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revision 1.1.1.1 by adcroft, Fri Sep 20 19:47:31 2002 UTC revision 1.2 by jmc, Tue Sep 2 17:03:17 2014 UTC
# Line 1  Line 1 
1  C  C
2  C Invocation from WRAPPER level...  C Invocation from WRAPPER level...
3  C  :  C
 C  :  
4  C  |  C  |
5  C  |-THE_MODEL_MAIN :: Primary driver for the MITgcm algorithm  C  |-THE_MODEL_MAIN :: Primary driver for the MITgcm algorithm
6  C    |              :: Called from WRAPPER level numerical  C    |              :: Called from WRAPPER level numerical
7  C    |              :: code innvocation routine. On entry  C    |              :: code invocation routine. On entry
8  C    |              :: to THE_MODEL_MAIN separate thread and  C    |              :: to THE_MODEL_MAIN separate thread and
9  C    |              :: separate processes will have been established.  C    |              :: separate processes will have been established.
10  C    |              :: Each thread and process will have a unique ID  C    |              :: Each thread and process will have a unique ID
11  C    |              :: but as yet it will not be associated with a  C    |              :: but as yet it will not be associated with a
12  C    |              :: specific region in decomposed discrete space.  C    |              :: specific region in decomposed discrete space.
13  C    |  C    |
14  C    |-INITIALISE_FIXED :: Set fixed model arrays such as topography,  C    |-INITIALISE_FIXED :: Set fixed model arrays such as topography,
15  C    | |                :: grid, solver matrices etc..  C    | |                :: grid, solver matrices etc..
16  C    | |                C    | |
17  C    | |-INI_PARMS :: Routine to set kernel model parameters.  C    | |-INI_PARMS :: Routine to set kernel model parameters.
18  C    | |           :: By default kernel parameters are read from file  C    | |           :: Kernel parameters are read from file "data"
19  C    | |           :: "data" in directory in which code executes.  C    | |           :: in directory in which code executes.
20  C    | |  C    | |
21  C    | |-MON_INIT :: Initialises monitor pacakge ( see pkg/monitor )  C    | |-PACKAGES_BOOT      :: Start up the optional package environment.
22    C    | |                    :: Runtime selection of active packages.
23    C    | |-PACKAGES_READPARMS :: read all packages input parameter file
24    C    | | |- ${PKG}_READPARMS
25  C    | |  C    | |
26  C    | |-INI_GRID :: Control grid array (vert. and hori.) initialisation.  C    | |-SET_PARMS :: Finalise model parameter setting (if fct of pkg usage)
27  C    | | |        :: Grid arrays are held and described in GRID.h.  C    | |
28  C    | | |  C    | |-INI_MODEL_IO  :: Initialise Input/Ouput setting
29  C    | | |-INI_VERTICAL_GRID        :: Initialise vertical grid arrays.  C    | |  |-MNC_INIT
30  C    | | |  C    | |  |-MNC_CW_INIT
31    C    | |  |
32    C    | |  |-MON_INIT   :: Initialises monitor pacakge ( see pkg/monitor )
33    C    | |
34    C    | |-INI_GRID      :: Control grid array (vert. and hori.) initialisation.
35    C    | | |             :: Grid arrays are held and described in GRID.h.
36    C    | | |-LOAD_GRID_SPACING        :: Load grid spacing (vector) from files
37    C    | | |-INI_VERTICAL_GRID        :: Set up vertical grid and coordinate
38  C    | | |-INI_CARTESIAN_GRID       :: Cartesian horiz. grid initialisation  C    | | |-INI_CARTESIAN_GRID       :: Cartesian horiz. grid initialisation
39  C    | | |                          :: (calculate grid from kernel parameters).  C    | | |                          :: (calculate grid from kernel parameters).
40  C    | | |  C    | | |-INI_SPHERICAL_POLAR_GRID :: Spherical polar horiz. grid setting
41  C    | | |-INI_SPHERICAL_POLAR_GRID :: Spherical polar horiz. grid  C    | | |                          :: (calculate grid from kernel parameters).
 C    | | |                          :: initialisation (calculate grid from  
 C    | | |                          :: kernel parameters).  
 C    | | |  
42  C    | | |-INI_CURVILINEAR_GRID     :: General orthogonal, structured horiz.  C    | | |-INI_CURVILINEAR_GRID     :: General orthogonal, structured horiz.
43  C    | |                            :: grid initialisations. ( input from raw  C    | | |                          :: grid initialisations. ( input from raw
44  C    | |                            :: grid files, LONC.bin, DXF.bin etc... )  C    | | |                          :: grid files, LONC.bin, DXF.bin etc... )
45  C    | |  C    | | |-INI_CYLINDER_GRID        :: Cylindrical horiz. grid setting
46  C    | |-INI_DEPTHS    :: Read (from "bathyFile") or set bathymetry/orgography.  C    | |
47    C    | |-LOAD_REF_FILES   ::
48    C    | |-INI_EOS          ::
49    C    | |-SET_REF_STATE    ::
50    C    | |-SET_GRID_FACTORS ::
51  C    | |  C    | |
52    C    | |-INI_DEPTHS    :: Read (from "bathyFile") or set bathymetry/orography.
53  C    | |-INI_MASKS_ETC :: Derive horizontal and vertical cell fractions and  C    | |-INI_MASKS_ETC :: Derive horizontal and vertical cell fractions and
54  C    | |               :: land masking for solid-fluid boundaries.  C    | |               :: land masking for solid-fluid boundaries.
