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source: palm/trunk/SOURCE/init_3d_model.f90 @ 1823

Last change on this file since 1823 was 1823, checked in by hoffmann, 8 years ago
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[1682]	1	!> @file init_3d_model.f90
[1036]	2	!--------------------------------------------------------------------------------!
	3	! This file is part of PALM.
	4	!
	5	! PALM is free software: you can redistribute it and/or modify it under the terms
	6	! of the GNU General Public License as published by the Free Software Foundation,
	7	! either version 3 of the License, or (at your option) any later version.
	8	!
	9	! PALM is distributed in the hope that it will be useful, but WITHOUT ANY
	10	! WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
	11	! A PARTICULAR PURPOSE. See the GNU General Public License for more details.
	12	!
	13	! You should have received a copy of the GNU General Public License along with
	14	! PALM. If not, see <http://www.gnu.org/licenses/>.
	15	!
[1818]	16	! Copyright 1997-2016 Leibniz Universitaet Hannover
[1036]	17	!--------------------------------------------------------------------------------!
	18	!
[254]	19	! Current revisions:
[732]	20	! ------------------
[1823]	21	!
[1818]	22	!
[1485]	23	! Former revisions:
	24	! -----------------
	25	! $Id: init_3d_model.f90 1823 2016-04-07 08:57:52Z hoffmann $
	26	!
[1823]	27	! 1822 2016-04-07 07:49:42Z hoffmann
	28	! icloud_scheme replaced by microphysics_*
	29	!
[1818]	30	! 1817 2016-04-06 15:44:20Z maronga
	31	! Renamed lsm calls.
	32	!
[1816]	33	! 1815 2016-04-06 13:49:59Z raasch
	34	! zero-settings for velocities inside topography re-activated (was deactivated
	35	! in r1762)
	36	!
[1789]	37	! 1788 2016-03-10 11:01:04Z maronga
	38	! Added z0q.
	39	! Syntax layout improved.
	40	!
[1784]	41	! 1783 2016-03-06 18:36:17Z raasch
	42	! netcdf module name changed + related changes
	43	!
[1765]	44	! 1764 2016-02-28 12:45:19Z raasch
	45	! bugfix: increase size of volume_flow_area_l and volume_flow_initial_l by 1
	46	!
[1763]	47	! 1762 2016-02-25 12:31:13Z hellstea
	48	! Introduction of nested domain feature
	49	!
[1739]	50	! 1738 2015-12-18 13:56:05Z raasch
	51	! calculate mean surface level height for each statistic region
	52	!
[1735]	53	! 1734 2015-12-02 12:17:12Z raasch
	54	! no initial disturbances in case that the disturbance energy limit has been
	55	! set zero
	56	!
[1708]	57	! 1707 2015-11-02 15:24:52Z maronga
	58	! Bugfix: transfer of Richardson number from 1D model to Obukhov length caused
	59	! devision by zero in neutral stratification
	60	!
[1692]	61	! 1691 2015-10-26 16:17:44Z maronga
	62	! Call to init_surface_layer added. rif is replaced by ol and zeta.
	63	!
[1683]	64	! 1682 2015-10-07 23:56:08Z knoop
	65	! Code annotations made doxygen readable
	66	!
[1616]	67	! 1615 2015-07-08 18:49:19Z suehring
	68	! Enable turbulent inflow for passive_scalar and humidity
	69	!
[1586]	70	! 1585 2015-04-30 07:05:52Z maronga
	71	! Initialization of radiation code is now done after LSM initializtion
	72	!
[1576]	73	! 1575 2015-03-27 09:56:27Z raasch
	74	! adjustments for psolver-queries
	75	!
[1552]	76	! 1551 2015-03-03 14:18:16Z maronga
[1817]	77	! Allocation of land surface arrays is now done in the subroutine lsm_init_arrays,
[1552]	78	! which is part of land_surface_model.
	79	!
[1508]	80	! 1507 2014-12-10 12:14:18Z suehring
	81	! Bugfix: set horizontal velocity components to zero inside topography
	82	!
[1497]	83	! 1496 2014-12-02 17:25:50Z maronga
	84	! Added initialization of the land surface and radiation schemes
	85	!
[1485]	86	! 1484 2014-10-21 10:53:05Z kanani
[1484]	87	! Changes due to new module structure of the plant canopy model:
[1508]	88	! canopy-related initialization (e.g. lad and canopy_heat_flux) moved to new
	89	! subroutine init_plant_canopy within the module plant_canopy_model_mod,
	90	! call of subroutine init_plant_canopy added.
[1341]	91	!
[1432]	92	! 1431 2014-07-15 14:47:17Z suehring
	93	! var_d added, in order to normalize spectra.
	94	!
[1430]	95	! 1429 2014-07-15 12:53:45Z knoop
	96	! Ensemble run capability added to parallel random number generator
	97	!
[1412]	98	! 1411 2014-05-16 18:01:51Z suehring
	99	! Initial horizontal velocity profiles were not set to zero at the first vertical
	100	! grid level in case of non-cyclic lateral boundary conditions.
