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nemogcm.F90 in NEMO/branches/2019/dev_r11514_HPC-02_single-core-extrahalo/src/OCE – NEMO

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source: NEMO/branches/2019/dev_r11514_HPC-02_single-core-extrahalo/src/OCE/nemogcm.F90 @ 11719

Last change on this file since 11719 was 11719, checked in by francesca, 5 years ago
add extra halo support- ticket #2009
Property svn:keywords set to `Id`
File size: 35.3 KB

Rev	Line
[2496]	1	MODULE nemogcm
[2442]	2	!!======================================================================
[2496]	3	!! * MODULE nemogcm *
	4	!! Ocean system : NEMO GCM (ocean dynamics, on-line tracers, biochemistry and sea-ice)
[2442]	5	!!======================================================================
[1593]	6	!! History : OPA ! 1990-10 (C. Levy, G. Madec) Original code
	7	!! 7.0 ! 1991-11 (M. Imbard, C. Levy, G. Madec)
[3764]	8	!! 7.1 ! 1993-03 (M. Imbard, C. Levy, G. Madec, O. Marti, M. Guyon, A. Lazar,
	9	!! P. Delecluse, C. Perigaud, G. Caniaux, B. Colot, C. Maes) release 7.1
[1593]	10	!! - ! 1992-06 (L.Terray) coupling implementation
[3764]	11	!! - ! 1993-11 (M.A. Filiberti) IGLOO sea-ice
	12	!! 8.0 ! 1996-03 (M. Imbard, C. Levy, G. Madec, O. Marti, M. Guyon, A. Lazar,
[2104]	13	!! P. Delecluse, L.Terray, M.A. Filiberti, J. Vialar, A.M. Treguier, M. Levy) release 8.0
[1593]	14	!! 8.1 ! 1997-06 (M. Imbard, G. Madec)
[9656]	15	!! 8.2 ! 1999-11 (M. Imbard, H. Goosse) sea-ice model
[3764]	16	!! ! 1999-12 (V. Thierry, A-M. Treguier, M. Imbard, M-A. Foujols) OPEN-MP
[1593]	17	!! ! 2000-07 (J-M Molines, M. Imbard) Open Boundary Conditions (CLIPPER)
	18	!! NEMO 1.0 ! 2002-08 (G. Madec) F90: Free form and modules
	19	!! - ! 2004-06 (R. Redler, NEC CCRLE, Germany) add OASIS[3/4] coupled interfaces
	20	!! - ! 2004-08 (C. Talandier) New trends organization
	21	!! - ! 2005-06 (C. Ethe) Add the 1D configuration possibility
	22	!! - ! 2005-11 (V. Garnier) Surface pressure gradient organization
	23	!! - ! 2006-03 (L. Debreu, C. Mazauric) Agrif implementation
	24	!! - ! 2006-04 (G. Madec, R. Benshila) Step reorganization
	25	!! - ! 2007-07 (J. Chanut, A. Sellar) Unstructured open boundaries (BDY)
	26	!! 3.2 ! 2009-08 (S. Masson) open/write in the listing file in mpp
[3764]	27	!! 3.3 ! 2010-05 (K. Mogensen, A. Weaver, M. Martin, D. Lea) Assimilation interface
[2236]	28	!! - ! 2010-10 (C. Ethe, G. Madec) reorganisation of initialisation phase
[3294]	29	!! 3.3.1! 2011-01 (A. R. Porter, STFC Daresbury) dynamical allocation
[5836]	30	!! - ! 2011-11 (C. Harris) decomposition changes for running with CICE
	31	!! 3.6 ! 2012-05 (C. Calone, J. Simeon, G. Madec, C. Ethe) Add grid coarsening
	32	!! - ! 2014-12 (G. Madec) remove KPP scheme and cross-land advection (cla)
[7646]	33	!! 4.0 ! 2016-10 (G. Madec, S. Flavoni) domain configuration / user defined interface
[1593]	34	!!----------------------------------------------------------------------
[3]	35
	36	!!----------------------------------------------------------------------
[6140]	37	!! nemo_gcm : solve ocean dynamics, tracer, biogeochemistry and/or sea-ice
	38	!! nemo_init : initialization of the NEMO system
	39	!! nemo_ctl : initialisation of the contol print
	40	!! nemo_closefile: close remaining open files
	41	!! nemo_alloc : dynamical allocation
[3]	42	!!----------------------------------------------------------------------
[6140]	43	USE step_oce ! module used in the ocean time stepping module (step.F90)
[7646]	44	USE phycst ! physical constant (par_cst routine)
	45	USE domain ! domain initialization (dom_init & dom_cfg routines)
[9161]	46	USE closea ! treatment of closed seas (for ln_closea)
[7646]	47	USE usrdef_nam ! user defined configuration
[6140]	48	USE tideini ! tidal components initialization (tide_ini routine)
[9019]	49	USE bdy_oce, ONLY : ln_bdy
[6140]	50	USE bdyini ! open boundary cond. setting (bdy_init routine)
	51	USE istate ! initial state setting (istate_init routine)
	52	USE ldfdyn ! lateral viscosity setting (ldfdyn_init routine)
	53	USE ldftra ! lateral diffusivity setting (ldftra_init routine)
	54	USE trdini ! dyn/tra trends initialization (trd_init routine)
	55	USE asminc ! assimilation increments
	56	USE asmbkg ! writing out state trajectory
	57	USE diaptr ! poleward transports (dia_ptr_init routine)
	58	USE diadct ! sections transports (dia_dct_init routine)
	59	USE diaobs ! Observation diagnostics (dia_obs_init routine)
	60	USE diacfl ! CFL diagnostics (dia_cfl_init routine)
[11692]	61	USE diaharm ! tidal harmonics diagnostics (dia_harm_init routine)
[6140]	62	USE step ! NEMO time-stepping (stp routine)