55  C    | |  C    | |
56    C    | |-PACKAGES_INIT_FIXED  :: do all packages fixed-initialisation setting
57    C    | | |- ${PKG}_INIT_FIXED
58    C    | |
59    C    | |-INI_GLOBAL_DOMAIN
60  C    | |-INI_LINEAR_PHSURF :: Set ref. surface Bo_surf  C    | |-INI_LINEAR_PHSURF :: Set ref. surface Bo_surf
61  C    | |  C    | |
62  C    | |-INI_CORI          :: Set coriolis term. zero, f-plane, beta-plane,  C    | |-INI_CORI          :: Set coriolis term. zero, f-plane, beta-plane,
63  C    | |                   :: sphere optins are coded.  C    | |                   :: sphere optins are coded.
64    C    | |-INI_CG2D          :: 2d con. grad solver initialisation.
65    C    | |-INI_CG3D          :: 3d con. grad solver initialisation.
66  C    | |  C    | |
67  C    | |-PACAKGES_BOOT      :: Start up the optional package environment.  C    | |-CONFIG_SUMMARY    :: Provide synopsis of kernel setup. Includes
68  C    | |                    :: Runtime selection of active packages.  C    | |                   :: annotated table of kernel parameter settings.
69  C    | |  C    | |
70  C    | |-PACKAGES_READPARMS :: Call active package internal parameter load.  C    | |-PACKAGES_CHECK    :: call each package configuration checking S/R
71  C    | | |  C    | | |- ${PKG}_CHECK
72  C    | | |-GMREDI_READPARMS    :: GM Package. see pkg/gmredi  C    | |
73  C    | | |-KPP_READPARMS       :: KPP Package. see pkg/kpp  C    | |-CONFIG_CHECK      :: Check config and parameter consistency.
74  C    | | |-SHAP_FILT_READPARMS :: Shapiro filter package. see pkg/shap_filt  C    | |
75  C    | | |-OBCS_READPARMS      :: Open bndy package. see pkg/obcs  C    | |-WRITE_GRID
76  C    | | |-AIM_READPARMS       :: Intermediate Atmos. pacakage. see pkg/aim  C    | |-CPL_EXCH_CONFIGS
 C    | | |-COST_READPARMS      :: Cost function package. see pkg/cost  
 C    | | |-CTRL_INIT           :: Control vector support package. see pkg/ctrl  
 C    | | |-OPTIM_READPARMS     :: Optimisation support package. see pkg/ctrl  
 C    | | |-GRDCHK_READPARMS    :: Gradient check package. see pkg/grdchk  
 C    | | |-ECCO_READPARMS      :: ECCO Support Package. see pkg/ecco  
 C    | |  
 C    | |-PACKAGES_CHECK  
 C    | | |  
 C    | | |-KPP_CHECK           :: KPP Package. pkg/kpp  
 C    | | |-OBCS_CHECK          :: Open bndy Pacakge. pkg/obcs  
 C    | | |-GMREDI_CHECK        :: GM Package. pkg/gmredi  
 C    | |  
 C    | |-PACKAGES_INIT_FIXED  
 C    | | |-OBCS_INIT_FIXED     :: Open bndy Package. see pkg/obcs  
 C    | | |-FLT_INIT            :: Floats Package. see pkg/flt  
 C    | |  
 C    | |-ZONAL_FILT_INIT       :: FFT filter Package. see pkg/zonal_filt  
 C    | |  
 C    | |-INI_CG2D              :: 2d con. grad solver initialisation.  
 C    | |  
 C    | |-INI_CG3D              :: 3d con. grad solver initialisation.  
 C    | |  
 C    | |-CONFIG_SUMMARY        :: Provide synopsis of kernel setup.  
 C    |                         :: Includes annotated table of kernel  
 C    |                         :: parameter settings.  
77  C    |  C    |
78  C    |-CTRL_UNPACK :: Control vector support package. see pkg/ctrl  C    |-CTRL_UNPACK         :: Control vector support package. see pkg/ctrl
79    C    |-COST_DEPENDENT_INIT ::
80  C    |  C    |
81  C    |-ADTHE_MAIN_LOOP :: Derivative evaluating form of main time stepping loop  C    |-ADTHE_MAIN_LOOP :: Derivative evaluating form of main time stepping loop
82  C    !                 :: Auotmatically gerenrated by TAMC/TAF.  C    !                 :: Automatically generated by TAMC/TAF.
 C    |  
 C    |-CTRL_PACK   :: Control vector support package. see pkg/ctrl  
83  C    |  C    |
84  C    |-GRDCHK_MAIN :: Gradient check package. see pkg/grdchk  C    |-THE_MAIN_LOOP   :: Main timestepping loop routine.
