/[MITgcm]/MITgcm/model/inc/PARAMS.h

Diff of /MITgcm/model/inc/PARAMS.h

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-revision 1.74 by mlosch,
Wed Aug  7 16:55:52 2002 UTC
+revision 1.265 by jmc,
Fri Jul 13 20:34:31 2012 UTC
 Line 1
  C $Header$
  C $Name$
  C
  CBOP
- C    !ROUTINE: PARAMS.h
+ C     !ROUTINE: PARAMS.h
- C    !INTERFACE:
+ C     !INTERFACE:
- C    include PARAMS.h
+ C     #include PARAMS.h
- C    !DESCRIPTION: \bv
- C     *==========================================================*
+ C     !DESCRIPTION:
- C     | PARAMS.h
+ C     Header file defining model "parameters".  The values from the
- C     | o Header file defining model "parameters".
+ C     model standard input file are stored into the variables held
- C     *==========================================================*
+ C     here. Notes describing the parameters can also be found here.
- C     | The values from the model standard input file are
- C     | stored into the variables held here. Notes describing
- C     | the parameters can also be found here.
- C     *==========================================================*
- C     \ev
  CEOP
  C     Macros for special grid options
-Line 27 
 C     Useful physical values
+Line 24 
 C     Useful physical values
        Real*8 deg2rad
        PARAMETER ( deg2rad = 2.D0*PI/360.D0           )
- C     Symbolic values
- C     precXXXX :: Used to indicate what precision to use for
- C                dumping model state.
-       INTEGER precFloat32
-       PARAMETER ( precFloat32 = 32 )
-       INTEGER precFloat64
-       PARAMETER ( precFloat64 = 64 )
- C     UNSET_xxx :: Used to indicate variables that have not been given a value
-       Real*8 UNSET_FLOAT8
-       PARAMETER ( UNSET_FLOAT8 = 1.234567D5 )
-       Real*4 UNSET_FLOAT4
-       PARAMETER ( UNSET_FLOAT4 = 1.234567E5 )
-       _RL    UNSET_RL
-       PARAMETER ( UNSET_RL     = 1.234567D5 )
-       _RS    UNSET_RS
-       PARAMETER ( UNSET_RS     = 1.234567E5 )
-       INTEGER UNSET_I
-       PARAMETER ( UNSET_I      = 123456789  )
- C     Checkpoint data
-       INTEGER maxNoChkptLev
-       PARAMETER ( maxNoChkptLev = 2 )
  C--   COMMON /PARM_C/ Character valued parameters used by the model.
- C     checkPtSuff :: List of checkpoint file suffices
+ C     buoyancyRelation :: Flag used to indicate which relation to use to
- C     bathyFile   :: File containing bathymetry. If not defined bathymetry
+ C                         get buoyancy.
- C                   is taken from inline function.
+ C     eosType         :: choose the equation of state:
- C     topoFile    :: File containing the topography of the surface (unit=m)
+ C                        LINEAR, POLY3, UNESCO, JMD95Z, JMD95P, MDJWF, IDEALGAS
- C                   (mainly used for the atmosphere = ground height).
+ C     pickupSuff      :: force to start from pickup files (even if nIter0=0)
- C     hydrogThetaFile :: File containing initial hydrographic data for potential
+ C                        and read pickup files with this suffix (max 10 Char.)
- C                       temperature.
+ C     mdsioLocalDir   :: read-write tiled file from/to this directory name
- C     hydrogSaltFile  :: File containing initial hydrographic data for salinity.
+ C                        (+ 4 digits Processor-Rank) instead of current dir.
+ C     adTapeDir       :: read-write checkpointing tape files from/to this
+ C                        directory name instead of current dir. Conflicts
+ C                        mdsioLocalDir, so only one of the two can be set.
+ C                        In contrast to mdsioLocalDir, if specified adTapeDir
+ C                        must exist before the model starts.
+ C     tRefFile      :: File containing reference Potential Temperat.  tRef (1.D)
+ C     sRefFile      :: File containing reference salinity/spec.humid. sRef (1.D)
+ C     rhoRefFile    :: File containing reference density profile rhoRef (1.D)
+ C     delRFile      :: File containing vertical grid spacing delR  (1.D array)
+ C     delRcFile     :: File containing vertical grid spacing delRc (1.D array)
+ C     hybSigmFile   :: File containing hybrid-sigma vertical coord. coeff. (2x 1.D)
+ C     delXFile      :: File containing X-spacing grid definition (1.D array)
+ C     delYFile      :: File containing Y-spacing grid definition (1.D array)
+ C     horizGridFile :: File containing horizontal-grid definition
+ C                        (only when using curvilinear_grid)
+ C     bathyFile       :: File containing bathymetry. If not defined bathymetry
+ C                        is taken from inline function.
+ C     topoFile        :: File containing the topography of the surface (unit=m)
+ C                        (mainly used for the atmosphere = ground height).
+ C     hydrogThetaFile :: File containing initial hydrographic data (3-D)
+ C                        for potential temperature.
+ C     hydrogSaltFile  :: File containing initial hydrographic data (3-D)
+ C                        for salinity.
+ C     diffKrFile      :: File containing 3D specification of vertical diffusivity
+ C     viscAhDfile     :: File containing 3D specification of horizontal viscosity
+ C     viscAhZfile     :: File containing 3D specification of horizontal viscosity
+ C     viscA4Dfile     :: File containing 3D specification of horizontal viscosity
+ C     viscA4Zfile     :: File containing 3D specification of horizontal viscosity
  C     zonalWindFile   :: File containing zonal wind data
  C     meridWindFile   :: File containing meridional wind data
- C     thetaClimFile   :: File containing theta climataology used
+ C     thetaClimFile   :: File containing surface theta climataology used
- C                       in relaxation term -lambda(theta-theta*)
+ C                        in relaxation term -lambda(theta-theta*)
- C     saltClimFile    :: File containing salt climataology used
+ C     saltClimFile    :: File containing surface salt climataology used
- C                       in relaxation term -lambda(salt-salt*)
+ C                        in relaxation term -lambda(salt-salt*)
- C     surfQfile       :: File containing surface heat flux
+ C     surfQfile       :: File containing surface heat flux, excluding SW
- C     surfQswfile     :: File containing surface shortwave radiation
+ C                        (old version, kept for backward compatibility)
+ C     surfQnetFile    :: File containing surface net heat flux
+ C     surfQswFile     :: File containing surface shortwave radiation
  C     dQdTfile        :: File containing thermal relaxation coefficient
  C     EmPmRfile       :: File containing surface fresh water flux
+ C           NOTE: for backward compatibility EmPmRfile is specified in
+ C                 m/s when using external_fields_load.F.  It is converted
+ C                 to kg/m2/s by multiplying by rhoConstFresh.
+ C     saltFluxFile    :: File containing surface salt flux
  C     pLoadFile       :: File containing pressure loading
- C     buoyancyRelation :: Flag used to indicate which relation to use to
+ C     eddyPsiXFile    :: File containing zonal Eddy streamfunction data
- C                        get buoyancy.