	101	!
[1407]	102	! 1406 2014-05-16 13:47:01Z raasch
	103	! bugfix: setting of initial velocities at k=1 to zero not in case of a
	104	! no-slip boundary condition for uv
	105	!
[1403]	106	! 1402 2014-05-09 14:25:13Z raasch
	107	! location messages modified
	108	!
[1401]	109	! 1400 2014-05-09 14:03:54Z knoop
	110	! Parallel random number generator added
	111	!
[1385]	112	! 1384 2014-05-02 14:31:06Z raasch
	113	! location messages added
	114	!
[1362]	115	! 1361 2014-04-16 15:17:48Z hoffmann
	116	! tend_* removed
	117	! Bugfix: w_subs is not allocated anymore if it is already allocated
	118	!
[1360]	119	! 1359 2014-04-11 17:15:14Z hoffmann
	120	! module lpm_init_mod added to use statements, because lpm_init has become a
	121	! module
	122	!
[1354]	123	! 1353 2014-04-08 15:21:23Z heinze
	124	! REAL constants provided with KIND-attribute
	125	!
[1341]	126	! 1340 2014-03-25 19:45:13Z kanani
	127	! REAL constants defined as wp-kind
	128	!
[1323]	129	! 1322 2014-03-20 16:38:49Z raasch
	130	! REAL constants defined as wp-kind
	131	! module interfaces removed
	132	!
[1321]	133	! 1320 2014-03-20 08:40:49Z raasch
	134	! ONLY-attribute added to USE-statements,
	135	! kind-parameters added to all INTEGER and REAL declaration statements,
	136	! kinds are defined in new module kinds,
	137	! revision history before 2012 removed,
	138	! comment fields (!:) to be used for variable explanations added to
	139	! all variable declaration statements
	140	!
[1317]	141	! 1316 2014-03-17 07:44:59Z heinze
	142	! Bugfix: allocation of w_subs
	143	!
[1300]	144	! 1299 2014-03-06 13:15:21Z heinze
	145	! Allocate w_subs due to extension of large scale subsidence in combination
	146	! with large scale forcing data (LSF_DATA)
	147	!
[1242]	148	! 1241 2013-10-30 11:36:58Z heinze
	149	! Overwrite initial profiles in case of nudging
	150	! Inititialize shf and qsws in case of large_scale_forcing
	151	!
[1222]	152	! 1221 2013-09-10 08:59:13Z raasch
	153	! +rflags_s_inner in copyin statement, use copyin for most arrays instead of
	154	! copy
	155	!
[1213]	156	! 1212 2013-08-15 08:46:27Z raasch
	157	! array tri is allocated and included in data copy statement
	158	!
[1196]	159	! 1195 2013-07-01 12:27:57Z heinze
	160	! Bugfix: move allocation of ref_state to parin.f90 and read_var_list.f90
	161	!
[1182]	162	! 1179 2013-06-14 05:57:58Z raasch
	163	! allocate and set ref_state to be used in buoyancy terms
	164	!
[1172]	165	! 1171 2013-05-30 11:27:45Z raasch
	166	! diss array is allocated with full size if accelerator boards are used
	167	!
[1160]	168	! 1159 2013-05-21 11:58:22Z fricke
	169	! -bc_lr_dirneu, bc_lr_neudir, bc_ns_dirneu, bc_ns_neudir
	170	!
[1154]	171	! 1153 2013-05-10 14:33:08Z raasch
	172	! diss array is allocated with dummy elements even if it is not needed
[1171]	173	! (required by PGI 13.4 / CUDA 5.0)
[1154]	174	!
[1116]	175	! 1115 2013-03-26 18:16:16Z hoffmann
	176	! unused variables removed
	177	!
[1114]	178	! 1113 2013-03-10 02:48:14Z raasch
	179	! openACC directive modified
	180	!
[1112]	181	! 1111 2013-03-08 23:54:10Z raasch
	182	! openACC directives added for pres
	183	! array diss allocated only if required
	184	!
[1093]	185	! 1092 2013-02-02 11:24:22Z raasch
	186	! unused variables removed
	187	!
[1066]	188	! 1065 2012-11-22 17:42:36Z hoffmann
	189	! allocation of diss (dissipation rate) in case of turbulence = .TRUE. added
	190	!
[1054]	191	! 1053 2012-11-13 17:11:03Z hoffmann
[1053]	192	! allocation and initialisation of necessary data arrays for the two-moment
	193	! cloud physics scheme the two new prognostic equations (nr, qr):
	194	! +dr, lambda_r, mu_r, sed_, xr, s, sws, swst, , _p, t_m, _1, _2, _3,
	195	! +tend_*, prr
[979]	196	!
[1037]	197	! 1036 2012-10-22 13:43:42Z raasch
	198	! code put under GPL (PALM 3.9)
	199	!
[1033]	200	! 1032 2012-10-21 13:03:21Z letzel
	201	! save memory by not allocating pt_2 in case of neutral = .T.