 C    |  
 C    |-THE_MAIN_LOOP :: Main timestepping loop routine.  
85  C    | |  C    | |
86  C    | |-INITIALISE_VARIA :: Set the initial conditions for time evolving  C    | |-INITIALISE_VARIA :: Set the initial conditions for time evolving
 C    | | |                :: variables  
 C    | | |  
 C    | | |-INI_LINEAR_PHISURF :: Set ref. surface Bo_surf  
87  C    | | |  C    | | |
88  C    | | |-INI_CORI     :: Set coriolis term. zero, f-plane, beta-plane,  C #ifdef ALLOW_AUTODIFF
89  C    | | |              :: sphere optins are coded.  C    | | |-INI_DEPTHS         \
90  C    | | |  C    | | |-CTRL_DEPTH_INI      \
91  C    | | |-INI_CG2D     :: 2d con. grad solver initialisation.  C    | | |-UPDATE_MASKS_ETC     } ALLOW_DEPTH_CONTROL case
92  C    | | |-INI_CG3D     :: 3d con. grad solver initialisation.  C    | | |-UPDATE_CG2D         /
93  C    | | |-INI_MIXING   :: Initialise diapycnal diffusivity.  C #endif
94  C    | | |-INI_DYNVARS  :: Initialise to zero all DYNVARS.h arrays (dynamical  C    | | |-INI_NLFS_VARS :: Initialise all Non-Lin Free-Surf arrays (SURFACE.h)
95  C    | | |              :: fields).  C    | | |-INI_DYNVARS   :: Initialise to zero all DYNVARS.h arrays
96    C    | | |-INI_NH_VARS   :: Initialise to zero all NH_VARS.h arrays
97  C    | | |  C    | | |
98  C    | | |-INI_FIELDS   :: Control initialising model fields to non-zero  C    | | |-INI_FIELDS   :: Control initialising model fields to non-zero
99  C    | | | |-INI_VEL    :: Initialize 3D flow field.  C    | | | |-INI_VEL    :: Initialize 3D flow field.
100  C    | | | |-INI_THETA  :: Set model initial temperature field.  C    | | | |-INI_THETA  :: Set model initial temperature field.
101  C    | | | |-INI_SALT   :: Set model initial salinity field.  C    | | | |-INI_SALT   :: Set model initial salinity field.
102  C    | | | |-INI_PSURF  :: Set model initial free-surface height/pressure.  C    | | | |-INI_PSURF  :: Set model initial free-surface height/pressure.
103    C    | | | |-READ_PICKUP
104  C    | | |  C    | | |
105  C    | | |-INI_TR1      :: Set initial tracer 1 distribution.  C    | | |-INI_MIXING   :: Initialise diapycnal diffusivity.
106    C    | | |-TAUEDDY_INIT_VARIA
107  C    | | |  C    | | |
108  C    | | |-THE_CORRECTION_STEP :: Step forward to next time step.  C    | | |-INI_FORCING  :: initialise forcing fields
109  C    | | | |                   :: Here applied to move restart conditions  C    | | |-INI_FORCING  :: Set model initial forcing fields.
110  C    | | | |                   :: (saved in mid timestep) to correct level in  C    | | |   |          :: Either set in-line or from file as shown.
 C    | | | |                   :: time (only used for pre-c35).  
 C    | | | |  
 C    | | | |-CALC_GRAD_PHI_SURF :: Return DDx and DDy of surface pressure  
 C    | | | |-CORRECTION_STEP    :: Pressure correction to momentum  
 C    | | | |-CYCLE_TRACER       :: Move tracers forward in time.  
 C    | | | |-OBCS_APPLY         :: Open bndy package. see pkg/obcs  
 C    | | | |-SHAP_FILT_APPLY    :: Shapiro filter package. see pkg/shap_filt  
 C    | | | |-ZONAL_FILT_APPLY   :: FFT filter package. see pkg/zonal_filt  
 C    | | | |-CONVECTIVE_ADJUSTMENT :: Control static instability mixing.  
 C    | | | | |-FIND_RHO  :: Find adjacent densities.  
 C    | | | | |-CONVECT   :: Mix static instability.  
 C    | | | | |-TIMEAVE_CUMULATE :: Update convection statistics.  
 C    | | | |  
 C    | | | |-CALC_EXACT_ETA        :: Change SSH to flow divergence.      
 C    | | |  
 C    | | |-CONVECTIVE_ADJUSTMENT_INI :: Control static instability mixing  
 C    | | | |                         :: Extra time history interactions.  
 C    | | | |                        
 C    | | | |-FIND_RHO  :: Find adjacent densities.  
 C    | | | |-CONVECT   :: Mix static instability.  
 C    | | | |-TIMEAVE_CUMULATE :: Update convection statistics.  
 C    | | |  
 C    | | |-PACKAGES_INIT_VARIABLES :: Does initialisation of time evolving  
 C    | | | |                       :: package data.  
