Changeset 14385 for NEMO/branches/2021/dev_r14383_PISCES_NEWDEV_PISCO/src/TOP/PISCES/P4Z/p5zmicro.F90
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- 2021-02-03T16:03:34+01:00 (3 years ago)
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NEMO/branches/2021/dev_r14383_PISCES_NEWDEV_PISCO/src/TOP/PISCES/P4Z/p5zmicro.F90
r13295 r14385 15 15 USE trc ! passive tracers common variables 16 16 USE sms_pisces ! PISCES Source Minus Sink variables 17 USE p4zlim 17 USE p4zlim ! PISCES nutrient limitation term of PISCES std 18 18 USE p5zlim ! Phytoplankton limitation terms 19 19 USE iom ! I/O manager … … 50 50 REAL(wp), PUBLIC :: srespir !: half sturation constant for grazing 1 51 51 REAL(wp), PUBLIC :: ssigma !: Fraction excreted as semi-labile DOM 52 REAL(wp), PUBLIC :: xsigma !: Width of the grazing window 53 REAL(wp), PUBLIC :: xsigmadel !: Maximum additional width of the grazing window at low food density 52 54 LOGICAL, PUBLIC :: bmetexc !: Use of excess carbon for respiration 53 55 … … 78 80 REAL(wp) :: zcompapi, zgraze , zdenom, zfact, zfood, zfoodlim 79 81 REAL(wp) :: ztmp1, ztmp2, ztmp3, ztmp4, ztmp5, ztmptot 80 REAL(wp) :: zepsherf, zepshert, zepsher v, zrespirc, zrespirn, zrespirp, zbasresb, zbasresi82 REAL(wp) :: zepsherf, zepshert, zepsherq, zepsherv, zrespirc, zrespirn, zrespirp, zbasresb, zbasresi 81 83 REAL(wp) :: zgraztotc, zgraztotn, zgraztotp, zgraztotf, zbasresn, zbasresp, zbasresf 82 84 REAL(wp) :: zgradoc, zgradon, zgradop, zgraref, zgradoct, zgradont, zgradopt, zgrareft … … 88 90 REAL(wp) :: zgrazpc, zgrazpn, zgrazpp, zgrazpf, zbeta, zrfact2, zmetexcess 89 91 REAL(wp), DIMENSION(jpi,jpj,jpk) :: zgrazing, zfezoo, zzligprod 92 REAL(wp) :: zsigma, zdiffdn, zdiffpn, zdiffdp, zproport, zproport2 90 93 CHARACTER (len=25) :: charout 91 94 !!--------------------------------------------------------------------- … … 93 96 IF( ln_timing ) CALL timing_start('p5z_micro') 94 97 ! 98 ! Use of excess carbon for metabolism 95 99 zmetexcess = 0.0 96 100 IF ( bmetexc ) zmetexcess = 1.0 … … 99 103 zcompaz = MAX( ( tr(ji,jj,jk,jpzoo,Kbb) - 1.e-9 ), 0.e0 ) 100 104 zfact = xstep * tgfunc2(ji,jj,jk) * zcompaz 105 ! Proportion of nano and diatoms that are within the size range 106 ! accessible to microzooplankton. 107 zproport = min(sized(ji,jj,jk),1.8)**(-0.48)*min(1.0, exp(-1.1 * MAX(0., ( sized(ji,jj,jk) - 1.8 ))**0.8 )) 108 zproport2 = sizen(ji,jj,jk)**(-0.48) 109 zproport2 = 1.0 110 ! linear mortality of mesozooplankton 111 ! A michaelis menten modulation term is used to avoid extinction of 112 ! microzooplankton at very low food concentrations. Mortality is 113 ! enhanced in low O2 waters 114 ! ----------------------------------------------------------------- 101 115 102 116 ! Michaelis-Menten mortality rates of microzooplankton … … 105 119 & + 3. * nitrfac(ji,jj,jk) ) 106 120 107 ! Zooplankton mortality. A square function has been selected with 108 ! no real reason except that it seems to be more stable and may mimic predation. 