	63	USE icbini ! handle bergs, initialisation
	64	USE icbstp ! handle bergs, calving, themodynamics and transport
	65	USE cpl_oasis3 ! OASIS3 coupling
	66	USE c1d ! 1D configuration
	67	USE step_c1d ! Time stepping loop for the 1D configuration
	68	USE dyndmp ! Momentum damping
	69	USE stopar ! Stochastic param.: ???
	70	USE stopts ! Stochastic param.: ???
[7646]	71	USE diurnal_bulk ! diurnal bulk SST
	72	USE step_diu ! diurnal bulk SST timestepping (called from here if run offline)
	73	USE crsini ! initialise grid coarsening utility
	74	USE diatmb ! Top,middle,bottom output
	75	USE dia25h ! 25h mean output
	76	USE sbc_oce , ONLY : lk_oasis
	77	USE wet_dry ! Wetting and drying setting (wad_init routine)
[1594]	78	#if defined key_top
[6140]	79	USE trcini ! passive tracer initialisation
[1594]	80	#endif
[7646]	81	#if defined key_nemocice_decomp
	82	USE ice_domain_size, only: nx_global, ny_global
	83	#endif
	84	!
[6140]	85	USE lib_mpp ! distributed memory computing
[7646]	86	USE mppini ! shared/distributed memory setting (mpp_init routine)
[11719]	87	USE lbcnfd , ONLY : isendto, nsndto ! Setup of north fold exchanges
[7646]	88	USE lib_fortran ! Fortran utilities (allows no signed zero when 'key_nosignedzero' defined)
[1412]	89	#if defined key_iomput
[6140]	90	USE xios ! xIOserver
[1359]	91	#endif
[9780]	92	#if defined key_agrif
	93	USE agrif_all_update ! Master Agrif update
	94	#endif
[11719]	95	USE halo_mng
[268]	96
[2715]	97	IMPLICIT NONE
[3]	98	PRIVATE
	99
[2496]	100	PUBLIC nemo_gcm ! called by model.F90
	101	PUBLIC nemo_init ! needed by AGRIF
[3764]	102	PUBLIC nemo_alloc ! needed by TAM
[467]	103
[2498]	104	CHARACTER(lc) :: cform_aaa="( /, 'AAAAAAAA', / ) " ! flag for output listing
[1593]	105
[10425]	106	#if defined key_mpp_mpi
[11692]	107	! need MPI_Wtime
[10425]	108	INCLUDE 'mpif.h'
	109	#endif
	110
[3]	111	!!----------------------------------------------------------------------
[9570]	112	!! NEMO/OCE 4.0 , NEMO Consortium (2018)
[2392]	113	!! $Id$
[10068]	114	!! Software governed by the CeCILL license (see ./LICENSE)
[3]	115	!!----------------------------------------------------------------------
	116	CONTAINS
	117
[2496]	118	SUBROUTINE nemo_gcm
[3]	119	!!----------------------------------------------------------------------
[2496]	120	!! * ROUTINE nemo_gcm *
[3]	121	!!
[3764]	122	!! ** Purpose : NEMO solves the primitive equations on an orthogonal
[1593]	123	!! curvilinear mesh on the sphere.
[3]	124	!!
	125	!! ** Method : - model general initialization
	126	!! - launch the time-stepping (stp routine)
[1593]	127	!! - finalize the run by closing files and communications
[3]	128	!!
[2715]	129	!! References : Madec, Delecluse, Imbard, and Levy, 1997: internal report, IPSL.
[1593]	130	!! Madec, 2008, internal report, IPSL.
[3]	131	!!----------------------------------------------------------------------
[7646]	132	INTEGER :: istp ! time step index
[11692]	133	REAL(wp):: zstptiming ! elapsed time for 1 time step
[389]	134	!!----------------------------------------------------------------------
[2382]	135	!
[392]	136	#if defined key_agrif
[1593]	137	CALL Agrif_Init_Grids() ! AGRIF: set the meshes
[389]	138	#endif
[1593]	139	! !-----------------------!
[2496]	140	CALL nemo_init !== Initialisations ==!
[1593]	141	! !-----------------------!
[2715]	142	#if defined key_agrif
[3680]	143	CALL Agrif_Declare_Var_dom ! AGRIF: set the meshes for DOM
	144	CALL Agrif_Declare_Var ! " " " " " DYN/TRA
[2715]	145	# if defined key_top
[3680]	146	CALL Agrif_Declare_Var_top ! " " " " " TOP
[2715]	147	# endif
[9570]	148	# if defined key_si3
[9611]	149	CALL Agrif_Declare_Var_ice ! " " " " " Sea ice
[7646]	150	# endif
[2715]	151	#endif
[682]	152	! check that all process are still there... If some process have an error,
	153	! they will never enter in step and other processes will wait until the end of the cpu time!