+ C     eddyPsiYFile    :: File containing meridional Eddy streamfunction data
- C     eosType         :: choose the equation of state:
+ C     the_run_name    :: string identifying the name of the model "run"
- C                        LINEAR, POLY3, UNESCO, JMD95Z, JMD95P
+       COMMON /PARM_C/
-       COMMON /PARM_C/ checkPtSuff,
+      &                buoyancyRelation, eosType,
+      &                pickupSuff, mdsioLocalDir, adTapeDir,
+      &                tRefFile, sRefFile, rhoRefFile,
+      &                delRFile, delRcFile, hybSigmFile,
+      &                delXFile, delYFile, horizGridFile,
       &                bathyFile, topoFile,
-      &                hydrogThetaFile, hydrogSaltFile,
+      &                viscAhDfile, viscAhZfile,
+      &                viscA4Dfile, viscA4Zfile,
+      &                hydrogThetaFile, hydrogSaltFile, diffKrFile,
       &                zonalWindFile, meridWindFile, thetaClimFile,
-      &                saltClimFile, buoyancyRelation,
+      &                saltClimFile,
-      &                EmPmRfile, surfQfile, surfQswfile,
+      &                EmPmRfile, saltFluxFile,
+      &                surfQfile, surfQnetFile, surfQswFile,
+      &                lambdaThetaFile, lambdaSaltFile,
       &                uVelInitFile, vVelInitFile, pSurfInitFile,
       &                dQdTfile, ploadFile,
-      &                eosType
+      &                eddyPsiXFile, eddyPsiYFile,
-       CHARACTER*(5) checkPtSuff(maxNoChkptLev)
+      &                the_run_name
+       CHARACTER*(MAX_LEN_FNAM) buoyancyRelation
+       CHARACTER*(6)  eosType
+       CHARACTER*(10) pickupSuff
+       CHARACTER*(MAX_LEN_FNAM) mdsioLocalDir
+       CHARACTER*(MAX_LEN_FNAM) adTapeDir
+       CHARACTER*(MAX_LEN_FNAM) tRefFile
+       CHARACTER*(MAX_LEN_FNAM) sRefFile
+       CHARACTER*(MAX_LEN_FNAM) rhoRefFile
+       CHARACTER*(MAX_LEN_FNAM) delRFile
+       CHARACTER*(MAX_LEN_FNAM) delRcFile
+       CHARACTER*(MAX_LEN_FNAM) hybSigmFile
+       CHARACTER*(MAX_LEN_FNAM) delXFile
+       CHARACTER*(MAX_LEN_FNAM) delYFile
+       CHARACTER*(MAX_LEN_FNAM) horizGridFile
        CHARACTER*(MAX_LEN_FNAM) bathyFile, topoFile
-       CHARACTER*(MAX_LEN_FNAM) hydrogThetaFile
+       CHARACTER*(MAX_LEN_FNAM) hydrogThetaFile, hydrogSaltFile
-       CHARACTER*(MAX_LEN_FNAM) hydrogSaltFile
+       CHARACTER*(MAX_LEN_FNAM) diffKrFile
+       CHARACTER*(MAX_LEN_FNAM) viscAhDfile
+       CHARACTER*(MAX_LEN_FNAM) viscAhZfile
+       CHARACTER*(MAX_LEN_FNAM) viscA4Dfile
+       CHARACTER*(MAX_LEN_FNAM) viscA4Zfile
        CHARACTER*(MAX_LEN_FNAM) zonalWindFile
        CHARACTER*(MAX_LEN_FNAM) meridWindFile
        CHARACTER*(MAX_LEN_FNAM) thetaClimFile
        CHARACTER*(MAX_LEN_FNAM) saltClimFile
        CHARACTER*(MAX_LEN_FNAM) surfQfile
-       CHARACTER*(MAX_LEN_FNAM) surfQswfile
+       CHARACTER*(MAX_LEN_FNAM) surfQnetFile
+       CHARACTER*(MAX_LEN_FNAM) surfQswFile
        CHARACTER*(MAX_LEN_FNAM) EmPmRfile
-       CHARACTER*(MAX_LEN_FNAM) buoyancyRelation
+       CHARACTER*(MAX_LEN_FNAM) saltFluxFile
        CHARACTER*(MAX_LEN_FNAM) uVelInitFile
        CHARACTER*(MAX_LEN_FNAM) vVelInitFile
        CHARACTER*(MAX_LEN_FNAM) pSurfInitFile
        CHARACTER*(MAX_LEN_FNAM) dQdTfile
        CHARACTER*(MAX_LEN_FNAM) ploadFile
-       CHARACTER*(6) eosType
+       CHARACTER*(MAX_LEN_FNAM) eddyPsiXFile
+       CHARACTER*(MAX_LEN_FNAM) eddyPsiYFile
+       CHARACTER*(MAX_LEN_FNAM) lambdaThetaFile
+       CHARACTER*(MAX_LEN_FNAM) lambdaSaltFile
+       CHARACTER*(MAX_LEN_PREC/2) the_run_name
  C--   COMMON /PARM_I/ Integer valued parameters used by the model.
  C     cg2dMaxIters        :: Maximum number of iterations in the
- C                           two-dimensional con. grad solver.
+ C                            two-dimensional con. grad solver.
  C     cg2dChkResFreq      :: Frequency with which to check residual
- C                           in con. grad solver.
+ C                            in con. grad solver.
+ C     cg2dPreCondFreq     :: Frequency for updating cg2d preconditioner
+ C                            (non-linear free-surf.)
  C     cg3dMaxIters        :: Maximum number of iterations in the
- C                           three-dimensional con. grad solver.
+ C                            three-dimensional con. grad solver.
  C     cg3dChkResFreq      :: Frequency with which to check residual
- C                           in con. grad solver.
+ C                            in con. grad solver.
+ C     printResidualFreq   :: Frequency for printing residual in CG iterations
  C     nIter0              :: Start time-step number of for this run
  C     nTimeSteps          :: Number of timesteps to execute
- C     numStepsPerPickup   :: For offline setup. Frequency of pickup
- C                           of flow fields.
  C     writeStatePrec      :: Precision used for writing model state.
  C     writeBinaryPrec     :: Precision used for writing binary files
  C     readBinaryPrec      :: Precision used for reading binary files
- C     nCheckLev           :: Holds current checkpoint level
+ C     selectCoriMap       :: select setting of Coriolis parameter map:
+ C                           =0 f-Plane (Constant Coriolis, = f0)
+ C                           =1 Beta-Plane Coriolis (= f0 + beta.y)
+ C                           =2 Spherical Coriolis (= 2.omega.sin(phi))
+ C                           =3 Read Coriolis 2-d fields from files.
+ C     selectSigmaCoord    :: option related to sigma vertical coordinate
  C     nonlinFreeSurf      :: option related to non-linear free surface
  C                           =0 Linear free surface ; >0 Non-linear
+ C     select_rStar        :: option related to r* vertical coordinate
+ C                           =0 (default) use r coord. ; > 0 use r*
+ C     selectNHfreeSurf    :: option for Non-Hydrostatic (free-)Surface formulation:
+ C                           =0 (default) hydrostatic surf. ; > 0 add NH effects.
+ C     selectAddFluid      :: option to add mass source/sink of fluid in the interior
+ C                            (3-D generalisation of oceanic real-fresh water flux)
+ C                           =0 off ; =1 add fluid ; =-1 virtual flux (no mass added)
+ C     momForcingOutAB     :: =1: take momentum forcing contribution
+ C                            out of (=0: in) Adams-Bashforth time stepping.
+ C     tracForcingOutAB    :: =1: take tracer (Temp,Salt,pTracers) forcing contribution
+ C                            out of (=0: in) Adams-Bashforth time stepping.
+ C     tempAdvScheme       :: Temp. Horiz.Advection scheme selector
+ C     tempVertAdvScheme   :: Temp. Vert. Advection scheme selector
+ C     saltAdvScheme       :: Salt. Horiz.advection scheme selector
+ C     saltVertAdvScheme   :: Salt. Vert. Advection scheme selector
+ C     selectKEscheme      :: Kinetic Energy scheme selector (Vector Inv.)
+ C     selectVortScheme    :: Scheme selector for Vorticity term (Vector Inv.)
+ C     monitorSelect       :: select group of variables to monitor
+ C                            =1 : dynvars ; =2 : + vort ; =3 : + surface
+ C-    debugLevel          :: controls printing of algorithm intermediate results
+ C                            and statistics ; higher -> more writing
        COMMON /PARM_I/
-      &        cg2dMaxIters,
+      &        cg2dMaxIters, cg2dChkResFreq, cg2dPreCondFreq,
-      &        cg2dChkResFreq,
+      &        cg3dMaxIters, cg3dChkResFreq,
-      &        cg3dMaxIters,
+      &        printResidualFreq,
-      &        cg3dChkResFreq,
       &        nIter0, nTimeSteps, nEndIter,
-      &        numStepsPerPickup,
+      &        writeStatePrec,
-      &        writeStatePrec, nCheckLev,
       &        writeBinaryPrec, readBinaryPrec,
-      &        nonlinFreeSurf,
+      &        selectCoriMap,
-      &        tempAdvScheme, saltAdvScheme, tracerAdvScheme
+      &        selectSigmaCoord,
+      &        nonlinFreeSurf, select_rStar,
+      &        selectNHfreeSurf,
+      &        selectAddFluid,
+      &        momForcingOutAB, tracForcingOutAB,
+      &        tempAdvScheme, tempVertAdvScheme,
+      &        saltAdvScheme, saltVertAdvScheme,
+      &        selectKEscheme, selectVortScheme,
+      &        monitorSelect, debugLevel
        INTEGER cg2dMaxIters
        INTEGER cg2dChkResFreq
+       INTEGER cg2dPreCondFreq
        INTEGER cg3dMaxIters
        INTEGER cg3dChkResFreq
+       INTEGER printResidualFreq
        INTEGER nIter0
        INTEGER nTimeSteps
        INTEGER nEndIter
-       INTEGER numStepsPerPickup
        INTEGER writeStatePrec
        INTEGER writeBinaryPrec
        INTEGER readBinaryPrec
-       INTEGER nCheckLev
+       INTEGER selectCoriMap
+       INTEGER selectSigmaCoord
        INTEGER nonlinFreeSurf
-       INTEGER tempAdvScheme
+       INTEGER select_rStar
-       INTEGER saltAdvScheme
+       INTEGER selectNHfreeSurf
-       INTEGER tracerAdvScheme
+       INTEGER selectAddFluid
+       INTEGER momForcingOutAB, tracForcingOutAB
+       INTEGER tempAdvScheme, tempVertAdvScheme
+       INTEGER saltAdvScheme, saltVertAdvScheme
+       INTEGER selectKEscheme
+       INTEGER selectVortScheme
+       INTEGER monitorSelect
+       INTEGER debugLevel
  C--   COMMON /PARM_L/ Logical valued parameters used by the model.
+ C- Coordinate + Grid params:
+ C     fluidIsAir       :: Set to indicate that the fluid major constituent
+ C                         is air
+ C     fluidIsWater     :: Set to indicate that the fluid major constituent
+ C                         is water
+ C     usingPCoords     :: Set to indicate that we are working in a pressure
+ C                         type coordinate (p or p*).
+ C     usingZCoords     :: Set to indicate that we are working in a height
+ C                         type coordinate (z or z*)
+ C     useDynP_inEos_Zc :: use the dynamical pressure in EOS (with Z-coord.)
+ C                         this requires specific code for restart & exchange
  C     usingCartesianGrid :: If TRUE grid generation will be in a cartesian
- C                          coordinate frame.
+ C                           coordinate frame.
  C     usingSphericalPolarGrid :: If TRUE grid generation will be in a
- C                               spherical polar frame.
+ C                                spherical polar frame.
- C     no_slip_sides :: Impose "no-slip" at lateral boundaries.
