! d^-1 |
| 340 |
|
|
#ifndef SWITCH3 |
| 341 |
|
|
& = Jsum / (Psum+Zsum) |
| 342 |
|
|
#else |
| 343 |
|
|
& = graz_pref(jpred,jprey) * biomass(iCarb,jprey) |
| 344 |
|
|
#endif |
| 345 |
|
|
& * graz_pref(jpred,jprey) * biomass(iCarb,jprey) |
| 346 |
|
|
& / tmp2 |
| 347 |
|
|
& * tmp1 |
| 348 |
|
|
else |
| 349 |
|
|
grazing(iCarb,jpred,jprey) = 0. _d 0 |
| 350 |
|
|
endif |
| 351 |
|
|
! other organic elements (+ chlorophyll) are grazed in stoichiometric relation to carbon |
| 352 |
|
|
if (grazing(iCarb,jpred,jprey).gt.0. _d 0 |
| 353 |
|
|
& .and.biomass(iCarb,jprey).gt.0. _d 0) then |
| 354 |
|
|
do io=2,iomax |
| 355 |
|
|
grazing(io,jpred,jprey) = grazing(iCarb,jpred,jprey) ! uptake of prey carbon |
| 356 |
|
|
& * biomass(io,jprey) ! * |
| 357 |
|
|
& / biomass(iCarb,jprey) ! biomass ratio of prey |
| 358 |
|
|
enddo |
| 359 |
|
|
else |
| 360 |
|
|
do io=1,iomax |
| 361 |
|
|
grazing(io,jpred,jprey) = 0. _d 0 |
| 362 |
|
|
enddo |
| 363 |
|
|
endif |
| 364 |
|
|
enddo ! jprey |
| 365 |
|
|
else ! if pure autotrophs (i.e. autotrophy(jpred).eq.1) |
| 366 |
|
|
do io=1,iomax |
| 367 |
|
|
do jprey=1,npmax |
| 368 |
|
|
grazing(io,jpred,jprey) = 0. _d 0 |
| 369 |
|
|
enddo |
| 370 |
|
|
enddo |
| 371 |
|
|
endif |
| 372 |
|
|
enddo ! jpred |
| 373 |
|
|
c |
| 374 |
|
|
c ************************************************************ |
| 375 |
|
|
c end evaluate biological process terms |
| 376 |
|
|
c ----------------------------------------------------------------- |
| 377 |
|
|
c |
| 378 |
|
|
c ----------------------------------------------------------------- |
| 379 |
|
|
c evaluate vertical sink and swim terms |
| 380 |
|
|
c ************************************************************ |
| 381 |
|
|
c biosink is +ve downwards |
| 382 |
|
|
c bioswim is -ve upwards |
| 383 |
|
|
c (upstream - downstream) * vertical velocity |
| 384 |
|
|
c bvert is a gain term |
| 385 |
|
|
do io=1,iomax |
| 386 |
|
|
do jp=1,npmax |
| 387 |
|
|
if (surface.eq.1) then ! surface |
| 388 |
|
|
bvert(io,jp) =(-biomass(io,jp)) |
| 389 |
|
|
& * biosink(jp) / dzlocal ! - sinking out |
| 390 |
|
|
& +(-biobelow(io,jp)) |
| 391 |
|
|
& * bioswim(jp) / dzlocal ! - swimming in (-ve) |
| 392 |
|
|
elseif (bottom.eq.1) then ! bottom |
| 393 |
|
|
bvert(io,jp) = bioabove(io,jp) |
| 394 |
|
|
& * biosink(jp) / dzlocal ! + sinking in |
| 395 |
|
|
& + biomass(io,jp) |
| 396 |
|
|
& * bioswim(jp) / dzlocal ! + swimming out (-ve) |
| 397 |
|
|
else ! in between |
| 398 |
|
|
bvert(io,jp) = (bioabove(io,jp)-biomass(io,jp)) |
| 399 |
|
|
& * biosink(jp) / dzlocal ! + sinking in - sinking out |
| 400 |
|
|
& + (biomass(io,jp)-biobelow(io,jp)) |
| 401 |
|
|
& * bioswim(jp) / dzlocal ! + swimming out (-ve) - swimming in (-ve) |
| 402 |
|
|
endif |
| 403 |
|
|
enddo |
| 404 |
|
|
if (io.ne.iChlo) then |
| 405 |
|
|
if (surface.eq.1) then ! surface |
| 406 |
|
|
pomsink(io) =(-orgmat(io,2)) |
| 407 |
|
|
& * orgsink(2) / dzlocal |
| 408 |
|
|
elseif (bottom.eq.1) then ! bottom |