[10425]	154	CALL mpp_max( 'nemogcm', nstop )
[682]	155
[1593]	156	IF(lwp) WRITE(numout,cform_aaa) ! Flag AAAAAAA
	157
	158	! !-----------------------!
	159	! !== time stepping ==!
	160	! !-----------------------!
[900]	161	istp = nit000
[9210]	162	!
[2236]	163	#if defined key_c1d
[9210]	164	DO WHILE ( istp <= nitend .AND. nstop == 0 ) !== C1D time-stepping ==!
	165	CALL stp_c1d( istp )
	166	istp = istp + 1
	167	END DO
[2236]	168	#else
[9210]	169	!
	170	# if defined key_agrif
	171	! !== AGRIF time-stepping ==!
	172	CALL Agrif_Regrid()
[9213]	173	!
[9780]	174	! Recursive update from highest nested level to lowest:
	175	CALL Agrif_step_child_adj(Agrif_Update_All)
	176	!
[9210]	177	DO WHILE( istp <= nitend .AND. nstop == 0 )
	178	CALL stp
	179	istp = istp + 1
	180	END DO
	181	!
	182	IF( .NOT. Agrif_Root() ) THEN
	183	CALL Agrif_ParentGrid_To_ChildGrid()
	184	IF( ln_diaobs ) CALL dia_obs_wri
	185	IF( ln_timing ) CALL timing_finalize
	186	CALL Agrif_ChildGrid_To_ParentGrid()
	187	ENDIF
	188	!
	189	# else
	190	!
	191	IF( .NOT.ln_diurnal_only ) THEN !== Standard time-stepping ==!
	192	!
	193	DO WHILE( istp <= nitend .AND. nstop == 0 )
[11692]	194
[10425]	195	ncom_stp = istp
[11692]	196	IF( ln_timing ) THEN
	197	zstptiming = MPI_Wtime()
	198	IF ( istp == ( nit000 + 1 ) ) elapsed_time = zstptiming
	199	IF ( istp == nitend ) elapsed_time = zstptiming - elapsed_time
	200	ENDIF
	201
[9210]	202	CALL stp ( istp )
[389]	203	istp = istp + 1
[11692]	204
	205	IF( lwp .AND. ln_timing ) WRITE(numtime,*) 'timing step ', istp-1, ' : ', MPI_Wtime() - zstptiming
	206
[389]	207	END DO
[9210]	208	!
	209	ELSE !== diurnal SST time-steeping only ==!
	210	!
	211	DO WHILE( istp <= nitend .AND. nstop == 0 )
	212	CALL stp_diurnal( istp ) ! time step only the diurnal SST
	213	istp = istp + 1
	214	END DO
	215	!
	216	ENDIF
	217	!
	218	# endif
	219	!
[2236]	220	#endif
[9210]	221	!
[6140]	222	IF( ln_diaobs ) CALL dia_obs_wri
[3609]	223	!
	224	IF( ln_icebergs ) CALL icb_end( nitend )
[3764]	225
[1593]	226	! !------------------------!
	227	! !== finalize the run ==!
	228	! !------------------------!
[7646]	229	IF(lwp) WRITE(numout,cform_aaa) ! Flag AAAAAAA
[1593]	230	!
[7646]	231	IF( nstop /= 0 .AND. lwp ) THEN ! error print
[11692]	232	WRITE(ctmp1,*) ' ==>>> nemo_gcm: a total of ', nstop, ' errors have been found'
	233	CALL ctl_stop( ctmp1 )
[389]	234	ENDIF
[1593]	235	!
[9124]	236	IF( ln_timing ) CALL timing_finalize
[3294]	237	!
[2496]	238	CALL nemo_closefile
[4990]	239	!
[3769]	240	#if defined key_iomput
[9210]	241	CALL xios_finalize ! end mpp communications with xios
	242	IF( lk_oasis ) CALL cpl_finalize ! end coupling and mpp communications with OASIS
[532]	243	#else
[9210]	244	IF ( lk_oasis ) THEN ; CALL cpl_finalize ! end coupling and mpp communications with OASIS
[11692]	245	ELSEIF( lk_mpp ) THEN ; CALL mppstop ! end mpp communications
[4990]	246	ENDIF
[532]	247	#endif
[900]	248	!
[10436]	249	IF(lwm) THEN
	250	IF( nstop == 0 ) THEN ; STOP 0
[11692]	251	ELSE ; STOP 123
[10436]	252	ENDIF
[10425]	253	ENDIF
	254	!
[2496]	255	END SUBROUTINE nemo_gcm
[389]	256
	257
[2496]	258	SUBROUTINE nemo_init
[389]	259	!!----------------------------------------------------------------------
[2496]	260	!! * ROUTINE nemo_init *
[389]	261	!!
[2496]	262	!! ** Purpose : initialization of the NEMO GCM
[389]	263	!!----------------------------------------------------------------------
[11692]	264	INTEGER :: ios, ilocal_comm ! local integers
[9213]	265	!!
[10570]	266	NAMELIST/namctl/ ln_ctl , sn_cfctl, nn_print, nn_ictls, nn_ictle, &
	267	& nn_isplt , nn_jsplt, nn_jctls, nn_jctle, &
[9019]	268	& ln_timing, ln_diacfl
[9213]	269	NAMELIST/namcfg/ ln_read_cfg, cn_domcfg, ln_closea, ln_write_cfg, cn_domcfg_out, ln_use_jattr
[3]	270	!!----------------------------------------------------------------------
[1593]	271	!