109 ! ------------------------------------------------------------------------------ 121 ! Zooplankton quadratic mortality. A square function has been selected with 122 ! to mimic predation and disease (density dependent mortality). It also tends 123 ! to stabilise the model 124 ! ------------------------------------------------------------------------- 110 125 ztortz = mzrat * 1.e6 * zfact * tr(ji,jj,jk,jpzoo,Kbb) * (1. - nitrfac(ji,jj,jk)) 111 126 112 127 ! Computation of the abundance of the preys 113 128 ! A threshold can be specified in the namelist 114 ! -------------------------------------------- 115 zcompadi = MIN( MAX( ( tr(ji,jj,jk,jpdia,Kbb) - xthreshdia ), 0.e0 ), xsizedia ) 116 zcompaph = MAX( ( tr(ji,jj,jk,jpphy,Kbb) - xthreshphy ), 0.e0 ) 129 ! Nanophyto and diatoms have a specific treatment with 130 ! teir preference decreasing with size. 131 ! -------------------------------------------------------- 132 zcompadi = zproport * MAX( ( tr(ji,jj,jk,jpdia,Kbb) - xthreshdia ), 0.e0 ) 133 zcompaph = zproport2 * MAX( ( tr(ji,jj,jk,jpphy,Kbb) - xthreshphy ), 0.e0 ) 117 134 zcompaz = MAX( ( tr(ji,jj,jk,jpzoo,Kbb) - xthreshzoo ), 0.e0 ) 118 135 zcompapi = MAX( ( tr(ji,jj,jk,jppic,Kbb) - xthreshpic ), 0.e0 ) 119 136 zcompapoc = MAX( ( tr(ji,jj,jk,jppoc,Kbb) - xthreshpoc ), 0.e0 ) 120 121 ! Microzooplankton grazing 122 ! ------------------------ 137 138 ! Microzooplankton grazing 139 ! The total amount of food is the sum of all preys accessible to mesozooplankton 140 ! multiplied by their food preference 141 ! A threshold can be specified in the namelist (xthresh). However, when food 142 ! concentration is close to this threshold, it is decreased to avoid the 143 ! accumulation of food in the mesozoopelagic domain 144 ! ------------------------------------------------------------------------------- 123 145 zfood = xprefn * zcompaph + xprefc * zcompapoc + xprefd * zcompadi & 124 146 & + xprefz * zcompaz + xprefp * zcompapi … … 127 149 zgraze = grazrat * xstep * tgfunc2(ji,jj,jk) * tr(ji,jj,jk,jpzoo,Kbb) * (1. - nitrfac(ji,jj,jk)) 128 150 129 ! An active switching parameterization is used here. 130 ! We don't use the KTW parameterization proposed by 131 ! Vallina et al. because it tends to produce to steady biomass 132 ! composition and the variance of Chl is too low as it grazes 133 ! too strongly on winning organisms. Thus, instead of a square 134 ! a 1.5 power value is used which decreases the pressure on the 135 ! most abundant species 136 ! ------------------------------------------------------------ 137 ztmp1 = xprefn * zcompaph**1.5 138 ztmp2 = xprefp * zcompapi**1.5 139 ztmp3 = xprefc * zcompapoc**1.5 140 ztmp4 = xprefd * zcompadi**1.5 141 ztmp5 = xprefz * zcompaz**1.5 151 ! An active switching parameterization is used here. 152 ! We don't use the KTW parameterization proposed by 153 ! Vallina et al. because it tends to produce too steady biomass 154 ! composition and the variance of Chl is too low as it grazes 155 ! too strongly on winning organisms. We use a generalized 156 ! switching parameterization proposed by Morozov and 157 ! Petrovskii (2013) 158 ! ------------------------------------------------------------ 159 ! The width of the selection window is increased when preys 160 ! have low abundance, .i.e. zooplankton become less specific 161 ! to avoid starvation. 