	202	!
[1026]	203	! 1025 2012-10-07 16:04:41Z letzel
	204	! bugfix: swap indices of mask for ghost boundaries
	205	!
[1017]	206	! 1015 2012-09-27 09:23:24Z raasch
	207	! mask is set to zero for ghost boundaries
	208	!
[1011]	209	! 1010 2012-09-20 07:59:54Z raasch
	210	! cpp switch __nopointer added for pointer free version
	211	!
[1004]	212	! 1003 2012-09-14 14:35:53Z raasch
	213	! nxra,nyna, nzta replaced ny nxr, nyn, nzt
	214	!
[1002]	215	! 1001 2012-09-13 14:08:46Z raasch
	216	! all actions concerning leapfrog scheme removed
	217	!
[997]	218	! 996 2012-09-07 10:41:47Z raasch
	219	! little reformatting
	220	!
[979]	221	! 978 2012-08-09 08:28:32Z fricke
[978]	222	! outflow damping layer removed
	223	! roughness length for scalar quantites z0h added
	224	! damping zone for the potential temperatur in case of non-cyclic lateral
	225	! boundaries added
	226	! initialization of ptdf_x, ptdf_y
	227	! initialization of c_u_m, c_u_m_l, c_v_m, c_v_m_l, c_w_m, c_w_m_l
[708]	228	!
[850]	229	! 849 2012-03-15 10:35:09Z raasch
	230	! init_particles renamed lpm_init
	231	!
[826]	232	! 825 2012-02-19 03:03:44Z raasch
	233	! wang_collision_kernel renamed wang_kernel
	234	!
[1]	235	! Revision 1.1 1998/03/09 16:22:22 raasch
	236	! Initial revision
	237	!
	238	!
	239	! Description:
	240	! ------------
[1682]	241	!> Allocation of arrays and initialization of the 3D model via
	242	!> a) pre-run the 1D model
	243	!> or
	244	!> b) pre-set constant linear profiles
	245	!> or
	246	!> c) read values of a previous run
[1]	247	!------------------------------------------------------------------------------!
[1682]	248	SUBROUTINE init_3d_model
	249
[1]	250
[667]	251	USE advec_ws
[1320]	252
[1]	253	USE arrays_3d
[1320]	254
	255	USE cloud_parameters, &
	256	ONLY: nc_const, precipitation_amount, precipitation_rate, prr
	257
	258	USE constants, &
	259	ONLY: pi
	260
[1]	261	USE control_parameters
[1320]	262
	263	USE grid_variables, &
	264	ONLY: dx, dy
	265
[1]	266	USE indices
[1359]	267
[1429]	268	USE lpm_init_mod, &
[1359]	269	ONLY: lpm_init
[1320]	270
	271	USE kinds
[1496]	272
	273	USE land_surface_model_mod, &
[1817]	274	ONLY: lsm_init, lsm_init_arrays, land_surface
[1496]	275
[1241]	276	USE ls_forcing_mod
[1320]	277
	278	USE model_1d, &
	279	ONLY: e1d, kh1d, km1d, l1d, rif1d, u1d, us1d, usws1d, v1d, vsws1d
	280
[1783]	281	USE netcdf_interface, &
	282	ONLY: dots_max, dots_num
[1320]	283
	284	USE particle_attributes, &
	285	ONLY: particle_advection, use_sgs_for_particles, wang_kernel
	286
[1]	287	USE pegrid
[1320]	288
[1484]	289	USE plant_canopy_model_mod, &
	290	ONLY: init_plant_canopy, plant_canopy
[1496]	291
	292	USE radiation_model_mod, &
	293	ONLY: init_radiation, radiation
[1484]	294
[1320]	295	USE random_function_mod
	296
[1400]	297	USE random_generator_parallel, &
	298	ONLY: random_number_parallel, random_seed_parallel, random_dummy, &
	299	id_random_array, seq_random_array
	300
[1320]	301	USE statistics, &
[1738]	302	ONLY: hom, hom_sum, mean_surface_level_height, pr_palm, rmask, &
	303	spectrum_x, spectrum_y, statistic_regions, sums, sums_divnew_l, &
	304	sums_divold_l, sums_l, sums_l_l, sums_up_fraction_l, &
	305	sums_wsts_bc_l, ts_value, var_d, weight_pres, weight_substep
[1691]	306
	307	USE surface_layer_fluxes_mod, &
	308	ONLY: init_surface_layer_fluxes
	309
[1320]	310	USE transpose_indices
[1]	311
	312	IMPLICIT NONE
	313
[1682]	314	INTEGER(iwp) :: i !<
	315	INTEGER(iwp) :: ind_array(1) !<
	316	INTEGER(iwp) :: j !<
	317	INTEGER(iwp) :: k !<
	318	INTEGER(iwp) :: sr !<
[1]	319
[1682]	320	INTEGER(iwp), DIMENSION(:), ALLOCATABLE :: ngp_2dh_l !<
[1]	321
[1682]	322	INTEGER(iwp), DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_outer_l !<
	323	INTEGER(iwp), DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_s_inner_l !<
[1]	324
[1764]	325	REAL(wp), DIMENSION(1:3) :: volume_flow_area_l !<
	326	REAL(wp), DIMENSION(1:3) :: volume_flow_initial_l !<
[1]	327
[1738]	328	REAL(wp), DIMENSION(:), ALLOCATABLE :: mean_surface_level_height_l !<
[1682]	329	REAL(wp), DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_l !<
	330	REAL(wp), DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_tmp !<
[1]	331
[485]	332
[1402]	333	CALL location_message( 'allocating arrays', .FALSE. )
[1]	334	!