+ C     rotateGrid      :: rotate grid coordinates to geographical coordinates
+ C                        according to Euler angles phiEuler, thetaEuler, psiEuler
+ C     usingCylindricalGrid :: If TRUE grid generation will be Cylindrical
+ C     usingCurvilinearGrid :: If TRUE, use a curvilinear grid (to be provided)
+ C     hasWetCSCorners :: domain contains CS-type corners where dynamics is solved
+ C     deepAtmosphere :: deep model (drop the shallow-atmosphere approximation)
+ C     setInterFDr    :: set Interface depth (put cell-Center at the middle)
+ C     setCenterDr    :: set cell-Center depth (put Interface at the middle)
+ C- Momentum params:
+ C     no_slip_sides  :: Impose "no-slip" at lateral boundaries.
  C     no_slip_bottom :: Impose "no-slip" at bottom boundary.
- C     staggerTimeStep :: enable a Stagger time stepping T,S Rho then U,V
+ C     useFullLeith   :: Set to true to use full Leith viscosity(may be unstable
+ C                       on irregular grids)
+ C     useStrainTensionVisc:: Set to true to use Strain-Tension viscous terms
+ C     useAreaViscLength :: Set to true to use old scaling for viscous lengths,
+ C                          e.g., L2=Raz.  May be preferable for cube sphere.
  C     momViscosity  :: Flag which turns momentum friction terms on and off.
  C     momAdvection  :: Flag which turns advection of momentum on and off.
  C     momForcing    :: Flag which turns external forcing of momentum on
- C                     and off.
+ C                      and off.
  C     momPressureForcing :: Flag which turns pressure term in momentum equation
  C                          on and off.
  C     metricTerms   :: Flag which turns metric terms on or off.
- C     usingSphericalPolarMTerms :: If TRUE use spherical polar metric terms.
+ C     useNHMTerms   :: If TRUE use non-hydrostatic metric terms.
  C     useCoriolis   :: Flag which turns the coriolis terms on and off.
- C     tempDiffusion :: Flag which turns diffusion of temperature on
+ C     use3dCoriolis :: Turns the 3-D coriolis terms (in Omega.cos Phi) on - off
- C                     and off.
+ C     useCDscheme   :: use CD-scheme to calculate Coriolis terms.
- C     tempAdvection :: Flag which turns advection of temperature on
+ C     vectorInvariantMomentum :: use Vector-Invariant form (mom_vecinv package)
- C                     and off.
+ C                                (default = F = use mom_fluxform package)
- C     tempForcing   :: Flag which turns external forcing of temperature on
+ C     useJamartWetPoints :: Use wet-point method for Coriolis (Jamart & Ozer 1986)
- C                     and off.
+ C     useJamartMomAdv :: Use wet-point method for V.I. non-linear term
- C     saltDiffusion :: Flag which turns diffusion of salinity on
+ C     upwindVorticity :: bias interpolation of vorticity in the Coriolis term
- C                     and off.
+ C     highOrderVorticity :: use 3rd/4th order interp. of vorticity (V.I., advection)
- C     saltAdvection :: Flag which turns advection of salinity on
+ C     useAbsVorticity :: work with f+zeta in Coriolis terms
- C                     and off.
+ C     upwindShear        :: use 1rst order upwind interp. (V.I., vertical advection)
- C     saltForcing   :: Flag which turns external forcing of salinity on
+ C     momStepping    :: Turns momentum equation time-stepping off
- C                     and off.
+ C     calc_wVelocity :: Turns of vertical velocity calculation off
- C     useRealFreshWaterFlux :: if True (=Natural BCS), treats P+R-E flux
+ C- Temp. & Salt params:
- C                         as a real Fresh Water (=> changes the Sea Level)
+ C     tempStepping   :: Turns temperature equation time-stepping off
- C                         if F, converts P+R-E to salt flux (no SL effect)
+ C     saltStepping   :: Turns salinity equation time-stepping off
+ C     tempAdvection  :: Flag which turns advection of temperature on and off.
+ C     tempVertDiff4  :: use vertical bi-harmonic diffusion for temperature
+ C     tempIsActiveTr :: Pot.Temp. is a dynamically active tracer
+ C     tempForcing    :: Flag which turns external forcing of temperature on
+ C                       and off.
+ C     saltAdvection  :: Flag which turns advection of salinity on and off.
+ C     saltVertDiff4  :: use vertical bi-harmonic diffusion for salinity
+ C     saltIsActiveTr :: Salinity  is a dynamically active tracer
+ C     saltForcing    :: Flag which turns external forcing of salinity on
+ C                       and off.
+ C     maskIniTemp    :: apply mask to initial Pot.Temp.
+ C     maskIniSalt    :: apply mask to initial salinity
+ C     checkIniTemp   :: check for points with identically zero initial Pot.Temp.
+ C     checkIniSalt   :: check for points with identically zero initial salinity
+ C- Pressure solver related parameters (PARM02)
+ C     useSRCGSolver  :: Set to true to use conjugate gradient
+ C                       solver with single reduction (only one call of
+ C                       s/r mpi_allreduce), default is false
+ C- Time-stepping & free-surface params:
  C     rigidLid            :: Set to true to use rigid lid
- C     implicitFreeSurface :: Set to true to use implcit free surface
+ C     implicitFreeSurface :: Set to true to use implicit free surface
- C     exactConserv        :: Set to true to conserve exactly the total Volume
  C     uniformLin_PhiSurf  :: Set to true to use a uniform Bo_surf in the
- C                           linear relation Phi_surf = Bo_surf*eta
+ C                            linear relation Phi_surf = Bo_surf*eta
- C     momStepping   :: Turns momentum equation time-stepping off
+ C     uniformFreeSurfLev  :: TRUE if free-surface level-index is uniform (=1)
- C     tempStepping  :: Turns temperature equation time-stepping off
+ C     exactConserv        :: Set to true to conserve exactly the total Volume
- C     saltStepping  :: Turns salinity equation time-stepping off
+ C     linFSConserveTr     :: Set to true to correct source/sink of tracer
- C     tr1Stepping   :: Turns passive tracer 1 time-stepping on/off
+ C                            at the surface due to Linear Free Surface
- C     useConstantF  :: Coriolis parameter set to f0
+ C     useRealFreshWaterFlux :: if True (=Natural BCS), treats P+R-E flux
- C     useBetaPlaneF :: Coriolis parameter set to f0 + beta.y
+ C                         as a real Fresh Water (=> changes the Sea Level)
- C     useSphereF    :: Coriolis parameter set to 2.omega.sin(phi)
+ C                         if F, converts P+R-E to salt flux (no SL effect)
- C     useJamartWetPoints :: Use wet-point method for Coriolis (Jamart and Ozer, 1986)
+ C     quasiHydrostatic :: Using non-hydrostatic terms in hydrostatic algorithm
+ C     nonHydrostatic   :: Using non-hydrostatic algorithm
+ C     use3Dsolver      :: set to true to use 3-D pressure solver
+ C     implicitIntGravWave :: treat Internal Gravity Wave implicitly
+ C     staggerTimeStep   :: enable a Stagger time stepping U,V (& W) then T,S
+ C     doResetHFactors   :: Do reset thickness factors @ beginning of each time-step
  C     implicitDiffusion :: Turns implicit vertical diffusion on
  C     implicitViscosity :: Turns implicit vertical viscosity on
+ C     tempImplVertAdv :: Turns on implicit vertical advection for Temperature
+ C     saltImplVertAdv :: Turns on implicit vertical advection for Salinity
+ C     momImplVertAdv  :: Turns on implicit vertical advection for Momentum
  C     multiDimAdvection :: Flag that enable multi-dimension advection
- C     forcing_In_AB :: if False, put forcing (Temp,Salt,Tracers) contribution
+ C     useMultiDimAdvec  :: True if multi-dim advection is used at least once
- C                      out off Adams-Bashforth time stepping.
+ C     momDissip_In_AB   :: if False, put Dissipation tendency contribution
+ C                          out off Adams-Bashforth time stepping.
+ C     doAB_onGtGs       :: if the Adams-Bashforth time stepping is used, always
+ C                          apply AB on tracer tendencies (rather than on Tracer)
+ C- Other forcing params -
+ C     balanceEmPmR    :: substract global mean of EmPmR at every time step
+ C     balanceQnet     :: substract global mean of Qnet at every time step
+ C     balancePrintMean:: print substracted global means to STDOUT
  C     doThetaClimRelax :: Set true if relaxation to temperature
  C                        climatology is required.
  C     doSaltClimRelax  :: Set true if relaxation to salinity
  C                        climatology is required.
+ C     balanceThetaClimRelax :: substract global mean effect at every time step
+ C     balanceSaltClimRelax :: substract global mean effect at every time step
+ C     allowFreezing  :: Allows surface water to freeze and form ice
+ C     useOldFreezing :: use the old version (before checkpoint52a_pre, 2003-11-12)
  C     periodicExternalForcing :: Set true if forcing is time-dependant
- C     usingPCoords     :: Set to indicate that we are working in pressure
+ C- I/O parameters -
- C                        coords.
+ C     globalFiles    :: Selects between "global" and "tiled" files.
- C     usingZCoords     :: Set to indicate that we are working in height
+ C                       On some platforms with MPI, option globalFiles is either
- C                        coords.
+ C                       slow or does not work. Use useSingleCpuIO instead.