[5407]	272	cxios_context = 'nemo'
[11719]	273	nn_hls = 1
[2496]	274	!
[11692]	275	! !-------------------------------------------------!
	276	! ! set communicator & select the local rank !
	277	! ! must be done as soon as possible to get narea !
	278	! !-------------------------------------------------!
[1593]	279	!
[1412]	280	#if defined key_iomput
[2200]	281	IF( Agrif_Root() ) THEN
[5407]	282	IF( lk_oasis ) THEN
[7646]	283	CALL cpl_init( "oceanx", ilocal_comm ) ! nemo local communicator given by oasis
[11692]	284	CALL xios_initialize( "not used" , local_comm =ilocal_comm ) ! send nemo communicator to xios
[4990]	285	ELSE
[11692]	286	CALL xios_initialize( "for_xios_mpi_id", return_comm=ilocal_comm ) ! nemo local communicator given by xios
[4990]	287	ENDIF
[2200]	288	ENDIF
[11692]	289	CALL mpp_start( ilocal_comm )
[532]	290	#else
[5407]	291	IF( lk_oasis ) THEN
[4990]	292	IF( Agrif_Root() ) THEN
[7646]	293	CALL cpl_init( "oceanx", ilocal_comm ) ! nemo local communicator given by oasis
[4990]	294	ENDIF
[11692]	295	CALL mpp_start( ilocal_comm )
[4990]	296	ELSE
[11692]	297	CALL mpp_start( )
[2236]	298	ENDIF
[532]	299	#endif
[11692]	300	!
	301	narea = mpprank + 1 ! mpprank: the rank of proc (0 --> mppsize -1 )
	302	lwm = (narea == 1) ! control of output namelists
	303	!
	304	! !---------------------------------------------------------------!
	305	! ! Open output files, reference and configuration namelist files !
	306	! !---------------------------------------------------------------!
	307	!
	308	! open ocean.output as soon as possible to get all output prints (including errors messages)
	309	IF( lwm ) CALL ctl_opn( numout, 'ocean.output', 'REPLACE', 'FORMATTED', 'SEQUENTIAL', -1, -1, .FALSE. )
	310	! open reference and configuration namelist files
	311	CALL ctl_opn( numnam_ref, 'namelist_ref', 'OLD', 'FORMATTED', 'SEQUENTIAL', -1, -1, .FALSE. )
	312	CALL ctl_opn( numnam_cfg, 'namelist_cfg', 'OLD', 'FORMATTED', 'SEQUENTIAL', -1, -1, .FALSE. )
	313	IF( lwm ) CALL ctl_opn( numond, 'output.namelist.dyn', 'REPLACE', 'FORMATTED', 'SEQUENTIAL', -1, -1, .FALSE. )
	314	! open /dev/null file to be able to supress output write easily
	315	CALL ctl_opn( numnul, '/dev/null', 'REPLACE', 'FORMATTED', 'SEQUENTIAL', -1, -1, .FALSE. )
	316	!
	317	! !--------------------!
	318	! ! Open listing units ! -> need ln_ctl from namctl to define lwp
	319	! !--------------------!
	320	!
	321	REWIND( numnam_ref ) ! Namelist namctl in reference namelist
	322	READ ( numnam_ref, namctl, IOSTAT = ios, ERR = 901 )
	323	901 IF( ios /= 0 ) CALL ctl_nam ( ios , 'namctl in reference namelist' )
	324	REWIND( numnam_cfg ) ! Namelist namctl in confguration namelist
	325	READ ( numnam_cfg, namctl, IOSTAT = ios, ERR = 902 )
	326	902 IF( ios > 0 ) CALL ctl_nam ( ios , 'namctl in configuration namelist' )
	327	!
	328	lwp = (narea == 1) .OR. ln_ctl ! control of all listing output print
	329	!
	330	IF(lwp) THEN ! open listing units
[1593]	331	!
[11692]	332	IF( .NOT. lwm ) & ! alreay opened for narea == 1
	333	& CALL ctl_opn( numout, 'ocean.output', 'REPLACE', 'FORMATTED', 'SEQUENTIAL', -1, -1, .FALSE., narea )
[1593]	334	!
[1579]	335	WRITE(numout,*)
[11692]	336	WRITE(numout,*) ' CNRS - NERC - Met OFFICE - MERCATOR-ocean - CMCC'
[1593]	337	WRITE(numout,*) ' NEMO team'
[1579]	338	WRITE(numout,*) ' Ocean General Circulation Model'
[10510]	339	WRITE(numout,*) ' NEMO version 4.0 (2019) '
[1579]	340	WRITE(numout,*)
[10510]	341	WRITE(numout,*) " ._ ._ ._ ._ ._ "
	342	WRITE(numout,*) " _.-._)`\_.-._)`\_.-._)`\_.-._)`\_.-._)`\_ "
[1579]	343	WRITE(numout,*)
[10510]	344	WRITE(numout,*) " o _, _, "
	345	WRITE(numout,*) " o .' ( .-' / "
	346	WRITE(numout,*) " o _/..._'. .' / "
	347	WRITE(numout,*) " ( o .-'` ` '-./ _.' "
	348	WRITE(numout,*) " ) ( o) ;= <_ ( "
	349	WRITE(numout,*) " ( '-.,\\__ __.-;`\ '. ) "
	350	WRITE(numout,*) " ) ) \) \|`\ \) '. \ ( ( "
	351	WRITE(numout,*) " ( ( \_/ '-._\ ) ) "
[10583]	352	WRITE(numout,*) " ) ) jgs ` ( ( "
[10510]	353	WRITE(numout,*) " ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ "
	354	WRITE(numout,*)
[1593]	355	!