 C    | | | |  
 C    | | | |-GMREDI_INIT          :: GM package. ( see pkg/gmredi )  
 C    | | | |-KPP_INIT             :: KPP package. ( see pkg/kpp )  
 C    | | | |-KPP_OPEN_DIAGS      
 C    | | | |-OBCS_INIT_VARIABLES  :: Open bndy. package. ( see pkg/obcs )  
 C    | | | |-AIM_INIT             :: Interm. atmos package. ( see pkg/aim )  
 C    | | | |-CTRL_MAP_INI         :: Control vector package.( see pkg/ctrl )  
 C    | | | |-COST_INIT            :: Cost function package. ( see pkg/cost )  
 C    | | | |-ECCO_INIT            :: ECCO support package. ( see pkg/ecco )  
 C    | | | |-INI_FORCING          :: Set model initial forcing fields.  
 C    | | |   |                    :: Either set in-line or from file as shown.  
111  C    | | |   |-READ_FLD_XY_RS(zonalWindFile)  C    | | |   |-READ_FLD_XY_RS(zonalWindFile)
112  C    | | |   |-READ_FLD_XY_RS(meridWindFile)  C    | | |   |-READ_FLD_XY_RS(meridWindFile)
113  C    | | |   |-READ_FLD_XY_RS(surfQFile)  C    | | |   |-READ_FLD_XY_RS(surfQnetFile)
114  C    | | |   |-READ_FLD_XY_RS(EmPmRfile)  C    | | |   |-READ_FLD_XY_RS(EmPmRfile)
115  C    | | |   |-READ_FLD_XY_RS(thetaClimFile)  C    | | |   |-READ_FLD_XY_RS(thetaClimFile)
116  C    | | |   |-READ_FLD_XY_RS(saltClimFile)  C    | | |   |-READ_FLD_XY_RS(saltClimFile)
117  C    | | |   |-READ_FLD_XY_RS(surfQswFile)  C    | | |   |-READ_FLD_XY_RS(surfQswFile)
118  C    | | |  C    | | |
119    C    | | |-AUTODIFF_INIT_VARIA
120    C    | | |
121    C    | | |-PACKAGES_INIT_VARIABLES :: Does initialisation of time evolving
122    C    | | | | ${PKG}_INIT_VARIA     :: package data.
123    C    | | |
124    C    | | |-COST_INIT_VARIA
125    C    | | |-CONVECTIVE_ADJUSTMENT_INI
126    C    | | |
127    C    | | |-CALC_R_STAR    :: Calculate the new level thickness factor (r* coord)
128    C    | | |-UPDATE_R_STAR  :: Update the level thickness fraction (r* coord).
129    C    | | |-UPDATE_SIGMA   :: Update the level thickness fraction (sigma-coord).
130  C    | | |-CALC_SURF_DR   :: Calculate the new surface level thickness.  C    | | |-CALC_SURF_DR   :: Calculate the new surface level thickness.
131  C    | | |-UPDATE_SURF_DR :: Update the surface-level thickness fraction.  C    | | |-UPDATE_SURF_DR :: Update the surface-level thickness fraction.
132    C    | | |
133  C    | | |-UPDATE_CG2D    :: Update 2d conjugate grad. for Free-Surf.  C    | | |-UPDATE_CG2D    :: Update 2d conjugate grad. for Free-Surf.
134  C    | | |-STATE_SUMMARY    :: Summarize model prognostic variables.  C    | | |
135  C    | | |-TIMEAVE_STATVARS :: Time averaging package ( see pkg/timeave ).  C    | | |-INTEGR_CONTINUITY :: Integrate the continuity Eqiuation
136  C    | |  C    | | | |-INTEGRATE_FOR_W :: Integrate for vertical velocity
137  C    | |-WRITE_STATE      :: Controlling routine for IO to dump model state.  C    | | | |-OBCS_APPLY_W    :: Open boundary package (see pkg/obcs).
138  C    | | |-WRITE_REC_XYZ_RL :: Single file I/O  C    | | | |-UPDATE_ETAH     :: Update Surface height/pressure
139  C    | | |-WRITE_FLD_XYZ_RL :: Multi-file I/O  C    | | |
140  C    | |  C    | | |-CALC_R_STAR    :: Calculate the new level thickness factor (r* coord)
141  C    | |-MONITOR          :: Monitor state ( see pkg/monitor )  C    | | |-CALC_SURF_DR   :: Calculate the new surface level thickness.