162 ! ---------------------------------------------------------- 163 zsigma = 1.0 - zdenom**3/(0.1**3+zdenom**3) 164 zsigma = xsigma + xsigmadel * zsigma 165 zdiffpn = exp( -ABS(log(0.7 * sizep(ji,jj,jk) / (3.0 * sizen(ji,jj,jk) + rtrn )) )**2 / zsigma**2 ) 166 zdiffdn = exp( -ABS(log(3.0 * sizen(ji,jj,jk) / (5.0 * sized(ji,jj,jk) + rtrn )) )**2 / zsigma**2) 167 zdiffdp = exp( -ABS(log(0.7 * sizep(ji,jj,jk) / (5.0 * sized(ji,jj,jk) + rtrn )) )**2 / zsigma**2) 168 ztmp1 = xprefn * zcompaph * ( zcompaph + zdiffdn * zcompadi + zdiffpn * zcompapi ) / ( 1.0 + zdiffdn + zdiffpn ) 169 ztmp2 = xprefp * zcompapi * ( zcompapi + zdiffpn * zcompaph + zdiffdp * zcompadi ) / ( 1.0 + zdiffpn + zdiffdp ) 170 ztmp3 = xprefc * zcompapoc**2 171 ztmp4 = xprefd * zcompadi * ( zdiffdp * zcompapi + zdiffdn * zcompaph + zcompadi ) / ( 1.0 + zdiffdn + zdiffdp ) 172 ztmp5 = xprefz * zcompaz**2 142 173 ztmptot = ztmp1 + ztmp2 + ztmp3 + ztmp4 + ztmp5 + rtrn 143 174 ztmp1 = ztmp1 / ztmptot … … 149 180 ! Microzooplankton regular grazing on the different preys 150 181 ! ------------------------------------------------------- 182 ! Nanophytoplankton 151 183 zgraznc = zgraze * ztmp1 * zdenom 152 184 zgraznn = zgraznc * tr(ji,jj,jk,jpnph,Kbb) / (tr(ji,jj,jk,jpphy,Kbb) + rtrn) 153 185 zgraznp = zgraznc * tr(ji,jj,jk,jppph,Kbb) / (tr(ji,jj,jk,jpphy,Kbb) + rtrn) 154 186 zgraznf = zgraznc * tr(ji,jj,jk,jpnfe,Kbb) / (tr(ji,jj,jk,jpphy,Kbb) + rtrn) 187 188 ! Picophytoplankton 155 189 zgrazpc = zgraze * ztmp2 * zdenom 156 190 zgrazpn = zgrazpc * tr(ji,jj,jk,jpnpi,Kbb) / (tr(ji,jj,jk,jppic,Kbb) + rtrn) 157 191 zgrazpp = zgrazpc * tr(ji,jj,jk,jpppi,Kbb) / (tr(ji,jj,jk,jppic,Kbb) + rtrn) 158 192 zgrazpf = zgrazpc * tr(ji,jj,jk,jppfe,Kbb) / (tr(ji,jj,jk,jppic,Kbb) + rtrn) 193 194 ! Microzooplankton 159 195 zgrazz = zgraze * ztmp5 * zdenom 196 197 ! small POC 160 198 zgrazpoc = zgraze * ztmp3 * zdenom 161 199 zgrazpon = zgrazpoc * tr(ji,jj,jk,jppon,Kbb) / ( tr(ji,jj,jk,jppoc,Kbb) + rtrn ) 162 200 zgrazpop = zgrazpoc * tr(ji,jj,jk,jppop,Kbb) / ( tr(ji,jj,jk,jppoc,Kbb) + rtrn ) 163 201 zgrazpof = zgrazpoc* tr(ji,jj,jk,jpsfe,Kbb) / (tr(ji,jj,jk,jppoc,Kbb) + rtrn) 202 203 ! Diatoms 164 204 zgrazdc = zgraze * ztmp4 * zdenom 165 205 zgrazdn = zgrazdc * tr(ji,jj,jk,jpndi,Kbb) / (tr(ji,jj,jk,jpdia,Kbb) + rtrn) … … 167 207 zgrazdf = zgrazdc * tr(ji,jj,jk,jpdfe,Kbb) / (tr(ji,jj,jk,jpdia,Kbb) + rtrn) 168 208 ! 209 ! Total ingestion rates in C, P, Fe, N 169 210 zgraztotc = zgraznc + zgrazpoc + zgrazdc + zgrazz + zgrazpc 170 211 zgraztotn = zgraznn + zgrazpn + zgrazpon + zgrazdn + zgrazz * no3rat3 171 212 zgraztotp = zgraznp + zgrazpp + zgrazpop + zgrazdp + zgrazz * po4rat3 172 zgraztotf = zgraznf + zgrazpf + zgrazpof + zgrazdf + zgrazz * ferat 3213 zgraztotf = zgraznf + zgrazpf + zgrazpof + zgrazdf + zgrazz * feratz 173 214 ! 