[7646]	356	WRITE(numout,cform_aaa) ! Flag AAAAAAA
	357	!
[473]	358	ENDIF
[10425]	359	!
[11692]	360	! finalize the definition of namctl variables
	361	IF( sn_cfctl%l_config ) THEN
	362	! Activate finer control of report outputs
	363	! optionally switch off output from selected areas (note this only
	364	! applies to output which does not involve global communications)
	365	IF( ( narea < sn_cfctl%procmin .OR. narea > sn_cfctl%procmax ) .OR. &
	366	& ( MOD( narea - sn_cfctl%procmin, sn_cfctl%procincr ) /= 0 ) ) &
	367	& CALL nemo_set_cfctl( sn_cfctl, .FALSE., .FALSE. )
	368	ELSE
	369	! Use ln_ctl to turn on or off all options.
	370	CALL nemo_set_cfctl( sn_cfctl, ln_ctl, .TRUE. )
	371	ENDIF
	372	!
	373	IF(lwm) WRITE( numond, namctl )
	374	!
	375	! !------------------------------------!
	376	! ! Set global domain size parameters !
	377	! !------------------------------------!
	378	!
	379	REWIND( numnam_ref ) ! Namelist namcfg in reference namelist
	380	READ ( numnam_ref, namcfg, IOSTAT = ios, ERR = 903 )
	381	903 IF( ios /= 0 ) CALL ctl_nam ( ios , 'namcfg in reference namelist' )
	382	REWIND( numnam_cfg ) ! Namelist namcfg in confguration namelist
	383	READ ( numnam_cfg, namcfg, IOSTAT = ios, ERR = 904 )
	384	904 IF( ios > 0 ) CALL ctl_nam ( ios , 'namcfg in configuration namelist' )
	385	!
	386	IF( ln_read_cfg ) THEN ! Read sizes in domain configuration file
	387	CALL domain_cfg ( cn_cfg, nn_cfg, jpiglo, jpjglo, jpkglo, jperio )
	388	ELSE ! user-defined namelist
	389	CALL usr_def_nam( cn_cfg, nn_cfg, jpiglo, jpjglo, jpkglo, jperio )
	390	ENDIF
	391	!
	392	IF(lwm) WRITE( numond, namcfg )
	393	!
	394	! !-----------------------------------------!
	395	! ! mpp parameters and domain decomposition !
	396	! !-----------------------------------------!
	397	CALL mpp_init
[2715]	398
[11719]	399	CALL halo_mng_init()
[7646]	400	! Now we know the dimensions of the grid and numout has been set: we can allocate arrays
[2715]	401	CALL nemo_alloc()
	402
[2496]	403	! !-------------------------------!
	404	! ! NEMO general initialization !
	405	! !-------------------------------!
[473]	406
[7646]	407	CALL nemo_ctl ! Control prints
[2382]	408	!
[9213]	409	! ! General initialization
	410	IF( ln_timing ) CALL timing_init ! timing
	411	IF( ln_timing ) CALL timing_start( 'nemo_init')
[3294]	412	!
[9367]	413	CALL phy_cst ! Physical constants
	414	CALL eos_init ! Equation of state
	415	IF( lk_c1d ) CALL c1d_init ! 1D column configuration
	416	CALL wad_init ! Wetting and drying options
	417	CALL dom_init("OPA") ! Domain
	418	IF( ln_crs ) CALL crs_init ! coarsened grid: domain initialization
	419	IF( ln_ctl ) CALL prt_ctl_init ! Print control
[6140]	420
[9213]	421	CALL diurnal_sst_bulk_init ! diurnal sst
	422	IF( ln_diurnal ) CALL diurnal_sst_coolskin_init ! cool skin
	423	!
	424	IF( ln_diurnal_only ) THEN ! diurnal only: a subset of the initialisation routines
	425	CALL istate_init ! ocean initial state (Dynamics and tracers)
	426	CALL sbc_init ! Forcings : surface module
	427	CALL tra_qsr_init ! penetrative solar radiation qsr
	428	IF( ln_diaobs ) THEN ! Observation & model comparison
	429	CALL dia_obs_init ! Initialize observational data
	430	CALL dia_obs( nit000 - 1 ) ! Observation operator for restart
[6140]	431	ENDIF
[9213]	432	IF( lk_asminc ) CALL asm_inc_init ! Assimilation increments
	433	!