	335	!-- Allocate arrays
[1788]	336	ALLOCATE( mean_surface_level_height(0:statistic_regions), &
	337	mean_surface_level_height_l(0:statistic_regions), &
	338	ngp_2dh(0:statistic_regions), ngp_2dh_l(0:statistic_regions), &
	339	ngp_3d(0:statistic_regions), &
	340	ngp_3d_inner(0:statistic_regions), &
	341	ngp_3d_inner_l(0:statistic_regions), &
	342	ngp_3d_inner_tmp(0:statistic_regions), &
	343	sums_divnew_l(0:statistic_regions), &
[1]	344	sums_divold_l(0:statistic_regions) )
[1195]	345	ALLOCATE( dp_smooth_factor(nzb:nzt), rdf(nzb+1:nzt), rdf_sc(nzb+1:nzt) )
[1788]	346	ALLOCATE( ngp_2dh_outer(nzb:nzt+1,0:statistic_regions), &
	347	ngp_2dh_outer_l(nzb:nzt+1,0:statistic_regions), &
	348	ngp_2dh_s_inner(nzb:nzt+1,0:statistic_regions), &
	349	ngp_2dh_s_inner_l(nzb:nzt+1,0:statistic_regions), &
	350	rmask(nysg:nyng,nxlg:nxrg,0:statistic_regions), &
	351	sums(nzb:nzt+1,pr_palm+max_pr_user), &
	352	sums_l(nzb:nzt+1,pr_palm+max_pr_user,0:threads_per_task-1), &
	353	sums_l_l(nzb:nzt+1,0:statistic_regions,0:threads_per_task-1), &
	354	sums_up_fraction_l(10,3,0:statistic_regions), &
	355	sums_wsts_bc_l(nzb:nzt+1,0:statistic_regions), &
[394]	356	ts_value(dots_max,0:statistic_regions) )
[978]	357	ALLOCATE( ptdf_x(nxlg:nxrg), ptdf_y(nysg:nyng) )
[1]	358
[1788]	359	ALLOCATE( ol(nysg:nyng,nxlg:nxrg), shf(nysg:nyng,nxlg:nxrg), &
	360	ts(nysg:nyng,nxlg:nxrg), tswst(nysg:nyng,nxlg:nxrg), &
	361	us(nysg:nyng,nxlg:nxrg), usws(nysg:nyng,nxlg:nxrg), &
	362	uswst(nysg:nyng,nxlg:nxrg), vsws(nysg:nyng,nxlg:nxrg), &
	363	vswst(nysg:nyng,nxlg:nxrg), z0(nysg:nyng,nxlg:nxrg), &
	364	z0h(nysg:nyng,nxlg:nxrg), z0q(nysg:nyng,nxlg:nxrg) )
[1]	365
[1788]	366	ALLOCATE( d(nzb+1:nzt,nys:nyn,nxl:nxr), &
	367	kh(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	368	km(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	369	p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	370	tend(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	371
	372	#if defined( __nopointer )
[1788]	373	ALLOCATE( e(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	374	e_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	375	pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	376	pt_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	377	u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	378	u_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	379	v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	380	v_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	381	w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	382	w_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	383	te_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	384	tpt_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	385	tu_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	386	tv_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	387	tw_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	388	#else
[1788]	389	ALLOCATE( e_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	390	e_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	391	e_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	392	pt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	393	pt_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	394	u_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	395	u_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	396	u_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	397	v_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	398	v_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	399	v_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	400	w_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	401	w_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	402	w_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1788]	403	IF ( .NOT. neutral ) THEN
[1032]	404	ALLOCATE( pt_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	405	ENDIF
[1010]	406	#endif
	407
[673]	408	!
[707]	409	!-- Following array is required for perturbation pressure within the iterative
	410	!-- pressure solvers. For the multistep schemes (Runge-Kutta), array p holds
	411	!-- the weighted average of the substeps and cannot be used in the Poisson
	412	!-- solver.
	413	IF ( psolver == 'sor' ) THEN
	414	ALLOCATE( p_loc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1575]	415	ELSEIF ( psolver(1:9) == 'multigrid' ) THEN
[707]	416	!
	417	!-- For performance reasons, multigrid is using one ghost layer only
	418	ALLOCATE( p_loc(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
[673]	419	ENDIF
[1]	420
[1111]	421	!