174 215 ! Grazing by microzooplankton … … 181 222 zgrasratp = (zgraztotp + rtrn) / ( zgraztotc + rtrn ) 182 223 183 ! Growth efficiency is made a function of the quality 184 ! and the quantity of the preys 185 ! --------------------------------------------------- 186 zepshert = MIN( 1., zgrasratn/ no3rat3, zgrasratp/ po4rat3, zgrasratf / ferat3) 224 ! Mesozooplankton efficiency. 225 ! We adopt a formulation proposed by Mitra et al. (2007) 226 ! The gross growth efficiency is controled by the most limiting nutrient. 227 ! Growth is also further decreased when the food quality is poor. This is currently 228 ! hard coded : it can be decreased by up to 50% (zepsherq) 229 ! GGE can also be decreased when food quantity is high, zepsherf (Montagnes and 230 ! Fulton, 2012) 231 ! ----------------------------------------------------------------------------------- 232 zepshert = MIN( 1., zgrasratn/ no3rat3, zgrasratp/ po4rat3, zgrasratf / feratz) 187 233 zbeta = MAX( 0., (epsher - epshermin) ) 234 ! Food density deprivation of GGE 188 235 zepsherf = epshermin + zbeta / ( 1.0 + 0.04E6 * 12. * zfood * zbeta ) 189 zepsherv = zepsherf * zepshert 190 191 ! Respiration of microzooplankton 192 ! Excess carbon in the food is used preferentially 193 ! ------------------------------------------------ 236 ! Food quality deprivation of GGE 237 zepsherq = 0.5 + (1.0 - 0.5) * zepshert * ( 1.0 + 1.0 ) / ( zepshert + 1.0 ) 238 ! Actual GGE 239 zepsherv = zepsherf * zepshert * zepsherq 240 241 ! Respiration of microzooplankton 242 ! Excess carbon in the food is used preferentially 243 ! when activated by zmetexcess 244 ! ------------------------------------------------ 194 245 zexcess = zgraztotc * zepsherf * (1.0 - zepshert) * zmetexcess 195 246 zbasresb = MAX(0., zrespz - zexcess) … … 197 248 zrespirc = srespir * zepsherv * zgraztotc + zbasresb 198 249 199 ! 200 ! 201 ! 250 ! When excess carbon is used, the other elements in excess 251 ! are also used proportionally to their abundance 252 ! -------------------------------------------------------- 202 253 zexcess = ( zgrasratn/ no3rat3 - zepshert ) / ( 1.0 - zepshert + rtrn) 203 254 zbasresn = zbasresi * zexcess * zgrasratn 204 255 zexcess = ( zgrasratp/ po4rat3 - zepshert ) / ( 1.0 - zepshert + rtrn) 205 256 zbasresp = zbasresi * zexcess * zgrasratp 206 zexcess = ( zgrasratf/ ferat 3- zepshert ) / ( 1.0 - zepshert + rtrn)257 zexcess = ( zgrasratf/ feratz - zepshert ) / ( 1.0 - zepshert + rtrn) 207 258 zbasresf = zbasresi * zexcess * zgrasratf 208 259 209 ! 210 ! 260 ! Voiding of the excessive elements as DOM 261 ! ---------------------------------------- 211 262 zgradoct = (1. - unassc - zepsherv) * zgraztotc - zbasresi 212 263 zgradont = (1. - unassn) * zgraztotn - zepsherv * no3rat3 * zgraztotc - zbasresn 213 264 zgradopt = (1. - unassp) * zgraztotp - zepsherv * po4rat3 * zgraztotc - zbasresp 214 zgrareft = (1. - unassc) * zgraztotf - zepsherv * ferat 3* zgraztotc - zbasresf215 216 ! 217 ! 218 ! 219 ! 