	434	RETURN ! end of initialization
[6140]	435	ENDIF
	436
[9213]	437	CALL istate_init ! ocean initial state (Dynamics and tracers)
[3651]	438
[5836]	439	! ! external forcing
[9213]	440	CALL tide_init ! tidal harmonics
	441	CALL sbc_init ! surface boundary conditions (including sea-ice)
	442	CALL bdy_init ! Open boundaries initialisation
[9019]	443
[5836]	444	! ! Ocean physics
[9019]	445	CALL zdf_phy_init ! Vertical physics
	446
[2082]	447	! ! Lateral physics
[9019]	448	CALL ldf_tra_init ! Lateral ocean tracer physics
	449	CALL ldf_eiv_init ! eddy induced velocity param.
	450	CALL ldf_dyn_init ! Lateral ocean momentum physics
[2082]	451
[9019]	452	! ! Active tracers
	453	IF( ln_traqsr ) CALL tra_qsr_init ! penetrative solar radiation qsr
	454	CALL tra_bbc_init ! bottom heat flux
[10350]	455	CALL tra_bbl_init ! advective (and/or diffusive) bottom boundary layer scheme
[9019]	456	CALL tra_dmp_init ! internal tracer damping
	457	CALL tra_adv_init ! horizontal & vertical advection
	458	CALL tra_ldf_init ! lateral mixing
[2027]	459
[9019]	460	! ! Dynamics
	461	IF( lk_c1d ) CALL dyn_dmp_init ! internal momentum damping
	462	CALL dyn_adv_init ! advection (vector or flux form)
	463	CALL dyn_vor_init ! vorticity term including Coriolis
	464	CALL dyn_ldf_init ! lateral mixing
	465	CALL dyn_hpg_init ! horizontal gradient of Hydrostatic pressure
	466	CALL dyn_spg_init ! surface pressure gradient
[3764]	467
[5836]	468	#if defined key_top
	469	! ! Passive tracers
[9019]	470	CALL trc_init
[5836]	471	#endif
[9019]	472	IF( l_ldfslp ) CALL ldf_slp_init ! slope of lateral mixing
[5836]	473
	474	! ! Icebergs
[9019]	475	CALL icb_init( rdt, nit000) ! initialise icebergs instance
[5836]	476
	477	! ! Misc. options
[9019]	478	CALL sto_par_init ! Stochastic parametrization
	479	IF( ln_sto_eos ) CALL sto_pts_init ! RRandom T/S fluctuations
[4147]	480
[5836]	481	! ! Diagnostics
[11692]	482	CALL flo_init ! drifting Floats
[9019]	483	IF( ln_diacfl ) CALL dia_cfl_init ! Initialise CFL diagnostics
	484	CALL dia_ptr_init ! Poleward TRansports initialization
[11692]	485	CALL dia_dct_init ! Sections tranports
[9019]	486	CALL dia_hsb_init ! heat content, salt content and volume budgets
	487	CALL trd_init ! Mixed-layer/Vorticity/Integral constraints trends
	488	CALL dia_obs_init ! Initialize observational data
[9213]	489	CALL dia_tmb_init ! TMB outputs
	490	CALL dia_25h_init ! 25h mean outputs
[11692]	491	CALL dia_harm_init ! tidal harmonics outputs
	492	IF( ln_diaobs ) CALL dia_obs( nit000-1 ) ! Observation operator for restart
[6140]	493
[9019]	494	! ! Assimilation increments
	495	IF( lk_asminc ) CALL asm_inc_init ! Initialize assimilation increments
[1593]	496	!
[9213]	497	IF(lwp) WRITE(numout,cform_aaa) ! Flag AAAAAAA
	498	!
	499	IF( ln_timing ) CALL timing_stop( 'nemo_init')
	500	!
[2496]	501	END SUBROUTINE nemo_init
[467]	502
	503
[2496]	504	SUBROUTINE nemo_ctl
[467]	505	!!----------------------------------------------------------------------
[2496]	506	!! * ROUTINE nemo_ctl *
[467]	507	!!
[3764]	508	!! ** Purpose : control print setting
[467]	509	!!
[11692]	510	!! ** Method : - print namctl and namcfg information and check some consistencies
[467]	511	!!----------------------------------------------------------------------
[2442]	512	!
[2496]	513	IF(lwp) THEN ! control print
[531]	514	WRITE(numout,*)
[7646]	515	WRITE(numout,*) 'nemo_ctl: Control prints'
[9213]	516	WRITE(numout,*) '~~~~~~~~'
[1593]	517	WRITE(numout,*) ' Namelist namctl'
[1601]	518	WRITE(numout,*) ' run control (for debugging) ln_ctl = ', ln_ctl
[10570]	519	WRITE(numout,*) ' finer control over o/p sn_cfctl%l_config = ', sn_cfctl%l_config
	520	WRITE(numout,*) ' sn_cfctl%l_runstat = ', sn_cfctl%l_runstat
	521	WRITE(numout,*) ' sn_cfctl%l_trcstat = ', sn_cfctl%l_trcstat
	522	WRITE(numout,*) ' sn_cfctl%l_oceout = ', sn_cfctl%l_oceout
	523	WRITE(numout,*) ' sn_cfctl%l_layout = ', sn_cfctl%l_layout
	524	WRITE(numout,*) ' sn_cfctl%l_mppout = ', sn_cfctl%l_mppout
	525	WRITE(numout,*) ' sn_cfctl%l_mpptop = ', sn_cfctl%l_mpptop
	526	WRITE(numout,*) ' sn_cfctl%procmin = ', sn_cfctl%procmin
	527	WRITE(numout,*) ' sn_cfctl%procmax = ', sn_cfctl%procmax
	528	WRITE(numout,*) ' sn_cfctl%procincr = ', sn_cfctl%procincr
	529	WRITE(numout,*) ' sn_cfctl%ptimincr = ', sn_cfctl%ptimincr
[1601]	530	WRITE(numout,*) ' level of print nn_print = ', nn_print
	531	WRITE(numout,*) ' Start i indice for SUM control nn_ictls = ', nn_ictls
	532	WRITE(numout,*) ' End i indice for SUM control nn_ictle = ', nn_ictle
	533	WRITE(numout,*) ' Start j indice for SUM control nn_jctls = ', nn_jctls
	534	WRITE(numout,*) ' End j indice for SUM control nn_jctle = ', nn_jctle
	535	WRITE(numout,*) ' number of proc. following i nn_isplt = ', nn_isplt
	536	WRITE(numout,*) ' number of proc. following j nn_jsplt = ', nn_jsplt
[9019]	537	WRITE(numout,*) ' timing by routine ln_timing = ', ln_timing
	538	WRITE(numout,*) ' CFL diagnostics ln_diacfl = ', ln_diacfl
[531]	539	ENDIF
[2442]	540	!