	422	!-- Array for storing constant coeffficients of the tridiagonal solver
	423	IF ( psolver == 'poisfft' ) THEN
[1212]	424	ALLOCATE( tri(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1,2) )
[1111]	425	ALLOCATE( tric(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1) )
	426	ENDIF
	427
[1788]	428	IF ( humidity .OR. passive_scalar ) THEN
[1]	429	!
[75]	430	!-- 2D-humidity/scalar arrays
[1788]	431	ALLOCATE ( qs(nysg:nyng,nxlg:nxrg), &
	432	qsws(nysg:nyng,nxlg:nxrg), &
[1001]	433	qswst(nysg:nyng,nxlg:nxrg) )
[1]	434
	435	!
[75]	436	!-- 3D-humidity/scalar arrays
[1010]	437	#if defined( __nopointer )
[1788]	438	ALLOCATE( q(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	439	q_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	440	tq_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	441	#else
[1788]	442	ALLOCATE( q_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	443	q_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	444	q_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	445	#endif
[1]	446
	447	!
[75]	448	!-- 3D-arrays needed for humidity only
	449	IF ( humidity ) THEN
[1010]	450	#if defined( __nopointer )
	451	ALLOCATE( vpt(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	452	#else
[667]	453	ALLOCATE( vpt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	454	#endif
[1]	455
[1788]	456	IF ( cloud_physics ) THEN
[1053]	457
[1]	458	!
	459	!-- Liquid water content
[1010]	460	#if defined( __nopointer )
	461	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	462	#else
[667]	463	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	464	#endif
[72]	465	!
	466	!-- Precipitation amount and rate (only needed if output is switched)
[1788]	467	ALLOCATE( precipitation_amount(nysg:nyng,nxlg:nxrg), &
[667]	468	precipitation_rate(nysg:nyng,nxlg:nxrg) )
[1053]	469
	470	!
[1822]	471	!-- 1D-arrays
	472	ALLOCATE ( nc_1d(nzb:nzt+1), pt_1d(nzb:nzt+1), &
	473	q_1d(nzb:nzt+1), qc_1d(nzb:nzt+1) )
[1053]	474	!
[1822]	475	!-- 3D-cloud water content
[1053]	476	#if defined( __nopointer )
[1822]	477	ALLOCATE( qc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	478	#else
[1822]	479	ALLOCATE( qc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	480	#endif
[1822]	481	!
	482	!-- 3d-precipitation rate
	483	ALLOCATE( prr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	484
[1822]	485	IF ( microphysics_seifert ) THEN
[1053]	486	!
[1822]	487	!-- 1D-arrays
	488	ALLOCATE ( nr_1d(nzb:nzt+1), qr_1d(nzb:nzt+1) )
[1361]	489
[1115]	490	!
[1822]	491	!-- 2D-rain water content and rain drop concentration arrays
	492	ALLOCATE ( qrs(nysg:nyng,nxlg:nxrg), &
	493	qrsws(nysg:nyng,nxlg:nxrg), &
	494	qrswst(nysg:nyng,nxlg:nxrg), &
	495	nrs(nysg:nyng,nxlg:nxrg), &
	496	nrsws(nysg:nyng,nxlg:nxrg), &
	497	nrswst(nysg:nyng,nxlg:nxrg) )
[1115]	498	!
[1822]	499	!-- 3D-rain water content, rain drop concentration arrays
[1115]	500	#if defined( __nopointer )
[1822]	501	ALLOCATE( nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	502	nr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	503	qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	504	qr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	505	tnr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	506	tqr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	507	#else
[1822]	508	ALLOCATE( nr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	509	nr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	510	nr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	511	qr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	512	qr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	513	qr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	514	#endif
[1822]	515	ENDIF
[1053]	516
[1]	517	ENDIF
	518
	519	IF ( cloud_droplets ) THEN
	520	!
[1010]	521	!-- Liquid water content, change in liquid water content
	522	#if defined( __nopointer )
[1788]	523	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	524	ql_c(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	525	#else
[1788]	526	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	527	ql_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	528	#endif
	529	!
	530	!-- Real volume of particles (with weighting), volume of particles
[1788]	531	ALLOCATE ( ql_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	532	ql_vp(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	533	ENDIF
	534
	535	ENDIF
	536
	537	ENDIF
	538
[94]	539	IF ( ocean ) THEN
[1788]	540	ALLOCATE( saswsb(nysg:nyng,nxlg:nxrg), &
[1001]	541	saswst(nysg:nyng,nxlg:nxrg) )
[1010]	542	#if defined( __nopointer )
[1788]	543	ALLOCATE( prho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	544	rho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	545	sa(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	546	sa_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	547	tsa_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	548	#else
[1788]	549	ALLOCATE( prho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	550	rho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	551	sa_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	552	sa_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	553	sa_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[388]	554	prho => prho_1
	555	rho => rho_1 ! routines calc_mean_profile and diffusion_e require
	556	! density to be apointer
[1010]	557	#endif
[108]	558	IF ( humidity_remote ) THEN
[667]	559	ALLOCATE( qswst_remote(nysg:nyng,nxlg:nxrg))
[1340]	560	qswst_remote = 0.0_wp
[108]	561	ENDIF
[94]	562	ENDIF
	563
[1]	564	!
