/[MITgcm]/MITgcm/model/inc/PARAMS.h
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revision 1.247 by jmc, Tue Feb 22 18:35:30 2011 UTC revision 1.264 by jmc, Wed Jul 4 20:17:46 2012 UTC
# Line 64  C     viscA4Zfile     :: File containing Line 64  C     viscA4Zfile     :: File containing
64  C     zonalWindFile   :: File containing zonal wind data  C     zonalWindFile   :: File containing zonal wind data
65  C     meridWindFile   :: File containing meridional wind data  C     meridWindFile   :: File containing meridional wind data
66  C     thetaClimFile   :: File containing surface theta climataology used  C     thetaClimFile   :: File containing surface theta climataology used
67  C                       in relaxation term -lambda(theta-theta*)  C                        in relaxation term -lambda(theta-theta*)
68  C     saltClimFile    :: File containing surface salt climataology used  C     saltClimFile    :: File containing surface salt climataology used
69  C                       in relaxation term -lambda(salt-salt*)  C                        in relaxation term -lambda(salt-salt*)
70  C     surfQfile       :: File containing surface heat flux, excluding SW  C     surfQfile       :: File containing surface heat flux, excluding SW
71  C                        (old version, kept for backward compatibility)  C                        (old version, kept for backward compatibility)
72  C     surfQnetFile    :: File containing surface net heat flux  C     surfQnetFile    :: File containing surface net heat flux
# Line 143  C     the_run_name    :: string identify Line 143  C     the_run_name    :: string identify
143    
144  C--   COMMON /PARM_I/ Integer valued parameters used by the model.  C--   COMMON /PARM_I/ Integer valued parameters used by the model.
145  C     cg2dMaxIters        :: Maximum number of iterations in the  C     cg2dMaxIters        :: Maximum number of iterations in the
146  C                           two-dimensional con. grad solver.  C                            two-dimensional con. grad solver.
147  C     cg2dChkResFreq      :: Frequency with which to check residual  C     cg2dChkResFreq      :: Frequency with which to check residual
148  C                           in con. grad solver.  C                            in con. grad solver.
149  C     cg2dPreCondFreq     :: Frequency for updating cg2d preconditioner  C     cg2dPreCondFreq     :: Frequency for updating cg2d preconditioner
150  C                            (non-linear free-surf.)  C                            (non-linear free-surf.)
151  C     cg3dMaxIters        :: Maximum number of iterations in the  C     cg3dMaxIters        :: Maximum number of iterations in the
152  C                           three-dimensional con. grad solver.  C                            three-dimensional con. grad solver.
153  C     cg3dChkResFreq      :: Frequency with which to check residual  C     cg3dChkResFreq      :: Frequency with which to check residual
154  C                           in con. grad solver.  C                            in con. grad solver.
155    C     printResidualFreq   :: Frequency for printing residual in CG iterations
156  C     nIter0              :: Start time-step number of for this run  C     nIter0              :: Start time-step number of for this run
157  C     nTimeSteps          :: Number of timesteps to execute  C     nTimeSteps          :: Number of timesteps to execute
158  C     writeStatePrec      :: Precision used for writing model state.  C     writeStatePrec      :: Precision used for writing model state.
# Line 173  C     selectAddFluid      :: option to a Line 174  C     selectAddFluid      :: option to a
174  C                            (3-D generalisation of oceanic real-fresh water flux)  C                            (3-D generalisation of oceanic real-fresh water flux)
175  C                           =0 off ; =1 add fluid ; =-1 virtual flux (no mass added)  C                           =0 off ; =1 add fluid ; =-1 virtual flux (no mass added)
176  C     momForcingOutAB     :: =1: take momentum forcing contribution  C     momForcingOutAB     :: =1: take momentum forcing contribution
177  C                           out of (=0: in) Adams-Bashforth time stepping.  C                            out of (=0: in) Adams-Bashforth time stepping.
178  C     tracForcingOutAB    :: =1: take tracer (Temp,Salt,pTracers) forcing contribution  C     tracForcingOutAB    :: =1: take tracer (Temp,Salt,pTracers) forcing contribution
179  C                           out of (=0: in) Adams-Bashforth time stepping.  C                            out of (=0: in) Adams-Bashforth time stepping.