- C     setCenterDr    :: set cell Center depth and put Interface at the middle
+ C     useSingleCpuIO :: moved to EEPARAMS.h
- C     nonHydrostatic :: Using non-hydrostatic terms
+ C     pickupStrictlyMatch :: check and stop if pickup-file do not stricly match
- C     globalFiles    :: Selects between "global" and "tiled" files
+ C     startFromPickupAB2 :: with AB-3 code, start from an AB-2 pickup
- C     allowFreezing  :: Allows water to freeze and form ice
+ C     usePickupBeforeC54 :: start from old-pickup files, generated with code from
- C     groundAtK1  :: put the surface(k=1) at the Lower Boundary (=ground)
+ C                           before checkpoint-54a, Jul 06, 2004.
-       COMMON /PARM_L/ usingCartesianGrid, usingSphericalPolarGrid,
+ C     pickup_write_mdsio :: use mdsio to write pickups
-      & usingCurvilinearGrid,
+ C     pickup_read_mdsio  :: use mdsio to read  pickups
-      & no_slip_sides,no_slip_bottom,
+ C     pickup_write_immed :: echo the pickup immediately (for conversion)
-      & staggerTimeStep,
+ C     writePickupAtEnd   :: write pickup at the last timestep
-      & momViscosity, momAdvection, momForcing, useCoriolis,
+ C     timeave_mdsio      :: use mdsio for timeave output
-      & momPressureForcing, vectorInvariantMomentum,
+ C     snapshot_mdsio     :: use mdsio for "snapshot" (dumpfreq/diagfreq) output
-      & tempDiffusion, tempAdvection, tempForcing,
+ C     monitor_stdio      :: use stdio for monitor output
-      & saltDiffusion, saltAdvection, saltForcing,
+ C     dumpInitAndLast :: dumps model state to files at Initial (nIter0)
-      & useRealFreshWaterFlux,
+ C                        & Last iteration, in addition multiple of dumpFreq iter.
-      & rigidLid, implicitFreeSurface, exactConserv, uniformLin_PhiSurf,
+ C     printDomain     :: controls printing of domain fields (bathy, hFac ...).
-      & momStepping, tempStepping, saltStepping, tr1Stepping,
-      & metricTerms, usingSphericalPolarMTerms,
+       COMMON /PARM_L/
-      & useConstantF, useBetaPlaneF, useSphereF,
+      & fluidIsAir, fluidIsWater,
-      & useEnergyConservingCoriolis, useJamartWetPoints,
+      & usingPCoords, usingZCoords, useDynP_inEos_Zc,
+      & usingCartesianGrid, usingSphericalPolarGrid, rotateGrid,
+      & usingCylindricalGrid, usingCurvilinearGrid, hasWetCSCorners,
+      & deepAtmosphere, setInterFDr, setCenterDr,
+      & no_slip_sides, no_slip_bottom,
+      & useFullLeith, useStrainTensionVisc, useAreaViscLength,
+      & momViscosity, momAdvection, momForcing,
+      & momPressureForcing, metricTerms, useNHMTerms,
+      & useCoriolis, use3dCoriolis,
+      & useCDscheme, vectorInvariantMomentum,
+      & useEnergyConservingCoriolis, useJamartWetPoints, useJamartMomAdv,
+      & upwindVorticity, highOrderVorticity,
+      & useAbsVorticity, upwindShear,
+      & momStepping, calc_wVelocity, tempStepping, saltStepping,
+      & tempAdvection, tempVertDiff4, tempIsActiveTr, tempForcing,
+      & saltAdvection, saltVertDiff4, saltIsActiveTr, saltForcing,
+      & maskIniTemp, maskIniSalt, checkIniTemp, checkIniSalt,
+      & useSRCGSolver,
+      & rigidLid, implicitFreeSurface,
+      & uniformLin_PhiSurf, uniformFreeSurfLev,
+      & exactConserv, linFSConserveTr, useRealFreshWaterFlux,
+      & quasiHydrostatic, nonHydrostatic, use3Dsolver,
+      & implicitIntGravWave, staggerTimeStep, doResetHFactors,
       & implicitDiffusion, implicitViscosity,
-      & multiDimAdvection, forcing_In_AB,
+      & tempImplVertAdv, saltImplVertAdv, momImplVertAdv,
-      & doThetaClimRelax, doSaltClimRelax, doTr1ClimRelax,
+      & multiDimAdvection, useMultiDimAdvec,
-      & periodicExternalForcing,
+      & momDissip_In_AB, doAB_onGtGs,
-      & usingPCoords, usingZCoords, setCenterDr,
+      & balanceEmPmR, balanceQnet, balancePrintMean,
-      & nonHydrostatic, globalFiles,
+      & balanceThetaClimRelax, balanceSaltClimRelax,
-      & allowFreezing, groundAtK1,
+      & doThetaClimRelax, doSaltClimRelax,
-      & usePickupBeforeC35, debugMode,
+      & allowFreezing, useOldFreezing,
-      & readPickupWithTracer, writePickupWithTracer
+      & periodicExternalForcing,
+      & globalFiles,
+      & pickupStrictlyMatch, usePickupBeforeC54, startFromPickupAB2,
+      & pickup_read_mdsio, pickup_write_mdsio, pickup_write_immed,
+      & writePickupAtEnd,
+      & timeave_mdsio, snapshot_mdsio, monitor_stdio,
+      & outputTypesInclusive, dumpInitAndLast,
+      & printDomain
+       LOGICAL fluidIsAir
+       LOGICAL fluidIsWater
+       LOGICAL usingPCoords
+       LOGICAL usingZCoords
+       LOGICAL useDynP_inEos_Zc
        LOGICAL usingCartesianGrid
-       LOGICAL usingSphericalPolarGrid
+       LOGICAL usingSphericalPolarGrid, rotateGrid
-       LOGICAL usingCurvilinearGrid
+       LOGICAL usingCylindricalGrid
-       LOGICAL usingSphericalPolarMTerms
+       LOGICAL usingCurvilinearGrid, hasWetCSCorners
+       LOGICAL deepAtmosphere
+       LOGICAL setInterFDr
+       LOGICAL setCenterDr
+       LOGICAL useNHMTerms
        LOGICAL no_slip_sides
        LOGICAL no_slip_bottom
-       LOGICAL staggerTimeStep
+       LOGICAL useFullLeith
+       LOGICAL useStrainTensionVisc
+       LOGICAL useAreaViscLength
        LOGICAL momViscosity
        LOGICAL momAdvection
        LOGICAL momForcing
        LOGICAL momPressureForcing
        LOGICAL useCoriolis
        LOGICAL vectorInvariantMomentum
-       LOGICAL tempDiffusion
        LOGICAL tempAdvection
+       LOGICAL tempVertDiff4
+       LOGICAL tempIsActiveTr
        LOGICAL tempForcing
-       LOGICAL saltDiffusion
        LOGICAL saltAdvection
+       LOGICAL saltVertDiff4
+       LOGICAL saltIsActiveTr
        LOGICAL saltForcing
-       LOGICAL useRealFreshWaterFlux
+       LOGICAL maskIniTemp
+       LOGICAL maskIniSalt
+       LOGICAL checkIniTemp
+       LOGICAL checkIniSalt
+       LOGICAL useSRCGSolver
        LOGICAL rigidLid
        LOGICAL implicitFreeSurface
-       LOGICAL exactConserv
        LOGICAL uniformLin_PhiSurf
+       LOGICAL uniformFreeSurfLev
+       LOGICAL exactConserv
+       LOGICAL linFSConserveTr
+       LOGICAL useRealFreshWaterFlux
+       LOGICAL quasiHydrostatic
+       LOGICAL nonHydrostatic
+       LOGICAL use3Dsolver
+       LOGICAL implicitIntGravWave
+       LOGICAL staggerTimeStep
+       LOGICAL doResetHFactors
        LOGICAL momStepping
+       LOGICAL calc_wVelocity
        LOGICAL tempStepping
        LOGICAL saltStepping
-       LOGICAL tr1Stepping
        LOGICAL metricTerms
-       LOGICAL useConstantF
+       LOGICAL use3dCoriolis
-       LOGICAL useBetaPlaneF
+       LOGICAL useCDscheme
-       LOGICAL useSphereF
        LOGICAL useEnergyConservingCoriolis
        LOGICAL useJamartWetPoints
+       LOGICAL useJamartMomAdv
+       LOGICAL upwindVorticity
+       LOGICAL highOrderVorticity
+       LOGICAL useAbsVorticity
+       LOGICAL upwindShear
        LOGICAL implicitDiffusion
        LOGICAL implicitViscosity
+       LOGICAL tempImplVertAdv
+       LOGICAL saltImplVertAdv
+       LOGICAL momImplVertAdv
        LOGICAL multiDimAdvection
-       LOGICAL forcing_In_AB
+       LOGICAL useMultiDimAdvec
+       LOGICAL momDissip_In_AB
+       LOGICAL doAB_onGtGs
+       LOGICAL balanceEmPmR
+       LOGICAL balanceQnet
+       LOGICAL balancePrintMean
        LOGICAL doThetaClimRelax
        LOGICAL doSaltClimRelax
-       LOGICAL doTr1ClimRelax
+       LOGICAL balanceThetaClimRelax
+       LOGICAL balanceSaltClimRelax
+       LOGICAL allowFreezing
+       LOGICAL useOldFreezing
        LOGICAL periodicExternalForcing
-       LOGICAL usingPCoords
-       LOGICAL usingZCoords
-       LOGICAL setCenterDr
-       LOGICAL nonHydrostatic
        LOGICAL globalFiles
-       LOGICAL allowFreezing
+       LOGICAL pickupStrictlyMatch
-       LOGICAL groundAtK1
+       LOGICAL usePickupBeforeC54
-       LOGICAL usePickupBeforeC35
+       LOGICAL startFromPickupAB2
-       LOGICAL debugMode
+       LOGICAL pickup_read_mdsio, pickup_write_mdsio
-       LOGICAL readPickupWithTracer
+       LOGICAL pickup_write_immed, writePickupAtEnd
-       LOGICAL writePickupWithTracer
+       LOGICAL timeave_mdsio, snapshot_mdsio, monitor_stdio
+       LOGICAL outputTypesInclusive
+       LOGICAL dumpInitAndLast
+       LOGICAL printDomain
  C--   COMMON /PARM_R/ "Real" valued parameters used by the model.