	565	!-- 3D-array for storing the dissipation, needed for calculating the sgs
	566	!-- particle velocities
[1788]	567	IF ( use_sgs_for_particles .OR. wang_kernel .OR. turbulence .OR. &
[1171]	568	num_acc_per_node > 0 ) THEN
[1153]	569	ALLOCATE( diss(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	570	ENDIF
	571
[1340]	572	IF ( dt_dosp /= 9999999.9_wp ) THEN
[1788]	573	ALLOCATE( spectrum_x( 1:nx/2, 1:10, 1:10 ), &
[1]	574	spectrum_y( 1:ny/2, 1:10, 1:10 ) )
[1340]	575	spectrum_x = 0.0_wp
	576	spectrum_y = 0.0_wp
[1431]	577
	578	ALLOCATE( var_d(nzb:nzt+1) )
	579	var_d = 0.0_wp
[1]	580	ENDIF
	581
	582	!
[1299]	583	!-- 1D-array for large scale subsidence velocity
[1361]	584	IF ( .NOT. ALLOCATED( w_subs ) ) THEN
	585	ALLOCATE ( w_subs(nzb:nzt+1) )
	586	w_subs = 0.0_wp
	587	ENDIF
[1299]	588
	589	!
[1400]	590	!-- ID-array and state-space-array for the parallel random number generator
	591	IF ( random_generator == 'random-parallel' ) THEN
	592	ALLOCATE ( seq_random_array(5,nysg:nyng,nxlg:nxrg) )
	593	ALLOCATE ( id_random_array(0:ny,0:nx) )
	594	seq_random_array = 0
	595	id_random_array = 0
	596	ENDIF
	597
	598	!
[51]	599	!-- 4D-array for storing the Rif-values at vertical walls
	600	IF ( topography /= 'flat' ) THEN
[667]	601	ALLOCATE( rif_wall(nzb:nzt+1,nysg:nyng,nxlg:nxrg,1:4) )
[1340]	602	rif_wall = 0.0_wp
[51]	603	ENDIF
	604
	605	!
[106]	606	!-- Arrays to store velocity data from t-dt and the phase speeds which
	607	!-- are needed for radiation boundary conditions
[73]	608	IF ( outflow_l ) THEN
[1788]	609	ALLOCATE( u_m_l(nzb:nzt+1,nysg:nyng,1:2), &
	610	v_m_l(nzb:nzt+1,nysg:nyng,0:1), &
[667]	611	w_m_l(nzb:nzt+1,nysg:nyng,0:1) )
[73]	612	ENDIF
	613	IF ( outflow_r ) THEN
[1788]	614	ALLOCATE( u_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	615	v_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
[667]	616	w_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx) )
[73]	617	ENDIF
[106]	618	IF ( outflow_l .OR. outflow_r ) THEN
[1788]	619	ALLOCATE( c_u(nzb:nzt+1,nysg:nyng), c_v(nzb:nzt+1,nysg:nyng), &
[667]	620	c_w(nzb:nzt+1,nysg:nyng) )
[106]	621	ENDIF
[73]	622	IF ( outflow_s ) THEN
[1788]	623	ALLOCATE( u_m_s(nzb:nzt+1,0:1,nxlg:nxrg), &
	624	v_m_s(nzb:nzt+1,1:2,nxlg:nxrg), &
[667]	625	w_m_s(nzb:nzt+1,0:1,nxlg:nxrg) )
[73]	626	ENDIF
	627	IF ( outflow_n ) THEN
[1788]	628	ALLOCATE( u_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	629	v_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
[667]	630	w_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg) )
[73]	631	ENDIF
[106]	632	IF ( outflow_s .OR. outflow_n ) THEN
[1788]	633	ALLOCATE( c_u(nzb:nzt+1,nxlg:nxrg), c_v(nzb:nzt+1,nxlg:nxrg), &
[667]	634	c_w(nzb:nzt+1,nxlg:nxrg) )
[106]	635	ENDIF
[996]	636	IF ( outflow_l .OR. outflow_r .OR. outflow_s .OR. outflow_n ) THEN
[978]	637	ALLOCATE( c_u_m_l(nzb:nzt+1), c_v_m_l(nzb:nzt+1), c_w_m_l(nzb:nzt+1) )
	638	ALLOCATE( c_u_m(nzb:nzt+1), c_v_m(nzb:nzt+1), c_w_m(nzb:nzt+1) )
	639	ENDIF
[73]	640
[978]	641
[1010]	642	#if ! defined( __nopointer )
[73]	643	!