180  C     tempAdvScheme       :: Temp. Horiz.Advection scheme selector  C     tempAdvScheme       :: Temp. Horiz.Advection scheme selector
181  C     tempVertAdvScheme   :: Temp. Vert. Advection scheme selector  C     tempVertAdvScheme   :: Temp. Vert. Advection scheme selector
182  C     saltAdvScheme       :: Salt. Horiz.advection scheme selector  C     saltAdvScheme       :: Salt. Horiz.advection scheme selector
# Line 188  C-    debugLevel          :: controls pr Line 189  C-    debugLevel          :: controls pr
189  C                            and statistics ; higher -> more writing  C                            and statistics ; higher -> more writing
190    
191        COMMON /PARM_I/        COMMON /PARM_I/
192       &        cg2dMaxIters,       &        cg2dMaxIters, cg2dChkResFreq, cg2dPreCondFreq,
193       &        cg2dChkResFreq, cg2dPreCondFreq,       &        cg3dMaxIters, cg3dChkResFreq,
194       &        cg3dMaxIters,       &        printResidualFreq,
      &        cg3dChkResFreq,  
195       &        nIter0, nTimeSteps, nEndIter,       &        nIter0, nTimeSteps, nEndIter,
196       &        writeStatePrec,       &        writeStatePrec,
197       &        writeBinaryPrec, readBinaryPrec,       &        writeBinaryPrec, readBinaryPrec,
# Line 210  C                            and statist Line 210  C                            and statist
210        INTEGER cg2dPreCondFreq        INTEGER cg2dPreCondFreq
211        INTEGER cg3dMaxIters        INTEGER cg3dMaxIters
212        INTEGER cg3dChkResFreq        INTEGER cg3dChkResFreq
213          INTEGER printResidualFreq
214        INTEGER nIter0        INTEGER nIter0
215        INTEGER nTimeSteps        INTEGER nTimeSteps
216        INTEGER nEndIter        INTEGER nEndIter
# Line 233  C                            and statist Line 234  C                            and statist
234  C--   COMMON /PARM_L/ Logical valued parameters used by the model.  C--   COMMON /PARM_L/ Logical valued parameters used by the model.
235  C- Coordinate + Grid params:  C- Coordinate + Grid params:
236  C     fluidIsAir       :: Set to indicate that the fluid major constituent  C     fluidIsAir       :: Set to indicate that the fluid major constituent
237  C                        is air  C                         is air
238  C     fluidIsWater     :: Set to indicate that the fluid major constituent  C     fluidIsWater     :: Set to indicate that the fluid major constituent
239  C                        is water  C                         is water
240  C     usingPCoords     :: Set to indicate that we are working in a pressure  C     usingPCoords     :: Set to indicate that we are working in a pressure
241  C                        type coordinate (p or p*).  C                         type coordinate (p or p*).
242  C     usingZCoords     :: Set to indicate that we are working in a height  C     usingZCoords     :: Set to indicate that we are working in a height
243  C                        type coordinate (z or z*)  C                         type coordinate (z or z*)
244  C     useDynP_inEos_Zc :: use the dynamical pressure in EOS (with Z-coord.)  C     useDynP_inEos_Zc   :: use the dynamical pressure in EOS (with Z-coord.)
245  C                         this requires specific code for restart & exchange  C                           this requires specific code for restart & exchange
246  C     usingCartesianGrid :: If TRUE grid generation will be in a cartesian  C     usingCartesianGrid :: If TRUE grid generation will be in a cartesian
247  C                          coordinate frame.  C                           coordinate frame.
248  C     usingSphericalPolarGrid :: If TRUE grid generation will be in a  C     usingSphericalPolarGrid :: If TRUE grid generation will be in a
249  C                               spherical polar frame.  C                                spherical polar frame.
250  C     rotateGrid      :: rotate grid coordinates to geographical coordinates  C     rotateGrid      :: rotate grid coordinates to geographical coordinates
251  C                        according to Euler angles phiEuler, thetaEuler, psiEuler  C                        according to Euler angles phiEuler, thetaEuler, psiEuler
252  C     usingCurvilinearGrid :: If TRUE, use a curvilinear grid (to be provided)  C     usingCurvilinearGrid :: If TRUE, use a curvilinear grid (to be provided)
# Line 281  C     highOrderVorticity :: use 3rd/4th Line 282  C     highOrderVorticity :: use 3rd/4th
282  C     useAbsVorticity :: work with f+zeta in Coriolis terms  C     useAbsVorticity :: work with f+zeta in Coriolis terms
283  C     upwindShear        :: use 1rst order upwind interp. (V.I., vertical advection)  C     upwindShear        :: use 1rst order upwind interp. (V.I., vertical advection)
284  C     momStepping    :: Turns momentum equation time-stepping off  C     momStepping    :: Turns momentum equation time-stepping off
285    C     calc_wVelocity :: Turns of vertical velocity calculation off
286  C- Temp. & Salt params:  C- Temp. & Salt params:
287  C     tempStepping   :: Turns temperature equation time-stepping off  C     tempStepping   :: Turns temperature equation time-stepping off
288  C     saltStepping   :: Turns salinity equation time-stepping off  C     saltStepping   :: Turns salinity equation time-stepping off
289  C     tempAdvection  :: Flag which turns advection of temperature on and off.  C     tempAdvection  :: Flag which turns advection of temperature on and off.
290    C     tempVertDiff4  :: use vertical bi-harmonic diffusion for temperature
291  C     tempIsActiveTr :: Pot.Temp. is a dynamically active tracer  C     tempIsActiveTr :: Pot.Temp. is a dynamically active tracer
292  C     tempForcing    :: Flag which turns external forcing of temperature on  C     tempForcing    :: Flag which turns external forcing of temperature on
293  C                       and off.  C                       and off.
294  C     saltAdvection  :: Flag which turns advection of salinity on and off.  C     saltAdvection  :: Flag which turns advection of salinity on and off.