142  C    | |-CTRL_MAP_FORCING :: Control vector support package. ( see pkg/ctrl )  C    | | |
143  C====|>|  C    | | |-STATE_SUMMARY    :: Summarise model prognostic variables.
144    C    | | |
145    C    | | |-MONITOR          :: Monitor state (see pkg/monitor)
146    C    | | |
147    C    | | |-DO_STATEVARS_TAVE :: Time averaging package ( see pkg/timeave ).
148    C    | | |  |-TIMEAVE_STATVARS ::
149    C    | | |  |-PTRACERS_TIMEAVE ::
150    C    | | |
151    C    | | |-DO_THE_MODEL_IO  :: Controlling routine for IO
152    C    | | | |-WRITE_STATE    ::  Write model state variables.
153    C    | | | |-TIMEAVE_STATV_WRITE :: Write Time averaged output (see pkg/timeave)
154    C    | | | |-FIZHI_WRITE_STATE
155    C    | | | |-AIM_WRITE_TAVE
156    C    | | | |-LAND_OUTPUT
157    C    | | | |-OBCS_OUTPUT
158    C    | | | |-GMREDI_OUTPUT
159    C    | | | |-KPP_OUTPUT
160    C    | | | |-PP81_OUTPUT
161    C    | | | |-KL10_OUTPUT
162    C    | | | |-MY82_OUTPUT
163    C    | | | |-OPPS_OUTPUT
164    C    | | | |-GGL90_OUTPUT
165    C    | | | |-SBO_CALC
166    C    | | | |-SBO_OUTPUT
167    C    | | | |-SEAICE_OUTPUT
168    C    | | | |-SHELFICE_OUTPUT
169    C    | | | |-BULKF_OUTPUT
170    C    | | | |-THSICE_OUTPUT
171    C    | | | |-PTRACERS_OUTPUT
172    C    | | | |-MATRIX_OUTPUT
173    C    | | | |-GCHEM_OUTPUT
174    C    | | | |-CPL_OUTPUT
175    C    | | | |-LAYERS_CALC
176    C    | | | |-LAYERS_OUTPUT
177    C    | | | |-DIAGNOSTICS_WRITE :: Write pkg/diagnostics output
178    C    | | |
179  C====|>| ****************************  C====|>| ****************************
180  C====|>| BEGIN MAIN TIMESTEPPING LOOP  C====|>| BEGIN MAIN TIMESTEPPING LOOP
181  C====|>| ****************************  C====|>| ****************************
182  C====|>|  C    | |-COST_AVERAGESFIELDS :: time-averaged Cost function terms (see pkg/cost)
183  C/\  | |-FORWARD_STEP     :: Step forward a time-step ( AT LAST !!! )  C    | |-PROFILES_INLOOP     ::
184    C    | /
185    C    | |-MAIN_DO_LOOP    :: Open-AD case: Main timestepping loop routine
186    C    | \                    otherwise: just call FORWARD_STEP
187    C    | |
188    C/\  | |-FORWARD_STEP        :: Step forward a time-step ( AT LAST !!! )
189  C/\  | | |  C/\  | | |
190  C/\  | | |-DUMMY_IN_STEPPING :: autodiff package ( pkg/autoduff ).  C/\  | | |-LOAD_FIELDS_DRIVER :: control loading of input fields from files
 C/\  | | |-CALC_EXACT_ETA :: Change SSH to flow divergence.  
 C/\  | | |-CALC_SURF_DR   :: Calculate the new surface level thickness.  
 C/\  | | |-EXF_GETFORCING :: External forcing package. ( pkg/exf )  
 C/\  | | |-EXTERNAL_FIELDS_LOAD :: Control loading time dep. external data.  
 C/\  | | | |                    :: Simple interpolcation between end-points  
 C/\  | | | |                    :: for forcing datasets.  
 C/\  | | | |                    
 C/\  | | | |-EXCH :: Sync forcing. in overlap regions.  
191  C/\  | | |  C/\  | | |
192  C/\  | | |-THERMODYNAMICS :: theta, salt + tracer equations driver.  C/\  | | |-CTRL_MAP_FORCING   :: Control vector support package. (see pkg/ctrl)
193  C/\  | | | |  C/\  | | |
194  C/\  | | | |-INTEGRATE_FOR_W :: Integrate for vertical velocity.  C/\  | | |-CPL_EXPORT_MY_DATA :: Send coupling fields to coupler
195  C/\  | | | |-OBCS_APPLY_W    :: Open bndy. package ( see pkg/obcs ).  C/\  | | |-CPL_IMPORT_EXTERNAL_DATA :: Receive coupling fields from coupler
196  C/\  | | | |-FIND_RHO        :: Calculates [rho(S,T,z)-Rhonil] of a slice  C/\  | | |
197  C/\  | | | |-GRAD_SIGMA      :: Calculate isoneutral gradients  C/\  | | |-DO_ATMOSPHERIC_PHYS :: Atmospheric physics computation
198  C/\  | | | |-CALC_IVDC       :: Set Implicit Vertical Diffusivity for Convection  C/\  | | |
199  C/\  | | | |  C/\  | | |-DO_OCEANIC_PHYS     :: Oceanic (& seaice) physics computation
200  C/\  | | | |-OBCS_CALC            :: Open bndy. package ( see pkg/obcs ).  C/\  | | | |-OBCS_CALC         :: Open boundary. package (see pkg/obcs).