| 409 |
|
|
pomsink(io) = orgabove(io,2) |
| 410 |
|
|
& * orgsink(2) / dzlocal |
| 411 |
|
|
else ! in between |
| 412 |
|
|
pomsink(io) = (orgabove(io,2)-orgmat(io,2)) |
| 413 |
|
|
& * orgsink(2) / dzlocal |
| 414 |
|
|
endif |
| 415 |
|
|
endif |
| 416 |
|
|
enddo |
| 417 |
|
|
c ************************************************************ |
| 418 |
|
|
c end evaluate vertical sink terms |
| 419 |
|
|
c ----------------------------------------------------------------- |
| 420 |
|
|
c |
| 421 |
|
|
c ------------------------------------------------------------------- |
| 422 |
|
|
c calculate tendency terms (and some diagnostics) |
| 423 |
|
|
c ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc |
| 424 |
|
|
c BIOMASS |
| 425 |
|
|
c inorganic uptake |
| 426 |
|
|
do jp=1,npmax |
| 427 |
|
|
dbiomassdt(iCarb,jp) = biomass(iCarb,jp)*up_inorg(iDIC,jp) |
| 428 |
|
|
dbiomassdt(iNitr,jp) = biomass(iCarb,jp)*up_inorg(iNO3,jp) |
| 429 |
|
|
#ifdef NITRITE |
| 430 |
|
|
& + biomass(iCarb,jp)*up_inorg(iNO2,jp) |
| 431 |
|
|
#endif |
| 432 |
|
|
#ifdef AMMON |
| 433 |
|
|
& + biomass(iCarb,jp)*up_inorg(iNH4,jp) |
| 434 |
|
|
#endif |
| 435 |
|
|
#ifdef PQUOTA |
| 436 |
|
|
dbiomassdt(iPhos,jp) = biomass(iCarb,jp)*up_inorg(iPO4,jp) |
| 437 |
|
|
#endif |
| 438 |
|
|
#ifdef SQUOTA |
| 439 |
|
|
dbiomassdt(iSili,jp) = biomass(iCarb,jp)*up_inorg(iSi,jp) |
| 440 |
|
|
#endif |
| 441 |
|
|
#ifdef FQUOTA |
| 442 |
|
|
dbiomassdt(iIron,jp) = biomass(iCarb,jp)*up_inorg(iFeT,jp) |
| 443 |
|
|
#endif |
| 444 |
|
|
c |
| 445 |
|
|
dbiomassdt(iChlo,jp) = dchloro(jp) |
| 446 |
|
|
c |
| 447 |
|
|
! respiration |
| 448 |
|
|
dbiomassdt(iCarb,jp) = dbiomassdt(iCarb,jp) |
| 449 |
|
|
& - respiration(jp) * biomass(iCarb,jp) |
| 450 |
|
|
& * activ_Tempfunction |
| 451 |
|
|
c |
| 452 |
|
|
c grazing uptake |
| 453 |
|
|
do io=1,iomax |
| 454 |
|
|
if (io.ne.iSili.and.io.ne.iChlo) then ! don't take up silicate or chlorophyll |
| 455 |
|
|
c Grazing uptake of everything but silicate and chlorophyll |
| 456 |
|
|
do jprey=1,npmax |
| 457 |
|
|
dbiomassdt(io,jp) = dbiomassdt(io,jp) |
| 458 |
|
|
& + biomass(iCarb,jp) ! carbon biomass of predator |
| 459 |
|
|
& * grazing(io,jp,jprey)! * carbon specific rate |
| 460 |
|
|
& * assim_graz(jp,jprey) * qreg(io,jp) |
| 461 |
|
|
enddo ! jprey |
| 462 |
|
|
c Exudation of elemental reservoirs |
| 463 |
|
|
if (io.eq.iCarb.or.io.eq.iNitr.or.io.eq.iPhos) then |
| 464 |
|
|
dbiomassdt(io,jp) = dbiomassdt(io,jp) |
| 465 |
|
|
& - kexc(io,jp) * biomass(io,jp) |
| 466 |
|
|
endif |
| 467 |
|
|
endif |
| 468 |
|
|
! |
| 469 |
|
|
! calculate temperature adjusted mortality rates |
| 470 |
|
|
m_ref(jp) = kmort(jp) ! linear |
| 471 |
|
|
! quadratic Z mortality |
| 472 |
|
|
if (pft(jp).eq.6) then |
| 473 |
|
|
m_ref(jp) = kmort(jp) * 0.5 _d 0 ! linear |
| 474 |
|
|
! & + kmort(jp) * 0.25 _d 0 * biomass(iCarb,jp) ! quadratic |
| 475 |
|
|
endif |
| 476 |
|
|
m_ref(jp) = m_ref(jp) * activ_Tempfunction |