295    C     saltVertDiff4  :: use vertical bi-harmonic diffusion for salinity
296  C     saltIsActiveTr :: Salinity  is a dynamically active tracer  C     saltIsActiveTr :: Salinity  is a dynamically active tracer
297  C     saltForcing    :: Flag which turns external forcing of salinity on  C     saltForcing    :: Flag which turns external forcing of salinity on
298  C                       and off.  C                       and off.
# Line 296  C     maskIniTemp    :: apply mask to in Line 300  C     maskIniTemp    :: apply mask to in
300  C     maskIniSalt    :: apply mask to initial salinity  C     maskIniSalt    :: apply mask to initial salinity
301  C     checkIniTemp   :: check for points with identically zero initial Pot.Temp.  C     checkIniTemp   :: check for points with identically zero initial Pot.Temp.
302  C     checkIniSalt   :: check for points with identically zero initial salinity  C     checkIniSalt   :: check for points with identically zero initial salinity
 C     useRealFreshWaterFlux :: if True (=Natural BCS), treats P+R-E flux  
 C                         as a real Fresh Water (=> changes the Sea Level)  
 C                         if F, converts P+R-E to salt flux (no SL effect)  
303  C- Pressure solver related parameters (PARM02)  C- Pressure solver related parameters (PARM02)
304  C     useSRCGSolver  :: Set to true to use conjugate gradient  C     useSRCGSolver  :: Set to true to use conjugate gradient
305  C                       solver with single reduction (only one call of  C                       solver with single reduction (only one call of
306  C                       s/r mpi_allreduce), default is false  C                       s/r mpi_allreduce), default is false
307  C- Time-stepping params:  C- Time-stepping & free-surface params:
308  C     rigidLid            :: Set to true to use rigid lid  C     rigidLid            :: Set to true to use rigid lid
309  C     implicitFreeSurface :: Set to true to use implicit free surface  C     implicitFreeSurface :: Set to true to use implicit free surface
310    C     uniformLin_PhiSurf  :: Set to true to use a uniform Bo_surf in the
311    C                            linear relation Phi_surf = Bo_surf*eta
312    C     uniformFreeSurfLev  :: TRUE if free-surface level-index is uniform (=1)
313  C     exactConserv        :: Set to true to conserve exactly the total Volume  C     exactConserv        :: Set to true to conserve exactly the total Volume
314  C     linFSConserveTr     :: Set to true to correct source/sink of tracer  C     linFSConserveTr     :: Set to true to correct source/sink of tracer
315  C                            at the surface due to Linear Free Surface  C                            at the surface due to Linear Free Surface
316  C     uniformLin_PhiSurf  :: Set to true to use a uniform Bo_surf in the  C     useRealFreshWaterFlux :: if True (=Natural BCS), treats P+R-E flux
317  C                            linear relation Phi_surf = Bo_surf*eta  C                         as a real Fresh Water (=> changes the Sea Level)
318    C                         if F, converts P+R-E to salt flux (no SL effect)
319  C     quasiHydrostatic :: Using non-hydrostatic terms in hydrostatic algorithm  C     quasiHydrostatic :: Using non-hydrostatic terms in hydrostatic algorithm
320  C     nonHydrostatic   :: Using non-hydrostatic algorithm  C     nonHydrostatic   :: Using non-hydrostatic algorithm
321  C     use3Dsolver      :: set to true to use 3-D pressure solver  C     use3Dsolver      :: set to true to use 3-D pressure solver
322  C     implicitIntGravWave :: treat Internal Gravity Wave implicitly  C     implicitIntGravWave :: treat Internal Gravity Wave implicitly
323  C     staggerTimeStep   :: enable a Stagger time stepping U,V (& W) then T,S  C     staggerTimeStep   :: enable a Stagger time stepping U,V (& W) then T,S
324    C     doResetHFactors   :: Do reset thickness factors @ beginning of each time-step
325  C     implicitDiffusion :: Turns implicit vertical diffusion on  C     implicitDiffusion :: Turns implicit vertical diffusion on
326  C     implicitViscosity :: Turns implicit vertical viscosity on  C     implicitViscosity :: Turns implicit vertical viscosity on
327  C     tempImplVertAdv :: Turns on implicit vertical advection for Temperature  C     tempImplVertAdv :: Turns on implicit vertical advection for Temperature
# Line 335  C     doThetaClimRelax :: Set true if re Line 341  C     doThetaClimRelax :: Set true if re
341  C                        climatology is required.  C                        climatology is required.
342  C     doSaltClimRelax  :: Set true if relaxation to salinity  C     doSaltClimRelax  :: Set true if relaxation to salinity
343  C                        climatology is required.  C                        climatology is required.
344    C     balanceThetaClimRelax :: substract global mean effect at every time step
345    C     balanceSaltClimRelax :: substract global mean effect at every time step
346  C     allowFreezing  :: Allows surface water to freeze and form ice  C     allowFreezing  :: Allows surface water to freeze and form ice
347  C     useOldFreezing :: use the old version (before checkpoint52a_pre, 2003-11-12)  C     useOldFreezing :: use the old version (before checkpoint52a_pre, 2003-11-12)
348  C     periodicExternalForcing :: Set true if forcing is time-dependant  C     periodicExternalForcing :: Set true if forcing is time-dependant
# Line 356  C     snapshot_mdsio     :: use mdsio fo Line 364  C     snapshot_mdsio     :: use mdsio fo
364  C     monitor_stdio      :: use stdio for monitor output  C     monitor_stdio      :: use stdio for monitor output
365  C     dumpInitAndLast :: dumps model state to files at Initial (nIter0)  C     dumpInitAndLast :: dumps model state to files at Initial (nIter0)
366  C                        & Last iteration, in addition multiple of dumpFreq iter.  C                        & Last iteration, in addition multiple of dumpFreq iter.