- C     gg2dTargetResidual
+ C     cg2dTargetResidual
  C          :: Target residual for cg2d solver; no unit (RHS normalisation)
  C     cg2dTargetResWunit
  C          :: Target residual for cg2d solver; W unit (No RHS normalisation)
-Line 312 
 C           number of iterations for con
+Line 524 
 C           number of iterations for con
  C           drop form 192 -> 134! Need to investigate this further!
  C           For now I have introduced a parameter cg2dpcOffDFac which
  C           defaults to 0.51 but can be set at runtime.
- C     delP      :: Vertical grid spacing ( Pa ).
- C     delZ      :: Vertical grid spacing ( m  ).
  C     delR      :: Vertical grid spacing ( units of r ).
  C     delRc     :: Vertical grid spacing between cell centers (r unit).
  C     delX      :: Separation between cell faces (m) or (deg), depending
- C     delY        on input flags.
+ C     delY         on input flags. Note: moved to header file SET_GRID.h
+ C     xgOrigin   :: Origin of the X-axis (Cartesian Grid) / Longitude of Western
+ C                :: most cell face (Lat-Lon grid) (Note: this is an "inert"
+ C                :: parameter but it makes geographical references simple.)
+ C     ygOrigin   :: Origin of the Y-axis (Cartesian Grid) / Latitude of Southern
+ C                :: most face (Lat-Lon grid).
  C     gravity   :: Accel. due to gravity ( m/s^2 )
  C     recip_gravity and its inverse
  C     gBaro     :: Accel. due to gravity used in barotropic equation ( m/s^2 )
- C     ronil     :: Reference density
+ C     rhoNil    :: Reference density for the linear equation of state
- C     rhoConst  :: Vertically constant reference density
+ C     rhoConst  :: Vertically constant reference density (Boussinesq)
- C     startTime :: Start time for model ( s )
+ C     rhoFacC   :: normalized (by rhoConst) reference density at cell-Center
- C     phiMin    :: Latitude of southern most cell face.
+ C     rhoFacF   :: normalized (by rhoConst) reference density at cell-interFace
- C     thetaMin  :: Longitude of western most cell face (this
+ C     rhoConstFresh :: Constant reference density for fresh water (rain)
- C                 is an "inert" parameter but it is included
+ C     rho1Ref   :: reference vertical profile for density
- C                 to make geographical references simple.)
+ C     tRef      :: reference vertical profile for potential temperature
- C     rSphere   :: Radius of sphere for a spherical polar grid ( m ).
+ C     sRef      :: reference vertical profile for salinity/specific humidity
- C     recip_RSphere  :: Reciprocal radius of sphere ( m ).
+ C     phiRef    :: reference potential (pressure/rho, geopotential) profile
- C     f0        :: Reference coriolis parameter ( 1/s )
+ C     dBdrRef   :: vertical gradient of reference buoyancy  [(m/s/r)^2]:
- C                 ( Southern edge f for beta plane )
+ C               :: z-coord: = N^2_ref = Brunt-Vaissala frequency [s^-2]
- C     beta      :: df/dy ( s^-1.m^-1 )
+ C               :: p-coord: = -(d.alpha/dp)_ref          [(m^2.s/kg)^2]
- C     omega     :: Angular velocity ( rad/s )
+ C     rVel2wUnit :: units conversion factor (Non-Hydrostatic code),
- C     viscAh    :: Eddy viscosity coeff. for mixing of
+ C                :: from r-coordinate vertical velocity to vertical velocity [m/s].
- C                 momentum laterally ( m^2/s )
+ C                :: z-coord: = 1 ; p-coord: wSpeed [m/s] = rVel [Pa/s] * rVel2wUnit
- C     viscAz    :: Eddy viscosity coeff. for mixing of
+ C     wUnit2rVel :: units conversion factor (Non-Hydrostatic code),
- C                 momentum vertically ( m^2/s )
+ C                :: from vertical velocity [m/s] to r-coordinate vertical velocity.
- C     viscAp    :: Eddy viscosity coeff. for mixing of
+ C                :: z-coord: = 1 ; p-coord: rVel [Pa/s] = wSpeed [m/s] * wUnit2rVel
- C                 momentum vertically ( Pa^2/s )
+ C     mass2rUnit :: units conversion factor (surface forcing),
- C     viscAr    :: Eddy viscosity coeff. for mixing of
+ C                :: from mass per unit area [kg/m2] to vertical r-coordinate unit.
- C                 momentum vertically ( units of r^2/s )
+ C                :: z-coord: = 1/rhoConst ( [kg/m2] / rho = [m] ) ;
- C     viscA4    :: Biharmonic viscosity coeff. for mixing of
+ C                :: p-coord: = gravity    ( [kg/m2] *  g = [Pa] ) ;
- C                 momentum laterally ( m^4/s )
+ C     rUnit2mass :: units conversion factor (surface forcing),
+ C                :: from vertical r-coordinate unit to mass per unit area [kg/m2].
+ C                :: z-coord: = rhoConst  ( [m] * rho = [kg/m2] ) ;
+ C                :: p-coord: = 1/gravity ( [Pa] /  g = [kg/m2] ) ;
+ C     rSphere    :: Radius of sphere for a spherical polar grid ( m ).
+ C     recip_rSphere  :: Reciprocal radius of sphere ( m ).
+ C     radius_fromHorizGrid :: sphere Radius of input horiz. grid (Curvilinear Grid)
+ C     f0         :: Reference coriolis parameter ( 1/s )
+ C                   ( Southern edge f for beta plane )
+ C     beta       :: df/dy ( s^-1.m^-1 )
+ C     fPrime     :: Second Coriolis parameter ( 1/s ), related to Y-component
+ C                   of rotation (reference value = 2.Omega.Cos(Phi))
+ C     omega      :: Angular velocity ( rad/s )
+ C     rotationPeriod :: Rotation period (s) (= 2.pi/omega)
+ C     viscArNr   :: vertical profile of Eddy viscosity coeff.
+ C                   for vertical mixing of momentum ( units of r^2/s )
+ C     viscAh     :: Eddy viscosity coeff. for mixing of
+ C                   momentum laterally ( m^2/s )
+ C     viscAhW    :: Eddy viscosity coeff. for mixing of vertical
+ C                   momentum laterally, no effect for hydrostatic
+ C                   model, defaults to viscAh if unset ( m^2/s )
+ C                   Not used if variable horiz. viscosity is used.
+ C     viscA4     :: Biharmonic viscosity coeff. for mixing of
+ C                   momentum laterally ( m^4/s )
+ C     viscA4W    :: Biharmonic viscosity coeff. for mixing of vertical
+ C                   momentum laterally, no effect for hydrostatic
+ C                   model, defaults to viscA4 if unset ( m^2/s )
+ C                   Not used if variable horiz. viscosity is used.
+ C     viscAhD    :: Eddy viscosity coeff. for mixing of momentum laterally
+ C                   (act on Divergence part) ( m^2/s )
+ C     viscAhZ    :: Eddy viscosity coeff. for mixing of momentum laterally
+ C                   (act on Vorticity  part) ( m^2/s )
+ C     viscA4D    :: Biharmonic viscosity coeff. for mixing of momentum laterally
+ C                   (act on Divergence part) ( m^4/s )
+ C     viscA4Z    :: Biharmonic viscosity coeff. for mixing of momentum laterally
+ C                   (act on Vorticity  part) ( m^4/s )
+ C     viscC2leith  :: Leith non-dimensional viscosity factor (grad(vort))
+ C     viscC2leithD :: Modified Leith non-dimensional visc. factor (grad(div))
+ C     viscC4leith  :: Leith non-dimensional viscosity factor (grad(vort))
+ C     viscC4leithD :: Modified Leith non-dimensional viscosity factor (grad(div))
+ C     viscC2smag   :: Smagorinsky non-dimensional viscosity factor (harmonic)
+ C     viscC4smag   :: Smagorinsky non-dimensional viscosity factor (biharmonic)
+ C     viscAhMax    :: Maximum eddy viscosity coeff. for mixing of
+ C                    momentum laterally ( m^2/s )
+ C     viscAhReMax  :: Maximum gridscale Reynolds number for eddy viscosity
+ C                     coeff. for mixing of momentum laterally (non-dim)
+ C     viscAhGrid   :: non-dimensional grid-size dependent viscosity
+ C     viscAhGridMax:: maximum and minimum harmonic viscosity coefficients ...
+ C     viscAhGridMin::  in terms of non-dimensional grid-size dependent visc.