| 477 |
|
|
! |
| 478 |
|
|
! Loss and sinking terms - include silicate and chlorophyll |
| 479 |
|
|
dbiomassdt(io,jp) = dbiomassdt(io,jp) |
| 480 |
|
|
& - biomass(io,jp) |
| 481 |
|
|
& * m_ref(jp) |
| 482 |
|
|
& + bvert(io,jp) |
| 483 |
|
|
do jpred=1,npmax |
| 484 |
|
|
! - losses to other predators |
| 485 |
|
|
dbiomassdt(io,jp) = dbiomassdt(io,jp) |
| 486 |
|
|
& - biomass(iCarb,jpred) ! carbon biomass of predator |
| 487 |
|
|
& * grazing(io,jpred,jp) ! * carbon specific rate |
| 488 |
|
|
enddo ! jpred |
| 489 |
|
|
enddo ! io |
| 490 |
|
|
enddo ! jp |
| 491 |
|
|
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc |
| 492 |
|
|
c NUTRIENTS |
| 493 |
|
|
! uptake by phytoplankton |
| 494 |
|
|
do ii=1,iimax |
| 495 |
|
|
dnutrientdt(ii) = 0. _d 0 |
| 496 |
|
|
do jp=1,npmax |
| 497 |
|
|
dnutrientdt(ii) = dnutrientdt(ii) |
| 498 |
|
|
& - biomass(iCarb,jp)*up_inorg(ii,jp) ! - uptake of inorganic nutrients |
| 499 |
|
|
enddo ! jp |
| 500 |
|
|
enddo ! ii |
| 501 |
|
|
c |
| 502 |
|
|
! remineralisation of organic matter |
| 503 |
|
|
do ko=1,komax |
| 504 |
|
|
dnutrientdt(iDIC) = dnutrientdt(iDIC) |
| 505 |
|
|
& + orgmat(iCarb,ko) * remin(iCarb,ko) |
| 506 |
|
|
& * activ_Tempfunction |
| 507 |
|
|
#ifndef AMMON |
| 508 |
|
|
dnutrientdt(iNO3) = dnutrientdt(iNO3) |
| 509 |
|
|
& + orgmat(iNitr,ko) * remin(iNitr,ko) ! straight to NO3, if no NH4 ... |
| 510 |
|
|
& * activ_Tempfunction |
| 511 |
|
|
#else |
| 512 |
|
|
dnutrientdt(iNH4) = dnutrientdt(iNH4) |
| 513 |
|
|
& + orgmat(iNitr,ko) * remin(iNitr,ko) ! ... or to NH4 |
| 514 |
|
|
& * activ_Tempfunction |
| 515 |
|
|
#endif |
| 516 |
|
|
#ifdef PQUOTA |
| 517 |
|
|
dnutrientdt(iPO4) = dnutrientdt(iPO4) |
| 518 |
|
|
& + orgmat(iPhos,ko) * remin(iPhos,ko) |
| 519 |
|
|
& * activ_Tempfunction |
| 520 |
|
|
#endif |
| 521 |
|
|
#ifdef SQUOTA |
| 522 |
|
|
dnutrientdt(iSi) = dnutrientdt(iSi) |
| 523 |
|
|
& + orgmat(iSili,ko) * remin(iSili,ko) |
| 524 |
|
|
& * activ_Tempfunction |
| 525 |
|
|
#endif |
| 526 |
|
|
#ifdef FQUOTA |
| 527 |
|
|
dnutrientdt(iFeT) = dnutrientdt(iFeT) |
| 528 |
|
|
& + orgmat(iIron,ko) * remin(iIron,ko) |
| 529 |
|
|
& * activ_Tempfunction |
| 530 |
|
|
#endif |
| 531 |
|
|
enddo !ko |
| 532 |
|
|
#ifdef FQUOTA |
| 533 |
|
|
dnutrientdt(iFeT) = dnutrientdt(iFeT) |
| 534 |
|
|
& - scav * freefelocal ! scavenging of free iron |
| 535 |
|
|
& + alpfe * inputFelocal/dzlocal ! atmospheric input |
| 536 |
|
|
#endif |
| 537 |
|
|
|
| 538 |
|
|
! respiration |
| 539 |
|
|
do jp=1,npmax |
| 540 |
|
|
dnutrientdt(iDIC) = dnutrientdt(iDIC) |
| 541 |
|
|
& + respiration(jp) * biomass(iCarb,jp) |
| 542 |
|
|
& * activ_Tempfunction |
| 543 |
|
|
enddo |
| 544 |
|
|
|
| 545 |
|
|
! oxidation of NH4 and NO2 compounds |
| 546 |
|
|
#ifdef AMMON |
| 547 |
|
|
dnutrientdt(iNH4) = dnutrientdt(iNH4) |
| 548 |
|
|
& - amm2nrite * nutrient(iNH4) ! ammonium to (nitrite or nitrate) |
| 549 |
|
|
#ifdef NITRITE |
| 550 |
|
|
dnutrientdt(iNO2) = dnutrientdt(iNO2) |