 C     debugMode       :: controls printing of debug msg (sequence of S/R calls).  
367  C     printDomain     :: controls printing of domain fields (bathy, hFac ...).  C     printDomain     :: controls printing of domain fields (bathy, hFac ...).
368    
369        COMMON /PARM_L/        COMMON /PARM_L/
# Line 374  C     printDomain     :: controls printi Line 381  C     printDomain     :: controls printi
381       & useEnergyConservingCoriolis, useJamartWetPoints, useJamartMomAdv,       & useEnergyConservingCoriolis, useJamartWetPoints, useJamartMomAdv,
382       & upwindVorticity, highOrderVorticity,       & upwindVorticity, highOrderVorticity,
383       & useAbsVorticity, upwindShear,       & useAbsVorticity, upwindShear,
384       & momStepping, tempStepping, saltStepping,       & momStepping, calc_wVelocity, tempStepping, saltStepping,
385       & tempAdvection, tempIsActiveTr, tempForcing,       & tempAdvection, tempVertDiff4, tempIsActiveTr, tempForcing,
386       & saltAdvection, saltIsActiveTr, saltForcing,       & saltAdvection, saltVertDiff4, saltIsActiveTr, saltForcing,
387       & maskIniTemp, maskIniSalt, checkIniTemp, checkIniSalt,       & maskIniTemp, maskIniSalt, checkIniTemp, checkIniSalt,
388       & useRealFreshWaterFlux, useSRCGSolver,       & useSRCGSolver,
389       & rigidLid, implicitFreeSurface, exactConserv, linFSConserveTr,       & rigidLid, implicitFreeSurface,
390       & uniformLin_PhiSurf,       & uniformLin_PhiSurf, uniformFreeSurfLev,
391       & quasiHydrostatic, nonHydrostatic,       & exactConserv, linFSConserveTr, useRealFreshWaterFlux,
392       & use3Dsolver, implicitIntGravWave, staggerTimeStep,       & quasiHydrostatic, nonHydrostatic, use3Dsolver,
393         & implicitIntGravWave, staggerTimeStep, doResetHFactors,
394       & implicitDiffusion, implicitViscosity,       & implicitDiffusion, implicitViscosity,
395       & tempImplVertAdv, saltImplVertAdv, momImplVertAdv,       & tempImplVertAdv, saltImplVertAdv, momImplVertAdv,
396       & multiDimAdvection, useMultiDimAdvec,       & multiDimAdvection, useMultiDimAdvec,
397       & momDissip_In_AB, doAB_onGtGs,       & momDissip_In_AB, doAB_onGtGs,
398       & balanceEmPmR, balanceQnet, balancePrintMean,       & balanceEmPmR, balanceQnet, balancePrintMean,
399         & balanceThetaClimRelax, balanceSaltClimRelax,
400       & doThetaClimRelax, doSaltClimRelax,       & doThetaClimRelax, doSaltClimRelax,
401       & allowFreezing, useOldFreezing,       & allowFreezing, useOldFreezing,
402       & periodicExternalForcing,       & periodicExternalForcing,
# Line 397  C     printDomain     :: controls printi Line 406  C     printDomain     :: controls printi
406       & writePickupAtEnd,       & writePickupAtEnd,
407       & timeave_mdsio, snapshot_mdsio, monitor_stdio,       & timeave_mdsio, snapshot_mdsio, monitor_stdio,
408       & outputTypesInclusive, dumpInitAndLast,       & outputTypesInclusive, dumpInitAndLast,
409       & debugMode, printDomain,       & printDomain
      & inAdMode, inAdTrue, inAdFalse, inAdExact  
410    
411        LOGICAL fluidIsAir        LOGICAL fluidIsAir
412        LOGICAL fluidIsWater        LOGICAL fluidIsWater
# Line 425  C     printDomain     :: controls printi Line 433  C     printDomain     :: controls printi
433        LOGICAL useCoriolis        LOGICAL useCoriolis
434        LOGICAL vectorInvariantMomentum        LOGICAL vectorInvariantMomentum
435        LOGICAL tempAdvection        LOGICAL tempAdvection
436          LOGICAL tempVertDiff4
437        LOGICAL tempIsActiveTr        LOGICAL tempIsActiveTr
438        LOGICAL tempForcing        LOGICAL tempForcing
439        LOGICAL saltAdvection        LOGICAL saltAdvection
440          LOGICAL saltVertDiff4
441        LOGICAL saltIsActiveTr        LOGICAL saltIsActiveTr
442        LOGICAL saltForcing        LOGICAL saltForcing
443        LOGICAL maskIniTemp        LOGICAL maskIniTemp
444        LOGICAL maskIniSalt        LOGICAL maskIniSalt
445        LOGICAL checkIniTemp        LOGICAL checkIniTemp
446        LOGICAL checkIniSalt        LOGICAL checkIniSalt
       LOGICAL useRealFreshWaterFlux  
447        LOGICAL useSRCGSolver        LOGICAL useSRCGSolver
448        LOGICAL rigidLid        LOGICAL rigidLid
449        LOGICAL implicitFreeSurface        LOGICAL implicitFreeSurface
450          LOGICAL uniformLin_PhiSurf
451          LOGICAL uniformFreeSurfLev
452        LOGICAL exactConserv        LOGICAL exactConserv
453        LOGICAL linFSConserveTr        LOGICAL linFSConserveTr
454        LOGICAL uniformLin_PhiSurf        LOGICAL useRealFreshWaterFlux
455        LOGICAL quasiHydrostatic        LOGICAL quasiHydrostatic
456        LOGICAL nonHydrostatic        LOGICAL nonHydrostatic
457        LOGICAL use3Dsolver        LOGICAL use3Dsolver
458        LOGICAL implicitIntGravWave        LOGICAL implicitIntGravWave
459        LOGICAL staggerTimeStep        LOGICAL staggerTimeStep
460          LOGICAL doResetHFactors
461        LOGICAL momStepping        LOGICAL momStepping
462          LOGICAL calc_wVelocity
463        LOGICAL tempStepping        LOGICAL tempStepping
464        LOGICAL saltStepping        LOGICAL saltStepping
465        LOGICAL metricTerms        LOGICAL metricTerms