[1]	644	!-- Initial assignment of the pointers
[1001]	645	e => e_1; e_p => e_2; te_m => e_3
[1032]	646	IF ( .NOT. neutral ) THEN
	647	pt => pt_1; pt_p => pt_2; tpt_m => pt_3
	648	ELSE
	649	pt => pt_1; pt_p => pt_1; tpt_m => pt_3
	650	ENDIF
[1001]	651	u => u_1; u_p => u_2; tu_m => u_3
	652	v => v_1; v_p => v_2; tv_m => v_3
	653	w => w_1; w_p => w_2; tw_m => w_3
[1]	654
[1001]	655	IF ( humidity .OR. passive_scalar ) THEN
	656	q => q_1; q_p => q_2; tq_m => q_3
[1053]	657	IF ( humidity ) THEN
	658	vpt => vpt_1
	659	IF ( cloud_physics ) THEN
	660	ql => ql_1
[1822]	661	qc => qc_1
	662	IF ( microphysics_seifert ) THEN
	663	qr => qr_1; qr_p => qr_2; tqr_m => qr_3
	664	nr => nr_1; nr_p => nr_2; tnr_m => nr_3
[1053]	665	ENDIF
	666	ENDIF
	667	ENDIF
[1001]	668	IF ( cloud_droplets ) THEN
	669	ql => ql_1
	670	ql_c => ql_2
[1]	671	ENDIF
[1001]	672	ENDIF
[1]	673
[1001]	674	IF ( ocean ) THEN
	675	sa => sa_1; sa_p => sa_2; tsa_m => sa_3
	676	ENDIF
[1010]	677	#endif
[1]	678
	679	!
[1551]	680	!-- Allocate land surface model arrays
	681	IF ( land_surface ) THEN
[1817]	682	CALL lsm_init_arrays
[1551]	683	ENDIF
	684
	685	!
[709]	686	!-- Allocate arrays containing the RK coefficient for calculation of
	687	!-- perturbation pressure and turbulent fluxes. At this point values are
	688	!-- set for pressure calculation during initialization (where no timestep
	689	!-- is done). Further below the values needed within the timestep scheme
	690	!-- will be set.
[1762]	691	!-- TO_DO: zeroth element added to weight_pres because in case of nesting
	692	!-- pres may need to be called outside the RK-substeps. Antti will
	693	!-- check if this is really required.
[1788]	694	ALLOCATE( weight_substep(1:intermediate_timestep_count_max), &
[1762]	695	weight_pres(0:intermediate_timestep_count_max) )
[1340]	696	weight_substep = 1.0_wp
	697	weight_pres = 1.0_wp
[709]	698	intermediate_timestep_count = 1 ! needed when simulated_time = 0.0
[673]	699
[1402]	700	CALL location_message( 'finished', .TRUE. )
[673]	701	!
[1]	702	!-- Initialize model variables
[1788]	703	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[328]	704	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
[1]	705	!
	706	!-- First model run of a possible job queue.
	707	!-- Initial profiles of the variables must be computes.
	708	IF ( INDEX( initializing_actions, 'set_1d-model_profiles' ) /= 0 ) THEN
[1384]	709
[1402]	710	CALL location_message( 'initializing with 1D model profiles', .FALSE. )
[1]	711	!
	712	!-- Use solutions of the 1D model as initial profiles,
	713	!-- start 1D model
	714	CALL init_1d_model
	715	!
	716	!-- Transfer initial profiles to the arrays of the 3D model
[667]	717	DO i = nxlg, nxrg
	718	DO j = nysg, nyng
[1]	719	e(:,j,i) = e1d
	720	kh(:,j,i) = kh1d
	721	km(:,j,i) = km1d
	722	pt(:,j,i) = pt_init
	723	u(:,j,i) = u1d
	724	v(:,j,i) = v1d
	725	ENDDO
	726	ENDDO
	727
[75]	728	IF ( humidity .OR. passive_scalar ) THEN
[667]	729	DO i = nxlg, nxrg
	730	DO j = nysg, nyng
[1]	731	q(:,j,i) = q_init
	732	ENDDO
	733	ENDDO
[1822]	734	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1053]	735	DO i = nxlg, nxrg
	736	DO j = nysg, nyng
[1340]	737	qr(:,j,i) = 0.0_wp
	738	nr(:,j,i) = 0.0_wp
[1053]	739	ENDDO
	740	ENDDO
[1115]	741	!
	742	!-- Initialze nc_1d with default value
	743	nc_1d(:) = nc_const
	744
[1053]	745	ENDIF
[1]	746	ENDIF
	747
	748	IF ( .NOT. constant_diffusion ) THEN
[667]	749	DO i = nxlg, nxrg
	750	DO j = nysg, nyng
[1]	751	e(:,j,i) = e1d
	752	ENDDO
	753	ENDDO
	754	!
	755	!-- Store initial profiles for output purposes etc.