| 551 |
|
|
& + amm2nrite * nutrient(iNH4) ! nitrite from ammonium |
| 552 |
|
|
& - nrite2nrate * nutrient(iNO2) ! nitrite to nitrate |
| 553 |
|
|
dnutrientdt(iNO3) = dnutrientdt(iNO3) |
| 554 |
|
|
& + nrite2nrate * nutrient(iNO2) ! nitrate from nitrite |
| 555 |
|
|
#else |
| 556 |
|
|
dnutrientdt(iNO3) = dnutrientdt(iNO3) ! or |
| 557 |
|
|
& + amm2nrate * nutrient(iNH4) ! nitrate from ammonium |
| 558 |
|
|
#endif |
| 559 |
|
|
#endif |
| 560 |
|
|
c |
| 561 |
|
|
c******************************************************************************** |
| 562 |
|
|
c organic matter |
| 563 |
|
|
do io=1,iomax-iChl |
| 564 |
|
|
dorgmatdt(io,1) = 0. _d 0 ! dissolved |
| 565 |
|
|
dorgmatdt(io,2) = pomsink(io) ! particulate |
| 566 |
|
|
do jp=1,npmax |
| 567 |
|
|
! mortality & excretion |
| 568 |
|
|
dorgmatdt(io,1) = dorgmatdt(io,1) |
| 569 |
|
|
& + biomass(io,jp) |
| 570 |
|
|
& * m_ref(jp) |
| 571 |
|
|
& * beta_mort(io,jp) |
| 572 |
|
|
if (io.eq.iCarb.or.io.eq.iNitr.or.io.eq.iPhos) then |
| 573 |
|
|
dorgmatdt(io,1) = dorgmatdt(io,1) |
| 574 |
|
|
& + kexc(io,jp) * biomass(io,jp) |
| 575 |
|
|
endif |
| 576 |
|
|
dorgmatdt(io,2) = dorgmatdt(io,2) |
| 577 |
|
|
& + biomass(io,jp) |
| 578 |
|
|
& * m_ref(jp) |
| 579 |
|
|
& * (1. _d 0 - beta_mort(io,jp)) |
| 580 |
|
|
do jprey=1,npmax |
| 581 |
|
|
! unassimilated grazing |
| 582 |
|
|
dorgmatdt(io,1) = dorgmatdt(io,1) |
| 583 |
|
|
& + biomass(iCarb,jp) |
| 584 |
|
|
& * grazing(io,jp,jprey) |
| 585 |
|
|
& * (1. _d 0-assim_graz(jp,jprey)*qreg(io,jp)) |
| 586 |
|
|
& * beta_graz(io,jprey) |
| 587 |
|
|
dorgmatdt(io,2) = dorgmatdt(io,2) |
| 588 |
|
|
& + biomass(iCarb,jp) |
| 589 |
|
|
& * grazing(io,jp,jprey) |
| 590 |
|
|
& * (1. _d 0-assim_graz(jp,jprey)*qreg(io,jp)) |
| 591 |
|
|
& * (1. _d 0 - beta_graz(io,jprey)) |
| 592 |
|
|
enddo ! jprey |
| 593 |
|
|
enddo ! jp |
| 594 |
|
|
! remineralisation of organic matter |
| 595 |
|
|
do ko=1,komax |
| 596 |
|
|
dorgmatdt(io,ko) = dorgmatdt(io,ko) |
| 597 |
|
|
& - orgmat(io,ko) * remin(io,ko) |
| 598 |
|
|
& * activ_Tempfunction |
| 599 |
|
|
enddo ! ko |
| 600 |
|
|
enddo ! io |
| 601 |
|
|
c******************************************************************************** |
| 602 |
|
|
c Uptake diagnostics |
| 603 |
|
|
PP=0. _d 0 |
| 604 |
|
|
do jp=1,npmax |
| 605 |
|
|
if (pft(jp).ne.6) then |
| 606 |
|
|
PP = PP + biomass(iCarb,jp) * up_inorg(iCarb,jp) * 86400. _d 0 |
| 607 |
|
|
endif |
| 608 |
|
|
enddo |
| 609 |
|
|
c ------------------------------------------------------------------- |
| 610 |
|
|
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc |
| 611 |
|
|
c -------------------------------------------------------------------------- |
| 612 |
|
|
RETURN |
| 613 |
|
|
END |
| 614 |
|
|
#endif /*ALLOW_QUOTA*/ |
| 615 |
|
|
#endif /*ALLOW_DARWIN*/ |
| 616 |
|
|
#endif /*ALLOW_PTRACERS*/ |
| 617 |
|
|
c ================================================================== |
Parent Directory
| 
Revision Log
| 
Revision Graph