# Line 473  C     printDomain     :: controls printi Line 486  C     printDomain     :: controls printi
486        LOGICAL balancePrintMean        LOGICAL balancePrintMean
487        LOGICAL doThetaClimRelax        LOGICAL doThetaClimRelax
488        LOGICAL doSaltClimRelax        LOGICAL doSaltClimRelax
489          LOGICAL balanceThetaClimRelax
490          LOGICAL balanceSaltClimRelax
491        LOGICAL allowFreezing        LOGICAL allowFreezing
492        LOGICAL useOldFreezing        LOGICAL useOldFreezing
493        LOGICAL periodicExternalForcing        LOGICAL periodicExternalForcing
# Line 485  C     printDomain     :: controls printi Line 500  C     printDomain     :: controls printi
500        LOGICAL timeave_mdsio, snapshot_mdsio, monitor_stdio        LOGICAL timeave_mdsio, snapshot_mdsio, monitor_stdio
501        LOGICAL outputTypesInclusive        LOGICAL outputTypesInclusive
502        LOGICAL dumpInitAndLast        LOGICAL dumpInitAndLast
503        LOGICAL debugMode, printDomain        LOGICAL printDomain
       LOGICAL inAdMode, inAdTrue, inAdFalse, inAdExact  
504    
505  C--   COMMON /PARM_R/ "Real" valued parameters used by the model.  C--   COMMON /PARM_R/ "Real" valued parameters used by the model.
506  C     cg2dTargetResidual  C     cg2dTargetResidual
# Line 512  C           defaults to 0.51 but can be Line 526  C           defaults to 0.51 but can be
526  C     delR      :: Vertical grid spacing ( units of r ).  C     delR      :: Vertical grid spacing ( units of r ).
527  C     delRc     :: Vertical grid spacing between cell centers (r unit).  C     delRc     :: Vertical grid spacing between cell centers (r unit).
528  C     delX      :: Separation between cell faces (m) or (deg), depending  C     delX      :: Separation between cell faces (m) or (deg), depending
529  C     delY        on input flags.  C     delY         on input flags. Note: moved to header file SET_GRID.h
530  C     xgOrigin   :: Origin of the X-axis (Cartesian Grid) / Longitude of Western  C     xgOrigin   :: Origin of the X-axis (Cartesian Grid) / Longitude of Western
531  C                :: most cell face (Lat-Lon grid) (Note: this is an "inert"  C                :: most cell face (Lat-Lon grid) (Note: this is an "inert"
532  C                :: parameter but it makes geographical references simple.)  C                :: parameter but it makes geographical references simple.)
# Line 522  C     gravity   :: Accel. due to gravity Line 536  C     gravity   :: Accel. due to gravity
536  C     recip_gravity and its inverse  C     recip_gravity and its inverse
537  C     gBaro     :: Accel. due to gravity used in barotropic equation ( m/s^2 )  C     gBaro     :: Accel. due to gravity used in barotropic equation ( m/s^2 )
538  C     rhoNil    :: Reference density for the linear equation of state  C     rhoNil    :: Reference density for the linear equation of state
539  C     rhoConst  :: Vertically constant reference density  C     rhoConst  :: Vertically constant reference density (Boussinesq)
540  C     rhoFacC   :: normalized (by rhoConst) reference density at cell-Center  C     rhoFacC   :: normalized (by rhoConst) reference density at cell-Center
541  C     rhoFacF   :: normalized (by rhoConst) reference density at cell-interFace  C     rhoFacF   :: normalized (by rhoConst) reference density at cell-interFace
542  C     rhoConstFresh :: Constant reference density for fresh water (rain)  C     rhoConstFresh :: Constant reference density for fresh water (rain)
# Line 530  C     rho1Ref   :: reference vertical pr Line 544  C     rho1Ref   :: reference vertical pr
544  C     tRef      :: reference vertical profile for potential temperature  C     tRef      :: reference vertical profile for potential temperature
545  C     sRef      :: reference vertical profile for salinity/specific humidity  C     sRef      :: reference vertical profile for salinity/specific humidity
546  C     phiRef    :: reference potential (pressure/rho, geopotential) profile  C     phiRef    :: reference potential (pressure/rho, geopotential) profile
547  C     dBdrRef   :: vertical gradient of reference boyancy  [(m/s/r)^2)]:  C     dBdrRef   :: vertical gradient of reference buoyancy  [(m/s/r)^2]:
548  C               :: z-coord: = N^2_ref = Brunt-Vaissala frequency [s^-2]  C               :: z-coord: = N^2_ref = Brunt-Vaissala frequency [s^-2]
549  C               :: p-coord: = -(d.alpha/dp)_ref          [(m^2.s/kg)^2]  C               :: p-coord: = -(d.alpha/dp)_ref          [(m^2.s/kg)^2]
550  C     rVel2wUnit :: units conversion factor (Non-Hydrostatic code),  C     rVel2wUnit :: units conversion factor (Non-Hydrostatic code),
# Line 601  C     viscA4GridMax:: maximum and minimu Line 615  C     viscA4GridMax:: maximum and minimu
615  C     viscA4GridMin::  in terms of non-dimensional grid-size dependent viscosity  C     viscA4GridMin::  in terms of non-dimensional grid-size dependent viscosity
616  C     diffKhT   :: Laplacian diffusion coeff. for mixing of  C     diffKhT   :: Laplacian diffusion coeff. for mixing of
617  C                 heat laterally ( m^2/s )  C                 heat laterally ( m^2/s )
 C     diffKrNrT :: vertical profile of Laplacian diffusion coeff.  