+ C     viscA4Max    :: Maximum biharmonic viscosity coeff. for mixing of
+ C                     momentum laterally ( m^4/s )
+ C     viscA4ReMax  :: Maximum Gridscale Reynolds number for
+ C                     biharmonic viscosity coeff. momentum laterally (non-dim)
+ C     viscA4Grid   :: non-dimensional grid-size dependent bi-harmonic viscosity
+ C     viscA4GridMax:: maximum and minimum biharmonic viscosity coefficients ...
+ C     viscA4GridMin::  in terms of non-dimensional grid-size dependent viscosity
  C     diffKhT   :: Laplacian diffusion coeff. for mixing of
  C                 heat laterally ( m^2/s )
- C     diffKzT   :: Laplacian diffusion coeff. for mixing of
- C                 heat vertically ( m^2/s )
- C     diffKpT   :: Laplacian diffusion coeff. for mixing of
- C                 heat vertically ( Pa^2/s )
- C     diffKrT   :: Laplacian diffusion coeff. for mixing of
- C                 heat vertically ( units of r^2/s )
  C     diffK4T   :: Biharmonic diffusion coeff. for mixing of
  C                 heat laterally ( m^4/s )
+ C     diffKrNrT :: vertical profile of Laplacian diffusion coeff.
+ C                 for mixing of heat vertically ( units of r^2/s )
+ C     diffKr4T  :: vertical profile of Biharmonic diffusion coeff.
+ C                 for mixing of heat vertically ( units of r^4/s )
  C     diffKhS  ::  Laplacian diffusion coeff. for mixing of
  C                 salt laterally ( m^2/s )
- C     diffKzS   :: Laplacian diffusion coeff. for mixing of
- C                 salt vertically ( m^2/s )
- C     diffKpS   :: Laplacian diffusion coeff. for mixing of
- C                 salt vertically ( Pa^2/s )
- C     diffKrS   :: Laplacian diffusion coeff. for mixing of
- C                 salt vertically ( units of r^2/s )
  C     diffK4S   :: Biharmonic diffusion coeff. for mixing of
  C                 salt laterally ( m^4/s )
+ C     diffKrNrS :: vertical profile of Laplacian diffusion coeff.
+ C                 for mixing of salt vertically ( units of r^2/s ),
+ C     diffKr4S  :: vertical profile of Biharmonic diffusion coeff.
+ C                 for mixing of salt vertically ( units of r^4/s )
+ C     diffKrBL79surf :: T/S surface diffusivity (m^2/s) Bryan and Lewis, 1979
+ C     diffKrBL79deep :: T/S deep diffusivity (m^2/s) Bryan and Lewis, 1979
+ C     diffKrBL79scl  :: depth scale for arctan fn (m) Bryan and Lewis, 1979
+ C     diffKrBL79Ho   :: depth offset for arctan fn (m) Bryan and Lewis, 1979
+ C     BL79LatVary    :: polarwise of this latitude diffKrBL79 is applied with
+ C                       gradual transition to diffKrBLEQ towards Equator
+ C     diffKrBLEQsurf :: same as diffKrBL79surf but at Equator
+ C     diffKrBLEQdeep :: same as diffKrBL79deep but at Equator
+ C     diffKrBLEQscl  :: same as diffKrBL79scl but at Equator
+ C     diffKrBLEQHo   :: same as diffKrBL79Ho but at Equator
  C     deltaT    :: Default timestep ( s )
  C     deltaTClock  :: Timestep used as model "clock". This determines the
  C                    IO frequencies and is used in tagging output. It can
-Line 372 
 C                    it will be the deep
+Line 648 
 C                    it will be the deep
  C                    Frequency of checkpointing and dumping of the model state
  C                    are referenced to this clock. ( s )
  C     deltaTMom    :: Timestep for momemtum equations ( s )
- C     deltaTtracer :: Timestep for tracer equations ( s )
+ C     dTtracerLev  :: Timestep for tracer equations ( s ), function of level k
  C     deltaTfreesurf :: Timestep for free-surface equation ( s )
- C     freesurfFac  :: Parameter to turn implicit free surface term on or off
+ C     freeSurfFac  :: Parameter to turn implicit free surface term on or off
- C                    freesurfac = 1. uses implicit free surface
+ C                     freeSurFac = 1. uses implicit free surface
- C                    freesurfac = 0. uses rigid lid
+ C                     freeSurFac = 0. uses rigid lid
+ C     abEps        :: Adams-Bashforth-2 stabilizing weight
+ C     alph_AB      :: Adams-Bashforth-3 primary factor
+ C     beta_AB      :: Adams-Bashforth-3 secondary factor
  C     implicSurfPress :: parameter of the Crank-Nickelson time stepping :
  C                     Implicit part of Surface Pressure Gradient ( 0-1 )
  C     implicDiv2Dflow :: parameter of the Crank-Nickelson time stepping :
  C                     Implicit part of barotropic flow Divergence ( 0-1 )
+ C     implicitNHPress :: parameter of the Crank-Nickelson time stepping :
+ C                     Implicit part of Non-Hydrostatic Pressure Gradient ( 0-1 )
  C     hFacMin      :: Minimum fraction size of a cell (affects hFacC etc...)
- C     hFacMinDz    :: Minimum dimesional size of a cell (affects hFacC etc..., m)
+ C     hFacMinDz    :: Minimum dimensional size of a cell (affects hFacC etc..., m)
- C     hFacMinDp    :: Minimum dimesional size of a cell (affects hFacC etc..., Pa)
+ C     hFacMinDp    :: Minimum dimensional size of a cell (affects hFacC etc..., Pa)
- C     hFacMinDr    :: Minimum dimesional size of a cell (affects hFacC etc..., units of r)
+ C     hFacMinDr    :: Minimum dimensional size of a cell (-> hFacC etc..., r units)
  C     hFacInf      :: Threshold (inf and sup) for fraction size of surface cell
- C     hFacSup        that control vanishing and creating levels
+ C     hFacSup          that control vanishing and creating levels
- C     tauCD        :: CD scheme coupling timescale ( 1/s )
+ C     tauCD         :: CD scheme coupling timescale ( s )
- C     rCD          :: CD scheme normalised coupling parameter ( 0-1 )
+ C     rCD           :: CD scheme normalised coupling parameter (= 1 - deltaT/tauCD)
+ C     epsAB_CD      :: Adams-Bashforth-2 stabilizing weight used in CD scheme
+ C     baseTime      :: model base time (time origin) = time @ iteration zero
  C     startTime     :: Starting time for this integration ( s ).
  C     endTime       :: Ending time for this integration ( s ).
  C     chkPtFreq     :: Frequency of rolling check pointing ( s ).
  C     pChkPtFreq    :: Frequency of permanent check pointing ( s ).
  C     dumpFreq      :: Frequency with which model state is written to
- C                     post-processing files ( s ).
+ C                      post-processing files ( s ).
  C     diagFreq      :: Frequency with which model writes diagnostic output
- C                     of intermediate quantities.
+ C                      of intermediate quantities.
  C     afFacMom      :: Advection of momentum term tracer parameter
  C     vfFacMom      :: Momentum viscosity tracer parameter
  C     pfFacMom      :: Momentum pressure forcing tracer parameter
-Line 406 
 C     mtFacMom      :: Metric terms trac
+Line 689 
 C     mtFacMom      :: Metric terms trac
  C     cosPower      :: Power of cosine of latitude to multiply viscosity
  C     cAdjFreq      :: Frequency of convective adjustment
  C
- C     taveFreq      :: Frequency with which time-averaged model state is written to
+ C     taveFreq      :: Frequency with which time-averaged model state
- C                     post-processing files ( s ).
+ C                      is written to post-processing files ( s ).
+ C     tave_lastIter :: (for state variable only) fraction of the last time
+ C                      step (of each taveFreq period) put in the time average.
+ C                      (fraction for 1rst iter = 1 - tave_lastIter)
  C     tauThetaClimRelax :: Relaxation to climatology time scale ( s ).
- C     lambdaThetaClimRelax :: Inverse time scale for relaxation ( 1/s ).
  C     tauSaltClimRelax :: Relaxation to climatology time scale ( s ).
- C     lambdaSaltClimRelax :: Inverse time scale for relaxation ( 1/s ).
+ C     latBandClimRelax :: latitude band where Relaxation to Clim. is applied,
+ C                         i.e. where |yC| <= latBandClimRelax
  C     externForcingPeriod :: Is the period of which forcing varies (eg. 1 month)
  C     externForcingCycle :: Is the repeat time of the forcing (eg. 1 year)
  C                          (note: externForcingCycle must be an integer
  C                           number times externForcingPeriod)
  C     convertFW2Salt :: salinity, used to convert Fresh-Water Flux to Salt Flux
  C                       (use model surface (local) value if set to -1)
  C     temp_EvPrRn :: temperature of Rain & Evap.
  C     salt_EvPrRn :: salinity of Rain & Evap.
- C     trac_EvPrRn :: tracer concentration in Rain & Evap.
+ C     temp_addMass :: temperature of addMass array
- C        (notes: a) tracer content of Rain/Evap only used if both
+ C     salt_addMass :: salinity of addMass array
+ C        (notes: a) tracer content of Rain/Evap only used if both
  C                     NonLin_FrSurf & useRealFreshWater are set.
  C                b) use model surface (local) value if set to UNSET_RL)
- C     horiVertRatio      :: Ratio on units in vertical to units in horizontal.
+ C     hMixCriteria:: criteria for mixed-layer diagnostic
- C     recip_horiVertRatio  ( 1 if horiz in m and vertical in m ).