[1601]	541	nprint = nn_print ! convert DOCTOR namelist names into OLD names
	542	nictls = nn_ictls
	543	nictle = nn_ictle
	544	njctls = nn_jctls
	545	njctle = nn_jctle
	546	isplt = nn_isplt
[9213]	547	jsplt = nn_jsplt
[4147]	548
	549	IF(lwp) THEN ! control print
	550	WRITE(numout,*)
	551	WRITE(numout,*) ' Namelist namcfg'
[7646]	552	WRITE(numout,*) ' read domain configuration file ln_read_cfg = ', ln_read_cfg
	553	WRITE(numout,*) ' filename to be read cn_domcfg = ', TRIM(cn_domcfg)
[9213]	554	WRITE(numout,*) ' keep closed seas in the domain (if exist) ln_closea = ', ln_closea
	555	WRITE(numout,*) ' create a configuration definition file ln_write_cfg = ', ln_write_cfg
[7646]	556	WRITE(numout,*) ' filename to be written cn_domcfg_out = ', TRIM(cn_domcfg_out)
	557	WRITE(numout,*) ' use file attribute if exists as i/p j-start ln_use_jattr = ', ln_use_jattr
[4147]	558	ENDIF
[9213]	559	IF( .NOT.ln_read_cfg ) ln_closea = .false. ! dealing possible only with a domcfg file
	560	!
[2442]	561	! ! Parameter control
[1593]	562	!
	563	IF( ln_ctl ) THEN ! sub-domain area indices for the control prints
[3294]	564	IF( lk_mpp .AND. jpnij > 1 ) THEN
[2496]	565	isplt = jpni ; jsplt = jpnj ; ijsplt = jpni*jpnj ! the domain is forced to the real split domain
[531]	566	ELSE
	567	IF( isplt == 1 .AND. jsplt == 1 ) THEN
[1593]	568	CALL ctl_warn( ' - isplt & jsplt are equal to 1', &
	569	& ' - the print control will be done over the whole domain' )
[531]	570	ENDIF
[1593]	571	ijsplt = isplt * jsplt ! total number of processors ijsplt
[531]	572	ENDIF
	573	IF(lwp) WRITE(numout,*)' - The total number of processors over which the'
	574	IF(lwp) WRITE(numout,*)' print control will be done is ijsplt : ', ijsplt
[1593]	575	!
	576	! ! indices used for the SUM control
	577	IF( nictls+nictle+njctls+njctle == 0 ) THEN ! print control done over the default area
[3764]	578	lsp_area = .FALSE.
[1593]	579	ELSE ! print control done over a specific area
[531]	580	lsp_area = .TRUE.
	581	IF( nictls < 1 .OR. nictls > jpiglo ) THEN
	582	CALL ctl_warn( ' - nictls must be 1<=nictls>=jpiglo, it is forced to 1' )
	583	nictls = 1
	584	ENDIF
	585	IF( nictle < 1 .OR. nictle > jpiglo ) THEN
	586	CALL ctl_warn( ' - nictle must be 1<=nictle>=jpiglo, it is forced to jpiglo' )
	587	nictle = jpiglo
	588	ENDIF
	589	IF( njctls < 1 .OR. njctls > jpjglo ) THEN
	590	CALL ctl_warn( ' - njctls must be 1<=njctls>=jpjglo, it is forced to 1' )
	591	njctls = 1
	592	ENDIF
	593	IF( njctle < 1 .OR. njctle > jpjglo ) THEN
	594	CALL ctl_warn( ' - njctle must be 1<=njctle>=jpjglo, it is forced to jpjglo' )
	595	njctle = jpjglo
	596	ENDIF
[1593]	597	ENDIF
	598	ENDIF
[2442]	599	!
[9213]	600	IF( 1._wp /= SIGN(1._wp,-0._wp) ) CALL ctl_stop( 'nemo_ctl: The intrinsec SIGN function follows f2003 standard.', &
[10425]	601	& 'Compile with key_nosignedzero enabled:', &
	602	& '--> add -Dkey_nosignedzero to the definition of %CPP in your arch file' )
[3764]	603	!