201  C/\  | | | |-EXTERNAL_FORCING_SURF:: Accumulates appropriately dimensioned  C/\  | | | |-EXTERNAL_FORCING_SURF:: Accumulates appropriately dimensioned
202  C/\  | | | |                      :: forcing terms.  C/\  | | | |                      :: forcing terms.
203    C/\  | | |
204    C/\  | | |-GCHEM_CALC_TENDENCY :: geochemistry driver routine (see pkg/gchem)
205    C/\  | | |
206    C/\  | | |-THERMODYNAMICS      :: (synchronous time-stepping)
207    C/\  | | |                        theta, salt + tracer equations driver.
208    C/\  | | | |-GMREDI_RESIDUAL_FLOW :: Get the flow field used to advect tracer
209    C/\  | | | |
210    C/\  | | | |-TEMP_INTEGRATE       :: Step forward Prognostic Eq for Temperature.
211    C/\  | | | | |-GAD_ADVECTION      :: Generalised advection driver (multi-dim
212    C/\  | | | | |                         advection case) (see pkg/gad).
213    C/\  | | | | |-GAD_CALC_RHS       :: Calculate Advection-Diffusion tendency terms
214    C/\  | | | | |-TIMESTEP_TRACER    :: Step tracer field forward in time
215    C/\  | | | | |-IMPLDIFF           :: Solve vertical implicit diffusion equation.
216    C/\  | | | | |-CYCLE_AB_TRACER    :: Cycle time-stepping arrays for tracer field
217    C/\  | | | |
218    C/\  | | | |-SALT_INTEGRATE       :: Step forward Prognostic Eq for Salinity.
219    C/\  | | | | |                       same sequence of calls as in TEMP_INTEGRATE
220    C/\  | | | |
221    C/\  | | | |-PTRACERS_INTEGRATE   :: Integrate other tracer(s) (see pkg/ptracers).
222    C/\  | | | | |                       same sequence of calls as in TEMP_INTEGRATE
223    C/\  | | | | |-OBCS_APPLY_PTRACER :: Open boundary package for pTracers
224  C/\  | | | |  C/\  | | | |
225  C/\  | | | |-GMREDI_CALC_TENSOR   :: GM package ( see pkg/gmredi ).  C/\  | | | |-OBCS_APPLY_TS        :: Open boundary package (see pkg/obcs ).
 C/\  | | | |-GMREDI_CALC_TENSOR_DUMMY :: GM package ( see pkg/gmredi ).  
 C/\  | | | |-KPP_CALC             :: KPP package ( see pkg/kpp ).  
 C/\  | | | |-KPP_CALC_DUMMY       :: KPP package ( see pkg/kpp ).  
 C/\  | | | |-AIM_DO_ATMOS_PHYSICS :: Intermed. atmos package ( see pkg/aim ).  
 C/\  | | | |-GAD_ADVECTION        :: Generalised advection driver (multi-dim  
 C/\  | | | |                         advection case) (see pkg/gad).  
 C/\  | | | |-CALC_COMMON_FACTORS  :: Calculate common data (such as volume flux)  
 C/\  | | | |-CALC_DIFFUSIVITY     :: Calculate net vertical diffusivity  
 C/\  | | | | |  
 C/\  | | | | |-GMREDI_CALC_DIFF   :: GM package ( see pkg/gmredi ).  
 C/\  | | | | |-KPP_CALC_DIFF      :: KPP package ( see pkg/kpp ).  
 C/\  | | | |  
 C/\  | | | |-CALC_GT              :: Calculate the temperature tendency terms  
 C/\  | | | | |  
 C/\  | | | | |-GAD_CALC_RHS       :: Generalised advection package  
 C/\  | | | | |                    :: ( see pkg/gad )  
 C/\  | | | | |-EXTERNAL_FORCING_T :: Problem specific forcing for temperature.  
 C/\  | | | | |-ADAMS_BASHFORTH2   :: Extrapolate tendencies forward in time.  
 C/\  | | | | |-FREESURF_RESCALE_G :: Re-scale Gt for free-surface height.  
 C/\  | | | |  
 C/\  | | | |-TIMESTEP_TRACER      :: Step tracer field forward in time  
 C/\  | | | |  
 C/\  | | | |-CALC_GS              :: Calculate the salinity tendency terms  
 C/\  | | | | |  
 C/\  | | | | |-GAD_CALC_RHS       :: Generalised advection package  
 C/\  | | | | |                    :: ( see pkg/gad )  
 C/\  | | | | |-EXTERNAL_FORCING_S :: Problem specific forcing for salt.  
 C/\  | | | | |-ADAMS_BASHFORTH2   :: Extrapolate tendencies forward in time.  
 C/\  | | | | |-FREESURF_RESCALE_G :: Re-scale Gs for free-surface height.  
 C/\  | | | |  
 C/\  | | | |-TIMESTEP_TRACER      :: Step tracer field forward in time  
 C/\  | | | |  
 C/\  | | | |-CALC_GTR1            :: Calculate other tracer(s) tendency terms  
 C/\  | | | | |  
 C/\  | | | | |-GAD_CALC_RHS       :: Generalised advection package  
 C/\  | | | | |                    :: ( see pkg/gad )  
 C/\  | | | | |-EXTERNAL_FORCING_TR:: Problem specific forcing for tracer.  
 C/\  | | | | |-ADAMS_BASHFORTH2   :: Extrapolate tendencies forward in time.  
 C/\  | | | | |-FREESURF_RESCALE_G :: Re-scale Gs for free-surface height.  
 C/\  | | | |  
 C/\  | | | |-TIMESTEP_TRACER      :: Step tracer field forward in time  
 C/\  | | | |-OBCS_APPLY_TS        :: Open bndy. package (see pkg/obcs ).  