+ C     dRhoSmall   :: parameter for mixed-layer diagnostic
- C                          ( g*rho if horiz in m and vertical in Pa ).
+ C     hMixSmooth  :: Smoothing parameter for mixed-layer diag (default=0=no smoothing)
- C     Ro_SeaLevel        :: standard position of Sea-Level in "R" coordinate, used as
+ C     ivdc_kappa  :: implicit vertical diffusivity for convection [m^2/s]
- C                          starting value (k=1) for vertical coordinate (rf(1)=Ro_SeaLevel)
+ C     Ro_SeaLevel :: standard position of Sea-Level in "R" coordinate, used as
- C     bottomDragLinear   :: Drag coefficient built in to core dynamics
+ C                    starting value (k=1) for vertical coordinate (rf(1)=Ro_SeaLevel)
- C      --"-"--  Quadratic  ( linear: 1/s, quadratic: 1/m )
+ C     rSigmaBnd   :: vertical position (in r-unit) of r/sigma transition (Hybrid-Sigma)
-       COMMON /PARM_R/ cg2dTargetResidual, cg2dTargetResWunit,
+ C     sideDragFactor     :: side-drag scaling factor (used only if no_slip_sides)
+ C                           (default=2: full drag ; =1: gives half-slip BC)
+ C     bottomDragLinear    :: Linear    bottom-drag coefficient (units of [r]/s)
+ C     bottomDragQuadratic :: Quadratic bottom-drag coefficient (units of [r]/m)
+ C               (if using zcoordinate, units becomes linear: m/s, quadratic: [-])
+ C     smoothAbsFuncRange :: 1/2 of interval around zero, for which FORTRAN ABS
+ C                           is to be replace by a smoother function
+ C                           (affects myabs, mymin, mymax)
+ C     nh_Am2        :: scales the non-hydrostatic terms and changes internal scales
+ C                      (i.e. allows convection at different Rayleigh numbers)
+ C     phiEuler      :: Euler angle, rotation about original z-axis
+ C     thetaEuler    :: Euler angle, rotation about new x-axis
+ C     psiEuler      :: Euler angle, rotation about new z-axis
+       COMMON /PARM_R/ cg2dTargetResidual, cg2dTargetResWunit,
       & cg2dpcOffDFac, cg3dTargetResidual,
-      & delP, delZ, delR, delRc, delX, delY,
+      & delR, delRc, xgOrigin, ygOrigin,
-      & deltaT, deltaTmom, deltaTtracer, deltaTfreesurf, deltaTClock,
+      & deltaT, deltaTmom, dTtracerLev, deltaTfreesurf, deltaTClock,
-      & abeps, startTime,
+      & abEps, alph_AB, beta_AB,
-      & phiMin, thetaMin, rSphere, recip_RSphere, f0, beta,
+      & rSphere, recip_rSphere, radius_fromHorizGrid,
-      & fCori, fCoriG,
+      & f0, beta, fPrime, omega, rotationPeriod,
-      & viscAh,  viscAz,  viscA4,  viscAr, viscAstrain, viscAtension,
+      & viscFacAdj, viscAh, viscAhW, viscAhMax,
-      & diffKhT, diffKzT, diffK4T, diffKrT,
+      & viscAhGrid, viscAhGridMax, viscAhGridMin,
-      & diffKhS, diffKzS, diffK4S, diffKrS,
+      & viscC2leith, viscC2leithD,
-      & delT, tauCD, rCD, freeSurfFac, implicSurfPress, implicDiv2Dflow,
+      & viscC2smag, viscC4smag,
+      & viscAhD, viscAhZ, viscA4D, viscA4Z,
+      & viscA4, viscA4W, viscA4Max,
+      & viscA4Grid, viscA4GridMax, viscA4GridMin,
+      & viscAhReMax, viscA4ReMax,
+      & viscC4leith, viscC4leithD, viscArNr,
+      & diffKhT, diffK4T, diffKrNrT, diffKr4T,
+      & diffKhS, diffK4S, diffKrNrS, diffKr4S,
+      & diffKrBL79surf, diffKrBL79deep, diffKrBL79scl, diffKrBL79Ho,
+      & BL79LatVary,
+      & diffKrBLEQsurf, diffKrBLEQdeep, diffKrBLEQscl, diffKrBLEQHo,
+      & tauCD, rCD, epsAB_CD,
+      & freeSurfFac, implicSurfPress, implicDiv2Dflow, implicitNHPress,
       & hFacMin, hFacMinDz, hFacInf, hFacSup,
-      & gravity, recip_Gravity, gBaro, rhonil, recip_rhonil,
+      & gravity, recip_gravity, gBaro,
-      & recip_rhoConst, rhoConst, tRef, sRef,
+      & rhoNil, rhoConst, recip_rhoConst,
-      & endTime, chkPtFreq, pchkPtFreq, dumpFreq,
+      & rhoFacC, recip_rhoFacC, rhoFacF, recip_rhoFacF,
-      & diagFreq, taveFreq, monitorFreq,
+      & rhoConstFresh, rho1Ref, tRef, sRef, phiRef, dBdrRef,
+      & rVel2wUnit, wUnit2rVel, mass2rUnit, rUnit2mass,
+      & baseTime, startTime, endTime,
+      & chkPtFreq, pChkPtFreq, dumpFreq, adjDumpFreq,
+      & diagFreq, taveFreq, tave_lastIter, monitorFreq, adjMonitorFreq,
       & afFacMom, vfFacMom, pfFacMom, cfFacMom, foFacMom, mtFacMom,
-      & cosPower, cAdjFreq, omega,
+      & cosPower, cAdjFreq,
-      & tauThetaClimRelax, lambdaThetaClimRelax,
+      & tauThetaClimRelax, tauSaltClimRelax, latBandClimRelax,
-      & tauSaltClimRelax, lambdaSaltClimRelax,
-      & tauTr1ClimRelax, lambdaTr1ClimRelax,
       & externForcingCycle, externForcingPeriod,
-      & convertFW2Salt, temp_EvPrRn, salt_EvPrRn, trac_EvPrRn,
+      & convertFW2Salt, temp_EvPrRn, salt_EvPrRn,
-      & viscAp, diffKpT, diffKpS, hFacMinDr, hFacMinDp,
+      & temp_addMass, salt_addMass, hFacMinDr, hFacMinDp,
-      & horiVertRatio, recip_horiVertRatio,
+      & ivdc_kappa, hMixCriteria, dRhoSmall, hMixSmooth,
-      & ivdc_kappa, Ro_SeaLevel,
+      & Ro_SeaLevel, rSigmaBnd,
-      & bottomDragLinear,bottomDragQuadratic
+      & sideDragFactor, bottomDragLinear, bottomDragQuadratic, nh_Am2,
+      & smoothAbsFuncRange,
+      & tCylIn, tCylOut,
+      & phiEuler, thetaEuler, psiEuler
        _RL cg2dTargetResidual
        _RL cg2dTargetResWunit
        _RL cg3dTargetResidual
        _RL cg2dpcOffDFac
-       _RL delZ(Nr)
-       _RL delP(Nr)
        _RL delR(Nr)
        _RL delRc(Nr+1)
-       _RL delX(Nx)
+       _RL xgOrigin
-       _RL delY(Ny)
+       _RL ygOrigin
        _RL deltaT
        _RL deltaTClock
        _RL deltaTmom
-       _RL deltaTtracer
+       _RL dTtracerLev(Nr)
        _RL deltaTfreesurf
-       _RL abeps
+       _RL abEps, alph_AB, beta_AB
-       _RL phiMin
-       _RL thetaMin
        _RL rSphere
-       _RL recip_RSphere
+       _RL recip_rSphere
+       _RL radius_fromHorizGrid
        _RL f0
+       _RL beta
+       _RL fPrime
+       _RL omega
+       _RL rotationPeriod
        _RL freeSurfFac
        _RL implicSurfPress
        _RL implicDiv2Dflow
+       _RL implicitNHPress
        _RL hFacMin
        _RL hFacMinDz
        _RL hFacMinDp
        _RL hFacMinDr
        _RL hFacInf
        _RL hFacSup
-       _RL beta
+       _RL viscArNr(Nr)
+       _RL viscFacAdj
        _RL viscAh
-       _RL viscAstrain
+       _RL viscAhW
-       _RL viscAtension
+       _RL viscAhD
-       _RL viscAz
+       _RL viscAhZ
-       _RL viscAp
+       _RL viscAhMax
-       _RL viscAr
+       _RL viscAhReMax
-       _RL viscA4
+       _RL viscAhGrid, viscAhGridMax, viscAhGridMin
-       _RL diffKhT
+       _RL viscC2leith
-       _RL diffKrT
+       _RL viscC2leithD
-       _RL diffKzT
+       _RL viscC2smag
-       _RL diffKpT
+       _RL viscA4
-       _RL diffK4T
+       _RL viscA4W
-       _RL diffKhS
+       _RL viscA4D
-       _RL diffKrS
+       _RL viscA4Z
-       _RL diffKzS
+       _RL viscA4Max
-       _RL diffKpS
+       _RL viscA4ReMax
-       _RL diffK4S
+       _RL viscA4Grid, viscA4GridMax, viscA4GridMin
-       _RL delt
+       _RL viscC4leith
-       _RL tauCD
+       _RL viscC4leithD
-       _RL rCD
+       _RL viscC4smag
+       _RL diffKhT
+       _RL diffK4T