 C                 for mixing of heat vertically ( units of r^2/s )  
618  C     diffK4T   :: Biharmonic diffusion coeff. for mixing of  C     diffK4T   :: Biharmonic diffusion coeff. for mixing of
619  C                 heat laterally ( m^4/s )  C                 heat laterally ( m^4/s )
620    C     diffKrNrT :: vertical profile of Laplacian diffusion coeff.
621    C                 for mixing of heat vertically ( units of r^2/s )
622    C     diffKr4T  :: vertical profile of Biharmonic diffusion coeff.
623    C                 for mixing of heat vertically ( units of r^4/s )
624  C     diffKhS  ::  Laplacian diffusion coeff. for mixing of  C     diffKhS  ::  Laplacian diffusion coeff. for mixing of
625  C                 salt laterally ( m^2/s )  C                 salt laterally ( m^2/s )
 C     diffKrNrS :: vertical profile of Laplacian diffusion coeff.  
 C                 for mixing of salt vertically ( units of r^2/s ),  
626  C     diffK4S   :: Biharmonic diffusion coeff. for mixing of  C     diffK4S   :: Biharmonic diffusion coeff. for mixing of
627  C                 salt laterally ( m^4/s )  C                 salt laterally ( m^4/s )
628    C     diffKrNrS :: vertical profile of Laplacian diffusion coeff.
629    C                 for mixing of salt vertically ( units of r^2/s ),
630    C     diffKr4S  :: vertical profile of Biharmonic diffusion coeff.
631    C                 for mixing of salt vertically ( units of r^4/s )
632  C     diffKrBL79surf :: T/S surface diffusivity (m^2/s) Bryan and Lewis, 1979  C     diffKrBL79surf :: T/S surface diffusivity (m^2/s) Bryan and Lewis, 1979
633  C     diffKrBL79deep :: T/S deep diffusivity (m^2/s) Bryan and Lewis, 1979  C     diffKrBL79deep :: T/S deep diffusivity (m^2/s) Bryan and Lewis, 1979
634  C     diffKrBL79scl  :: depth scale for arctan fn (m) Bryan and Lewis, 1979  C     diffKrBL79scl  :: depth scale for arctan fn (m) Bryan and Lewis, 1979
# Line 631  C                    are referenced to t Line 649  C                    are referenced to t
649  C     deltaTMom    :: Timestep for momemtum equations ( s )  C     deltaTMom    :: Timestep for momemtum equations ( s )
650  C     dTtracerLev  :: Timestep for tracer equations ( s ), function of level k  C     dTtracerLev  :: Timestep for tracer equations ( s ), function of level k
651  C     deltaTfreesurf :: Timestep for free-surface equation ( s )  C     deltaTfreesurf :: Timestep for free-surface equation ( s )
652  C     freesurfFac  :: Parameter to turn implicit free surface term on or off  C     freeSurfFac  :: Parameter to turn implicit free surface term on or off
653  C                    freesurfac = 1. uses implicit free surface  C                     freeSurFac = 1. uses implicit free surface
654  C                    freesurfac = 0. uses rigid lid  C                     freeSurFac = 0. uses rigid lid
655  C     abEps        :: Adams-Bashforth-2 stabilizing weight  C     abEps        :: Adams-Bashforth-2 stabilizing weight
656  C     alph_AB      :: Adams-Bashforth-3 primary factor  C     alph_AB      :: Adams-Bashforth-3 primary factor
657  C     beta_AB      :: Adams-Bashforth-3 secondary factor  C     beta_AB      :: Adams-Bashforth-3 secondary factor
# Line 658  C     endTime       :: Ending time for t Line 676  C     endTime       :: Ending time for t
676  C     chkPtFreq     :: Frequency of rolling check pointing ( s ).  C     chkPtFreq     :: Frequency of rolling check pointing ( s ).