 C/\  | | | |-FREEZE               :: Limit range of temperature.  
 C/\  | | | |  
 C/\  | | | |-IMPLDIFF             :: Solve vertical implicit diffusion equation.  
 C/\  | | | |-OBCS_APPLY_TS        :: Open bndy. package (see pkg/obcs ).  
 C/\  | | | |  
 C/\  | | | |-AIM_AIM2DYN_EXCHANGES :: Inetermed. atmos (see pkg/aim).  
 C/\  | | | |-EXCH                 :: Update overlaps  
226  C/\  | | |  C/\  | | |
227  C/\  | | |-DYNAMICS       :: Momentum equations driver.  C/\  | | |-DYNAMICS       :: Momentum equations driver.
228  C/\  | | | |  C/\  | | | |
229  C/\  | | | |-CALC_GRAD_PHI_SURF :: Calculate the gradient of the surface  C/\  | | | |-CALC_GRAD_PHI_SURF :: Calculate the gradient of the surface
230  C/\  | | | |                       Potential anomaly.  C/\  | | | |                       Potential anomaly.
231  C/\  | | | |-CALC_VISCOSITY     :: Calculate net vertical viscosity  C/\  | | | |-CALC_VISCOSITY   :: Calculate net vertical viscosity
232  C/\  | | | | |-KPP_CALC_VISC    :: KPP package ( see pkg/kpp ).  C/\  | | | |-CALC_PHI_HYD     :: Integrate the hydrostatic relation.
233  C/\  | | | |                                                        C/\  | | | |-MOM_FLUXFORM     :: Flux form mom eqn. package  (pkg/mom_fluxform)
234  C/\  | | | |-CALC_PHI_HYD       :: Integrate the hydrostatic relation.  C/\  | | | |-MOM_VECINV       :: Vector invariant form mom eqn (pkg/mom_vecinv)
235  C/\  | | | |-MOM_FLUXFORM       :: Flux form mom eqn. package ( see  C/\  | | | |-TIMESTEP         :: Step momentum fields forward in time
236  C/\  | | | |                       pkg/mom_fluxform ).  C/\  | | | |-OBCS_APPLY_UV    :: Open boundary package (see pkg/obcs).
237  C/\  | | | |-MOM_VECINV         :: Vector invariant form mom eqn. package ( see  C/\  | | | |-IMPLDIFF         :: Solve vertical implicit diffusion equation.
238  C/\  | | | |                       pkg/mom_vecinv   ).  C/\  | | | |-CALC_GW          :: vert. momentum tendency terms (Non-Hydrostatic)
 C/\  | | | |-TIMESTEP           :: Step momentum fields forward in time  
 C/\  | | | |-OBCS_APPLY_UV      :: Open bndy. package (see pkg/obcs ).  
 C/\  | | | |  
 C/\  | | | |-IMPLDIFF           :: Solve vertical implicit diffusion equation.  
 C/\  | | | |-OBCS_APPLY_UV      :: Open bndy. package (see pkg/obcs ).  
 C/\  | | | |  
 C/\  | | | |-TIMEAVE_CUMUL_1T   :: Time averaging package ( see pkg/timeave ).  
 C/\  | | | |-TIMEAVE_CUMUATE    :: Time averaging package ( see pkg/timeave ).  
 C/\  | | | |-DEBUG_STATS_RL     :: Quick debug package ( see pkg/debug ).  
 C/\  | | |  
 C/\  | | |-CALC_GW        :: vert. momentum tendency terms ( NH, QH only ).  
239  C/\  | | |  C/\  | | |
240  C/\  | | |-UPDATE_SURF_DR :: Update the surface-level thickness fraction.  C/\  | | |-UPDATE_SURF_DR :: Update the surface-level thickness fraction.
241  C/\  | | |  C/\  | | |-UPDATE_R_STAR  :: Update the level thickness fraction.
242  C/\  | | |-UPDATE_CG2D    :: Update 2d conjugate grad. for Free-Surf.  C/\  | | |-UPDATE_CG2D    :: Update 2d conjugate grad. for Free-Surf.
243  C/\  | | |  C/\  | | |
244  C/\  | | |-SOLVE_FOR_PRESSURE           :: Find surface pressure.  C/\  | | |-SOLVE_FOR_PRESSURE  :: Find surface pressure.
 C/\  | | | |-CALC_DIV_GHAT     :: Form the RHS of the surface pressure eqn.  
245  C/\  | | | |-CG2D              :: Two-dim pre-con. conjugate-gradient.  C/\  | | | |-CG2D              :: Two-dim pre-con. conjugate-gradient.
246  C/\  | | | |-CG3D              :: Three-dim pre-con. conjugate-gradient solver.  C/\  | | | |-CG3D              :: Three-dim pre-con. conjugate-gradient solver.