+       _RL diffKrNrT(Nr)
+       _RL diffKr4T(Nr)
+       _RL diffKhS
+       _RL diffK4S
+       _RL diffKrNrS(Nr)
+       _RL diffKr4S(Nr)
+       _RL diffKrBL79surf
+       _RL diffKrBL79deep
+       _RL diffKrBL79scl
+       _RL diffKrBL79Ho
+       _RL BL79LatVary
+       _RL diffKrBLEQsurf
+       _RL diffKrBLEQdeep
+       _RL diffKrBLEQscl
+       _RL diffKrBLEQHo
+       _RL tauCD, rCD, epsAB_CD
        _RL gravity
        _RL recip_gravity
        _RL gBaro
-       _RL rhonil
+       _RL rhoNil
-       _RL recip_rhonil
+       _RL rhoConst,      recip_rhoConst
-       _RL rhoConst
+       _RL rhoFacC(Nr),   recip_rhoFacC(Nr)
-       _RL recip_rhoConst
+       _RL rhoFacF(Nr+1), recip_rhoFacF(Nr+1)
+       _RL rhoConstFresh
+       _RL rho1Ref(Nr)
        _RL tRef(Nr)
        _RL sRef(Nr)
-       _RS fCori(1-OLx:sNx+OLx,1-OLy:sNy+OLy,nSx,nSy)
+       _RL phiRef(2*Nr+1)
-       _RS fCoriG(1-OLx:sNx+OLx,1-OLy:sNy+OLy,nSx,nSy)
+       _RL dBdrRef(Nr)
+       _RL rVel2wUnit(Nr+1), wUnit2rVel(Nr+1)
+       _RL mass2rUnit, rUnit2mass
+       _RL baseTime
        _RL startTime
        _RL endTime
        _RL chkPtFreq
        _RL pChkPtFreq
        _RL dumpFreq
+       _RL adjDumpFreq
        _RL diagFreq
        _RL taveFreq
+       _RL tave_lastIter
        _RL monitorFreq
+       _RL adjMonitorFreq
        _RL afFacMom
        _RL vfFacMom
        _RL pfFacMom
        _RL cfFacMom
        _RL foFacMom
-       _RL mTFacMom
+       _RL mtFacMom
        _RL cosPower
        _RL cAdjFreq
-       _RL omega
        _RL tauThetaClimRelax
-       _RL lambdaThetaClimRelax
        _RL tauSaltClimRelax
-       _RL lambdaSaltClimRelax
+       _RL latBandClimRelax
-       _RL tauTr1ClimRelax
-       _RL lambdaTr1ClimRelax
        _RL externForcingCycle
        _RL externForcingPeriod
        _RL convertFW2Salt
        _RL temp_EvPrRn
        _RL salt_EvPrRn
-       _RL trac_EvPrRn
+       _RL temp_addMass
-       _RL horiVertRatio
+       _RL salt_addMass
-       _RL recip_horiVertRatio
        _RL ivdc_kappa
+       _RL hMixCriteria
+       _RL dRhoSmall
+       _RL hMixSmooth
        _RL Ro_SeaLevel
+       _RL rSigmaBnd
+       _RL sideDragFactor
        _RL bottomDragLinear
        _RL bottomDragQuadratic
+       _RL smoothAbsFuncRange
+       _RL nh_Am2
+       _RL tCylIn
+       _RL tCylOut
+       _RL phiEuler, thetaEuler, psiEuler
-       COMMON /PARM_A/ HeatCapacity_Cp,recip_Cp,
+ C--   COMMON /PARM_A/ Thermodynamics constants ?
-      &                Lamba_theta
+       COMMON /PARM_A/ HeatCapacity_Cp,recip_Cp
        _RL HeatCapacity_Cp
-       _RL Lamba_theta
        _RL recip_Cp
- CmlC Equation of State (polynomial coeffients)
+ C--   COMMON /PARM_ATM/ Atmospheric physical parameters (Ideal Gas EOS, ...)
- Cml      COMMON /PARM_EOS_NL/ eosC,eosSig0,eosRefT,eosRefS
+ C     celsius2K :: convert centigrade (Celsius) degree to Kelvin
- Cml      _RL eosC(9,Nr+1),eosSig0(Nr+1),eosRefT(Nr+1),eosRefS(Nr+1)
+ C     atm_Po    :: standard reference pressure
- CmlC Linear equation of state
+ C     atm_Cp    :: specific heat (Cp) of the (dry) air at constant pressure
- CmlC     tAlpha    :: Linear EOS thermal expansion coefficient ( 1/degree ).
+ C     atm_Rd    :: gas constant for dry air
- CmlC     sBeta     :: Linear EOS haline contraction coefficient.
- Cml      COMMON /PARM_EOS_LIN/ tAlpha,sBeta,eosType
- Cml      _RL tAlpha
- Cml      _RL sBeta
- C Atmospheric physical parameters (Ideal Gas EOS, ...)
- C     atm_po    :: standard reference pressure
- C     atm_cp    :: specific heat (Cp) of the (dry) air at constant pressure
  C     atm_kappa :: kappa = R/Cp (R: constant of Ideal Gas EOS)
- C     Integr_GeoPot :: option to select the way we integrate the geopotential
+ C     atm_Rq    :: water vapour specific volume anomaly relative to dry air
- C                     (still a subject of discussions ...)
+ C                  (e.g. typical value = (29/18 -1) 10^-3 with q [g/kg])
-       COMMON /PARM_ATM/ atm_cp, atm_kappa, atm_po,
+ C     integr_GeoPot :: option to select the way we integrate the geopotential
-      &                  Integr_GeoPot
+ C                     (still a subject of discussions ...)
-       _RL atm_cp, atm_kappa, atm_po
+ C     selectFindRoSurf :: select the way surf. ref. pressure (=Ro_surf) is
-       INTEGER Integr_GeoPot
+ C             derived from the orography. Implemented: 0,1 (see INI_P_GROUND)
+       COMMON /PARM_ATM/
+      &            celsius2K,
+      &            atm_Cp, atm_Rd, atm_kappa, atm_Rq, atm_Po,
+      &            integr_GeoPot, selectFindRoSurf
+       _RL celsius2K
+       _RL atm_Po, atm_Cp, atm_Rd, atm_kappa, atm_Rq
+       INTEGER integr_GeoPot, selectFindRoSurf
  C Logical flags for selecting packages
+       LOGICAL useGAD
+       LOGICAL useOBCS
+       LOGICAL useSHAP_FILT
+       LOGICAL useZONAL_FILT
+       LOGICAL useOPPS
+       LOGICAL usePP81
+       LOGICAL useMY82
+       LOGICAL useGGL90
        LOGICAL useKPP
        LOGICAL useGMRedi
-       LOGICAL useOBCS
+       LOGICAL useDOWN_SLOPE
-       LOGICAL useAIM
+       LOGICAL useBBL
+       LOGICAL useCAL
+       LOGICAL useEXF
+       LOGICAL useBulkForce
+       LOGICAL useEBM
+       LOGICAL useCheapAML
        LOGICAL useGrdchk
+       LOGICAL useSMOOTH
+       LOGICAL usePROFILES
        LOGICAL useECCO
-       LOGICAL useSHAP_FILT
+       LOGICAL useSBO
-       LOGICAL useZONAL_FILT
        LOGICAL useFLT
        LOGICAL usePTRACERS
+       LOGICAL useGCHEM
+       LOGICAL useRBCS
+       LOGICAL useOffLine
+       LOGICAL useMATRIX
+       LOGICAL useFRAZIL
+       LOGICAL useSEAICE
+       LOGICAL useSALT_PLUME
+       LOGICAL useShelfIce
+       LOGICAL useStreamIce
+       LOGICAL useICEFRONT
+       LOGICAL useThSIce
+       LOGICAL useATM2d
+       LOGICAL useAIM
+       LOGICAL useLand
+       LOGICAL useFizhi
+       LOGICAL useGridAlt
+       LOGICAL useDiagnostics
+       LOGICAL useREGRID
+       LOGICAL useLayers
+       LOGICAL useMNC
+       LOGICAL useRunClock
+       LOGICAL useEMBED_FILES
+       LOGICAL useMYPACKAGE
        COMMON /PARM_PACKAGES/
-      &        useKPP, useGMRedi, useOBCS, useAIM, useECCO,
+      &        useGAD, useOBCS, useSHAP_FILT, useZONAL_FILT,
-      &        useSHAP_FILT, useZONAL_FILT, useGrdchk, useFLT,
+      &        useOPPS, usePP81, useMY82, useGGL90, useKPP,
-      &        usePTRACERS
+      &        useGMRedi, useBBL, useDOWN_SLOPE,
+      &        useCAL, useEXF, useBulkForce, useEBM, useCheapAML,
+      &        useGrdchk,useSMOOTH,usePROFILES,useECCO,useSBO, useFLT,
+      &        usePTRACERS, useGCHEM, useRBCS, useOffLine, useMATRIX,
+      &        useFRAZIL, useSEAICE, useSALT_PLUME, useShelfIce,
+      &        useStreamIce, useICEFRONT, useThSIce,
+      &        useATM2D, useAIM, useLand, useFizhi, useGridAlt,
+      &        useDiagnostics, useREGRID, useLayers, useMNC,
+      &        useRunClock, useEMBED_FILES,
+      &        useMYPACKAGE
+ CEH3 ;;; Local Variables: ***
+ CEH3 ;;; mode:fortran ***
+ CEH3 ;;; End: ***

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