265 zgrareft = (1. - unassc) * zgraztotf - zepsherv * feratz * zgraztotc - zbasresf 266 267 ! Since only semilabile DOM is represented in PISCES 268 ! part of DOM is in fact labile and is then released 269 ! as dissolved inorganic compounds (ssigma) 270 ! -------------------------------------------------- 220 271 zgradoc = zgradoct * ssigma 221 272 zgradon = zgradont * ssigma … … 226 277 zgraref = zgrareft 227 278 228 ! 229 ! 279 ! Defecation as a result of non assimilated products 280 ! -------------------------------------------------- 230 281 zgrapoc = zgraztotc * unassc 231 282 zgrapon = zgraztotn * unassn … … 233 284 zgrapof = zgraztotf * unassc 234 285 235 ! 236 ! 286 ! Addition of respiration to the release of inorganic nutrients 287 ! ------------------------------------------------------------- 237 288 zgrarem = zgrarem + zbasresi + zrespirc 238 289 zgraren = zgraren + zbasresn + zrespirc * no3rat3 239 290 zgrarep = zgrarep + zbasresp + zrespirc * po4rat3 240 zgraref = zgraref + zbasresf + zrespirc * ferat 3291 zgraref = zgraref + zbasresf + zrespirc * feratz 241 292 242 293 ! Update of the TRA arrays … … 279 330 tr(ji,jj,jk,jppon,Krhs) = tr(ji,jj,jk,jppon,Krhs) + no3rat3 * ztortz + zgrapon - zgrazpon 280 331 tr(ji,jj,jk,jppop,Krhs) = tr(ji,jj,jk,jppop,Krhs) + po4rat3 * ztortz + zgrapop - zgrazpop 281 tr(ji,jj,jk,jpsfe,Krhs) = tr(ji,jj,jk,jpsfe,Krhs) + ferat 3* ztortz + zgrapof - zgrazpof332 tr(ji,jj,jk,jpsfe,Krhs) = tr(ji,jj,jk,jpsfe,Krhs) + feratz * ztortz + zgrapof - zgrazpof 282 333 ! 283 334 ! calcite production … … 287 338 zprcaca = part * zprcaca 288 339 tr(ji,jj,jk,jpdic,Krhs) = tr(ji,jj,jk,jpdic,Krhs) + zgrarem - zprcaca 289 tr(ji,jj,jk,jptal,Krhs) = tr(ji,jj,jk,jptal,Krhs) - 2. * zprcaca & 290 & + rno3 * zgraren 340 tr(ji,jj,jk,jptal,Krhs) = tr(ji,jj,jk,jptal,Krhs) - 2. * zprcaca + rno3 * zgraren 291 341 tr(ji,jj,jk,jpcal,Krhs) = tr(ji,jj,jk,jpcal,Krhs) + zprcaca 292 342 END_3D … … 321 371 !! ** Purpose : Initialization of microzooplankton parameters 322 372 !! 323 !! ** Method : Read the namp iszoo namelist and check the parameters373 !! ** Method : Read the namp5zzoo namelist and check the parameters 324 374 !! called at the first timestep (nittrc000) 325 375 !! 326 !! ** input : Namelist namp iszoo376 !! ** input : Namelist namp5zzoo 327 377 !! 328 378 !!---------------------------------------------------------------------- … … 332 382 & xprefp, xprefd, xprefz, xthreshdia, xthreshphy, & 333 383 & xthreshpic, xthreshpoc, xthreshzoo, xthresh, xkgraz, & 334 & epsher, epshermin, ssigma, srespir, unassc, unassn, unassp 384 & epsher, epshermin, ssigma, srespir, unassc, unassn, unassp, & 385 & xsigma, xsigmadel 335 386 !!---------------------------------------------------------------------- 336 387 ! … … 370 421 WRITE(numout,*) ' half sturation constant for grazing 1 xkgraz =', xkgraz 371 422 WRITE(numout,*) ' Use of excess carbon for respiration bmetexc =', bmetexc 423 WRITE(numout,*) ' Width of the grazing window xsigma =', xsigma 424 WRITE(numout,*) ' Maximum additional width of the grazing window xsigmadel =', xsigmadel 372 425 ENDIF 373 426 !
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