247  C/\  | | |  C/\  | | |
248  C/\  | | |-THE_CORRECTION_STEP          :: Step forward to next time step.  C/\  | | |-MOMENTUM_CORRECTION_STEP :: Finalise momentum stepping
 C/\  | | | |  
249  C/\  | | | |-CALC_GRAD_PHI_SURF :: Return DDx and DDy of surface pressure  C/\  | | | |-CALC_GRAD_PHI_SURF :: Return DDx and DDy of surface pressure
250  C/\  | | | |-CORRECTION_STEP    :: Pressure correction to momentum  C/\  | | | |-CORRECTION_STEP    :: Pressure correction to momentum
251  C/\  | | | |-CYCLE_TRACER       :: Move tracers forward in time.  C/\  | | | |-OBCS_APPLY_UV      :: Open boundary package (see pkg/obcs).
 C/\  | | | |-OBCS_APPLY         :: Open bndy package. see pkg/obcs  
 C/\  | | | |-SHAP_FILT_APPLY    :: Shapiro filter package. see pkg/shap_filt  
 C/\  | | | |-ZONAL_FILT_APPLY   :: FFT filter package. see pkg/zonal_filt  
 C/\  | | | |-CONVECTIVE_ADJUSTMENT :: Control static instability mixing.  
 C/\  | | | | |-FIND_RHO  :: Find adjacent densities.  
 C/\  | | | | |-CONVECT   :: Mix static instability.  
 C/\  | | | | |-TIMEAVE_CUMULATE :: Update convection statistics.  
 C/\  | | | |  
 C/\  | | | |-CALC_EXACT_ETA        :: Change SSH to flow divergence.      
252  C/\  | | |  C/\  | | |
253  C/\  | | |-DO_FIELDS_BLOCKING_EXCHANGES :: Sync up overlap regions.  C/\  | | |-INTEGR_CONTINUITY    :: Integrate continuity equation
 C/\  | | | |-EXCH                                                    
254  C/\  | | |  C/\  | | |
255  C/\  | | |-FLT_MAIN         :: Float package ( pkg/flt ).  C/\  | | |-THERMODYNAMICS       :: (staggered time-stepping)
256    C/\  | | |                         theta, salt + tracer equations driver.
257  C/\  | | |  C/\  | | |
258  C/\  | | |-MONITOR          :: Monitor package ( pkg/monitor ).  C/\  | | |-TRACERS_CORRECTION_STEP :: Finalise tracer steppin:
259    C/\  | | |                             apply filter, conv.adjustment
260  C/\  | | |  C/\  | | |
261    C/\  | | |-GCHEM_FORCING_SEP :: tracer forcing for gchem pkg (if tracer
262    C/\  | | |                      dependent tendencies calculated separately)
263    C/\  | | |
264    C/\  | | |-DO_FIELDS_BLOCKING_EXCHANGES :: Sync up overlap regions.
265    C/\  | | |
266    C/\  | | |-MONITOR          :: Monitor package (pkg/monitor).
267  C/\  | | |-DO_THE_MODEL_IO  :: Standard diagnostic I/O.  C/\  | | |-DO_THE_MODEL_IO  :: Standard diagnostic I/O.
268  C/\  | | | |-WRITE_STATE    :: Core state I/O  C/\  | | |
269  C/\  | | | |-TIMEAVE_STATV_WRITE :: Time averages. see pkg/timeave  C/\  | | |-DO_WRITE_PICKUP  :: Write restart files.
270  C/\  | | | |-AIM_WRITE_DIAGS     :: Intermed. atmos diags. see pkg/aim  C    | |
 C/\  | | | |-GMREDI_DIAGS        :: GM diags. see pkg/gmredi  
 C/\  | | | |-KPP_DO_DIAGS        :: KPP diags. see pkg/kpp  
 C/\  | | |  
 C/\  | | |-WRITE_CHECKPOINT :: Do I/O for restart files.  
 C/\  | |  
 C/\  | |-COST_TILE        :: Cost function package. ( see pkg/cost )  
 C<===|=|  
271  C<===|=| **************************  C<===|=| **************************
272  C<===|=| END MAIN TIMESTEPPING LOOP  C<===|=| END MAIN TIMESTEPPING LOOP
273  C<===|=| **************************  C<===|=| **************************
274  C<===|=|  C    | |
275  C    | |-COST_FINAL       :: Cost function package. ( see pkg/cost )  C    | |-COST_AVERAGESFIELDS :: time-averaged Cost function terms (see pkg/cost)
276    C    | |-PROFILES_INLOOP     ::
277    C    | |-COST_FINAL          :: Cost function package. (see pkg/cost)
278    C    |
279    C    |-CTRL_PACK       :: Control vector support package. see pkg/ctrl
280  C    |  C    |
281  C    |-WRITE_CHECKPOINT :: Final state storage, for restart.  C    |-GRDCHK_MAIN     :: Gradient check package. see pkg/grdchk
282  C    |  C    |
283  C    |-TIMER_PRINTALL :: Computational timing summary  C    |-TIMER_PRINTALL  :: Computational timing summary
284  C    |  C    |
285  C    |-COMM_STATS     :: Summarise inter-proc and inter-thread communication  C    |-COMM_STATS      :: Summarise inter-proc and inter-thread communication
286  C                     :: events.  C                      :: events.
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