[9023]	604	#if defined key_agrif
[9124]	605	IF( ln_timing ) CALL ctl_stop( 'AGRIF not implemented with ln_timing = true')
[9023]	606	#endif
	607	!
[2496]	608	END SUBROUTINE nemo_ctl
[467]	609
	610
[2496]	611	SUBROUTINE nemo_closefile
[467]	612	!!----------------------------------------------------------------------
[2496]	613	!! * ROUTINE nemo_closefile *
[467]	614	!!
	615	!! ** Purpose : Close the files
	616	!!----------------------------------------------------------------------
[1593]	617	!
	618	IF( lk_mpp ) CALL mppsync
	619	!
[1685]	620	CALL iom_close ! close all input/output files managed by iom_*
[1593]	621	!
[4147]	622	IF( numstp /= -1 ) CLOSE( numstp ) ! time-step file
[9019]	623	IF( numrun /= -1 ) CLOSE( numrun ) ! run statistics file
[4147]	624	IF( numnam_ref /= -1 ) CLOSE( numnam_ref ) ! oce reference namelist
	625	IF( numnam_cfg /= -1 ) CLOSE( numnam_cfg ) ! oce configuration namelist
[4624]	626	IF( lwm.AND.numond /= -1 ) CLOSE( numond ) ! oce output namelist
[4147]	627	IF( numnam_ice_ref /= -1 ) CLOSE( numnam_ice_ref ) ! ice reference namelist
	628	IF( numnam_ice_cfg /= -1 ) CLOSE( numnam_ice_cfg ) ! ice configuration namelist
[4624]	629	IF( lwm.AND.numoni /= -1 ) CLOSE( numoni ) ! ice output namelist
[4147]	630	IF( numevo_ice /= -1 ) CLOSE( numevo_ice ) ! ice variables (temp. evolution)
	631	IF( numout /= 6 ) CLOSE( numout ) ! standard model output file
	632	IF( numdct_vol /= -1 ) CLOSE( numdct_vol ) ! volume transports
	633	IF( numdct_heat /= -1 ) CLOSE( numdct_heat ) ! heat transports
	634	IF( numdct_salt /= -1 ) CLOSE( numdct_salt ) ! salt transports
[1593]	635	!
[2442]	636	numout = 6 ! redefine numout in case it is used after this point...
	637	!
[2496]	638	END SUBROUTINE nemo_closefile
[467]	639
[2715]	640
	641	SUBROUTINE nemo_alloc
	642	!!----------------------------------------------------------------------
	643	!! * ROUTINE nemo_alloc *
	644	!!
	645	!! ** Purpose : Allocate all the dynamic arrays of the OPA modules
	646	!!
	647	!! ** Method :
	648	!!----------------------------------------------------------------------
[9213]	649	USE diawri , ONLY : dia_wri_alloc
	650	USE dom_oce , ONLY : dom_oce_alloc
	651	USE trc_oce , ONLY : trc_oce_alloc
	652	USE bdy_oce , ONLY : bdy_oce_alloc
[2715]	653	!
	654	INTEGER :: ierr
	655	!!----------------------------------------------------------------------
	656	!
[9213]	657	ierr = oce_alloc () ! ocean
	658	ierr = ierr + dia_wri_alloc()
	659	ierr = ierr + dom_oce_alloc() ! ocean domain
	660	ierr = ierr + zdf_oce_alloc() ! ocean vertical physics
	661	ierr = ierr + trc_oce_alloc() ! shared TRC / TRA arrays
	662	ierr = ierr + bdy_oce_alloc() ! bdy masks (incl. initialization)
[2715]	663	!
[10425]	664	CALL mpp_sum( 'nemogcm', ierr )
[9213]	665	IF( ierr /= 0 ) CALL ctl_stop( 'STOP', 'nemo_alloc: unable to allocate standard ocean arrays' )
[2715]	666	!
	667	END SUBROUTINE nemo_alloc
	668
[11692]	669
[10570]	670	SUBROUTINE nemo_set_cfctl(sn_cfctl, setto, for_all )
	671	!!----------------------------------------------------------------------
	672	!! * ROUTINE nemo_set_cfctl *
	673	!!
	674	!! ** Purpose : Set elements of the output control structure to setto.
	675	!! for_all should be .false. unless all areas are to be
	676	!! treated identically.
	677	!!
	678	!! ** Method : Note this routine can be used to switch on/off some
	679	!! types of output for selected areas but any output types
	680	!! that involve global communications (e.g. mpp_max, glob_sum)
	681	!! should be protected from selective switching by the
	682	!! for_all argument
	683	!!----------------------------------------------------------------------
	684	LOGICAL :: setto, for_all
[10588]	685	TYPE(sn_ctl) :: sn_cfctl
[10570]	686	!!----------------------------------------------------------------------
	687	IF( for_all ) THEN
	688	sn_cfctl%l_runstat = setto
	689	sn_cfctl%l_trcstat = setto
	690	ENDIF
	691	sn_cfctl%l_oceout = setto
	692	sn_cfctl%l_layout = setto
	693	sn_cfctl%l_mppout = setto
	694	sn_cfctl%l_mpptop = setto
	695	END SUBROUTINE nemo_set_cfctl
	696
[3]	697	!!======================================================================
[2496]	698	END MODULE nemogcm
[4354]	699

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