677  C     pChkPtFreq    :: Frequency of permanent check pointing ( s ).  C     pChkPtFreq    :: Frequency of permanent check pointing ( s ).
678  C     dumpFreq      :: Frequency with which model state is written to  C     dumpFreq      :: Frequency with which model state is written to
679  C                     post-processing files ( s ).  C                      post-processing files ( s ).
680  C     diagFreq      :: Frequency with which model writes diagnostic output  C     diagFreq      :: Frequency with which model writes diagnostic output
681  C                     of intermediate quantities.  C                      of intermediate quantities.
682  C     afFacMom      :: Advection of momentum term tracer parameter  C     afFacMom      :: Advection of momentum term tracer parameter
683  C     vfFacMom      :: Momentum viscosity tracer parameter  C     vfFacMom      :: Momentum viscosity tracer parameter
684  C     pfFacMom      :: Momentum pressure forcing tracer parameter  C     pfFacMom      :: Momentum pressure forcing tracer parameter
# Line 714  C     thetaEuler    :: Euler angle, rota Line 732  C     thetaEuler    :: Euler angle, rota
732  C     psiEuler      :: Euler angle, rotation about new z-axis  C     psiEuler      :: Euler angle, rotation about new z-axis
733        COMMON /PARM_R/ cg2dTargetResidual, cg2dTargetResWunit,        COMMON /PARM_R/ cg2dTargetResidual, cg2dTargetResWunit,
734       & cg2dpcOffDFac, cg3dTargetResidual,       & cg2dpcOffDFac, cg3dTargetResidual,
735       & delR, delRc, delX, delY, xgOrigin, ygOrigin,       & delR, delRc, xgOrigin, ygOrigin,
736       & deltaT, deltaTmom, dTtracerLev, deltaTfreesurf, deltaTClock,       & deltaT, deltaTmom, dTtracerLev, deltaTfreesurf, deltaTClock,
737       & abEps, alph_AB, beta_AB,       & abEps, alph_AB, beta_AB,
738       & rSphere, recip_rSphere, radius_fromHorizGrid,       & rSphere, recip_rSphere, radius_fromHorizGrid,
# Line 728  C     psiEuler      :: Euler angle, rota Line 746  C     psiEuler      :: Euler angle, rota
746       & viscA4Grid, viscA4GridMax, viscA4GridMin,       & viscA4Grid, viscA4GridMax, viscA4GridMin,
747       & viscAhReMax, viscA4ReMax,       & viscAhReMax, viscA4ReMax,
748       & viscC4leith, viscC4leithD, viscArNr,       & viscC4leith, viscC4leithD, viscArNr,
749       & diffKhT, diffK4T, diffKrNrT,       & diffKhT, diffK4T, diffKrNrT, diffKr4T,
750       & diffKhS, diffK4S, diffKrNrS,       & diffKhS, diffK4S, diffKrNrS, diffKr4S,
751       & diffKrBL79surf, diffKrBL79deep, diffKrBL79scl, diffKrBL79Ho,       & diffKrBL79surf, diffKrBL79deep, diffKrBL79scl, diffKrBL79Ho,
752       & BL79LatVary,       & BL79LatVary,
753       & diffKrBLEQsurf, diffKrBLEQdeep, diffKrBLEQscl, diffKrBLEQHo,       & diffKrBLEQsurf, diffKrBLEQdeep, diffKrBLEQscl, diffKrBLEQHo,
# Line 737  C     psiEuler      :: Euler angle, rota Line 755  C     psiEuler      :: Euler angle, rota
755       & freeSurfFac, implicSurfPress, implicDiv2Dflow, implicitNHPress,       & freeSurfFac, implicSurfPress, implicDiv2Dflow, implicitNHPress,
756       & hFacMin, hFacMinDz, hFacInf, hFacSup,       & hFacMin, hFacMinDz, hFacInf, hFacSup,
757       & gravity, recip_gravity, gBaro,       & gravity, recip_gravity, gBaro,
758       & rhonil, recip_rhonil, rhoConst, recip_rhoConst,       & rhoNil, rhoConst, recip_rhoConst,
759       & rhoFacC, recip_rhoFacC, rhoFacF, recip_rhoFacF,       & rhoFacC, recip_rhoFacC, rhoFacF, recip_rhoFacF,
760       & rhoConstFresh, rho1Ref, tRef, sRef, phiRef, dBdrRef,       & rhoConstFresh, rho1Ref, tRef, sRef, phiRef, dBdrRef,
761       & rVel2wUnit, wUnit2rVel, mass2rUnit, rUnit2mass,       & rVel2wUnit, wUnit2rVel, mass2rUnit, rUnit2mass,
# Line 763  C     psiEuler      :: Euler angle, rota Line 781  C     psiEuler      :: Euler angle, rota
781        _RL cg2dpcOffDFac        _RL cg2dpcOffDFac
782        _RL delR(Nr)        _RL delR(Nr)
783        _RL delRc(Nr+1)        _RL delRc(Nr+1)
       _RL delX(Nx)  
       _RL delY(Ny)  
784        _RL xgOrigin        _RL xgOrigin
785        _RL ygOrigin        _RL ygOrigin
786        _RL deltaT        _RL deltaT
# Line 814  C     psiEuler      :: Euler angle, rota Line 830  C     psiEuler      :: Euler angle, rota
830        _RL viscC4leithD        _RL viscC4leithD
831        _RL viscC4smag        _RL viscC4smag
832        _RL diffKhT        _RL diffKhT
       _RL diffKrNrT(Nr)  
833        _RL diffK4T        _RL diffK4T
834          _RL diffKrNrT(Nr)
835          _RL diffKr4T(Nr)
836        _RL diffKhS        _RL diffKhS
       _RL diffKrNrS(Nr)  
837        _RL diffK4S        _RL diffK4S
838          _RL diffKrNrS(Nr)
839          _RL diffKr4S(Nr)
840        _RL diffKrBL79surf        _RL diffKrBL79surf
841        _RL diffKrBL79deep        _RL diffKrBL79deep
842        _RL diffKrBL79scl        _RL diffKrBL79scl
# Line 832  C     psiEuler      :: Euler angle, rota Line 850  C     psiEuler      :: Euler angle, rota
850        _RL gravity        _RL gravity
851        _RL recip_gravity        _RL recip_gravity
852        _RL gBaro        _RL gBaro
853        _RL rhonil,        recip_rhonil        _RL rhoNil
854        _RL rhoConst,      recip_rhoConst        _RL rhoConst,      recip_rhoConst
855        _RL rhoFacC(Nr),   recip_rhoFacC(Nr)        _RL rhoFacC(Nr),   recip_rhoFacC(Nr)
856        _RL rhoFacF(Nr+1), recip_rhoFacF(Nr+1)        _RL rhoFacF(Nr+1), recip_rhoFacF(Nr+1)
# Line 926  C Logical flags for selecting packages Line 944  C Logical flags for selecting packages
944        LOGICAL useKPP        LOGICAL useKPP
945        LOGICAL useGMRedi        LOGICAL useGMRedi
946        LOGICAL useDOWN_SLOPE        LOGICAL useDOWN_SLOPE
947          LOGICAL useBBL
948        LOGICAL useCAL        LOGICAL useCAL
949        LOGICAL useEXF        LOGICAL useEXF
950        LOGICAL useBulkForce        LOGICAL useBulkForce
# Line 933  C Logical flags for selecting packages Line 952  C Logical flags for selecting packages
952        LOGICAL useCheapAML        LOGICAL useCheapAML
953        LOGICAL useGrdchk        LOGICAL useGrdchk
954        LOGICAL useSMOOTH        LOGICAL useSMOOTH
955          LOGICAL usePROFILES
956        LOGICAL useECCO        LOGICAL useECCO
957        LOGICAL useSBO        LOGICAL useSBO
958        LOGICAL useFLT        LOGICAL useFLT
# Line 941  C Logical flags for selecting packages Line 961  C Logical flags for selecting packages
961        LOGICAL useRBCS        LOGICAL useRBCS
962        LOGICAL useOffLine        LOGICAL useOffLine
963        LOGICAL useMATRIX        LOGICAL useMATRIX
964          LOGICAL useFRAZIL
965        LOGICAL useSEAICE        LOGICAL useSEAICE
966        LOGICAL useSALT_PLUME        LOGICAL useSALT_PLUME
967        LOGICAL useShelfIce        LOGICAL useShelfIce
968          LOGICAL useStreamIce
969        LOGICAL useICEFRONT        LOGICAL useICEFRONT
970        LOGICAL useThSIce        LOGICAL useThSIce
971        LOGICAL useATM2d        LOGICAL useATM2d
# Line 961  C Logical flags for selecting packages Line 983  C Logical flags for selecting packages
983        COMMON /PARM_PACKAGES/        COMMON /PARM_PACKAGES/
984       &        useGAD, useOBCS, useSHAP_FILT, useZONAL_FILT,       &        useGAD, useOBCS, useSHAP_FILT, useZONAL_FILT,
985       &        useOPPS, usePP81, useMY82, useGGL90, useKPP,       &        useOPPS, usePP81, useMY82, useGGL90, useKPP,
986       &        useGMRedi, useDOWN_SLOPE,       &        useGMRedi, useBBL, useDOWN_SLOPE,
987       &        useCAL, useEXF, useBulkForce, useEBM, useCheapAML,       &        useCAL, useEXF, useBulkForce, useEBM, useCheapAML,
988       &        useGrdchk, useSMOOTH, useECCO, useSBO, useFLT,       &        useGrdchk,useSMOOTH,usePROFILES,useECCO,useSBO, useFLT,
989       &        usePTRACERS, useGCHEM, useRBCS, useOffLine, useMATRIX,       &        usePTRACERS, useGCHEM, useRBCS, useOffLine, useMATRIX,
990       &        useSEAICE, useSALT_PLUME, useShelfIce,       &        useFRAZIL, useSEAICE, useSALT_PLUME, useShelfIce,
991       &        useICEFRONT, useThSIce,       &        useStreamIce, useICEFRONT, useThSIce,
992       &        useATM2D, useAIM, useLand, useFizhi, useGridAlt,       &        useATM2D, useAIM, useLand, useFizhi, useGridAlt,
993       &        useDiagnostics, useREGRID, useLayers, useMNC,       &        useDiagnostics, useREGRID, useLayers, useMNC,
994       &        useRunClock, useEMBED_FILES,       &        useRunClock, useEMBED_FILES,
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