	756	hom(:,1,25,:) = SPREAD( l1d, 2, statistic_regions+1 )
	757
[1691]	758	IF ( constant_flux_layer ) THEN
[1707]	759	ol = ( zu(nzb+1) - zw(nzb) ) / ( rif1d(nzb+1) + 1.0E-20_wp )
[1340]	760	ts = 0.0_wp ! could actually be computed more accurately in the
	761	! 1D model. Update when opportunity arises.
[1]	762	us = us1d
	763	usws = usws1d
	764	vsws = vsws1d
	765	ELSE
[1340]	766	ts = 0.0_wp ! must be set, because used in
[1691]	767	ol = ( zu(nzb+1) - zw(nzb) ) / zeta_min ! flowste
[1340]	768	us = 0.0_wp
	769	usws = 0.0_wp
	770	vsws = 0.0_wp
[1]	771	ENDIF
	772
	773	ELSE
[1340]	774	e = 0.0_wp ! must be set, because used in
[1691]	775	ol = ( zu(nzb+1) - zw(nzb) ) / zeta_min ! flowste
[1340]	776	ts = 0.0_wp
	777	us = 0.0_wp
	778	usws = 0.0_wp
	779	vsws = 0.0_wp
[1]	780	ENDIF
[102]	781	uswst = top_momentumflux_u
	782	vswst = top_momentumflux_v
[1]	783
	784	!
	785	!-- In every case qs = 0.0 (see also pt)
	786	!-- This could actually be computed more accurately in the 1D model.
	787	!-- Update when opportunity arises!
[1053]	788	IF ( humidity .OR. passive_scalar ) THEN
[1340]	789	qs = 0.0_wp
[1822]	790	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	791	qrs = 0.0_wp
	792	nrs = 0.0_wp
[1053]	793	ENDIF
	794	ENDIF
[1]	795
	796	!
[1762]	797	!-- Inside buildings set velocities back to zero
[1]	798	IF ( topography /= 'flat' ) THEN
[1762]	799	DO i = nxlg, nxrg
	800	DO j = nysg, nyng
[1340]	801	u(nzb:nzb_u_inner(j,i),j,i) = 0.0_wp
	802	v(nzb:nzb_v_inner(j,i),j,i) = 0.0_wp
[1]	803	ENDDO
	804	ENDDO
[667]	805
[1]	806	!
	807	!-- WARNING: The extra boundary conditions set after running the
	808	!-- ------- 1D model impose an error on the divergence one layer
	809	!-- below the topography; need to correct later
	810	!-- ATTENTION: Provisional correction for Piacsek & Williams
	811	!-- --------- advection scheme: keep u and v zero one layer below
	812	!-- the topography.
[667]	813	IF ( ibc_uv_b == 1 ) THEN
	814	!
[1]	815	!-- Neumann condition
	816	DO i = nxl-1, nxr+1
	817	DO j = nys-1, nyn+1
	818	IF ( nzb_u_inner(j,i) == 0 ) u(0,j,i) = u(1,j,i)
	819	IF ( nzb_v_inner(j,i) == 0 ) v(0,j,i) = v(1,j,i)
	820	ENDDO
	821	ENDDO
	822
	823	ENDIF
	824
	825	ENDIF
	826
[1402]	827	CALL location_message( 'finished', .TRUE. )
[1384]	828
[1788]	829	ELSEIF ( INDEX(initializing_actions, 'set_constant_profiles') /= 0 ) &
[1]	830	THEN
[1241]	831
[1402]	832	CALL location_message( 'initializing with constant profiles', .FALSE. )
[1]	833	!
[1241]	834	!-- Overwrite initial profiles in case of nudging
[1788]	835	IF ( nudging ) THEN
[1241]	836	pt_init = ptnudge(:,1)
	837	u_init = unudge(:,1)
	838	v_init = vnudge(:,1)
	839	IF ( humidity .OR. passive_scalar ) THEN
	840	q_init = qnudge(:,1)
	841	ENDIF
	842
[1788]	843	WRITE( message_string, * ) 'Initial profiles of u, v and ', &
[1241]	844	'scalars from NUDGING_DATA are used.'
	845	CALL message( 'init_3d_model', 'PA0370', 0, 0, 0, 6, 0 )
	846	ENDIF
	847
	848	!
[1]	849	!-- Use constructed initial profiles (velocity constant with height,
	850	!-- temperature profile with constant gradient)
[667]	851	DO i = nxlg, nxrg
	852	DO j = nysg, nyng
[1]	853	pt(:,j,i) = pt_init
	854	u(:,j,i) = u_init
	855	v(:,j,i) = v_init
	856	ENDDO
	857	ENDDO
[75]	858
[1]	859	!
[292]	860	!-- Set initial horizontal velocities at the lowest computational grid
	861	!-- levels to zero in order to avoid too small time steps caused by the
	862	!-- diffusion limit in the initial phase of a run (at k=1, dz/2 occurs
[1815]	863	!-- in the limiting formula!).
	864	IF ( ibc_uv_b /= 1 ) THEN
	865	DO i = nxlg, nxrg
	866	DO j = nysg, nyng
	867	u(nzb:nzb_u_inner(j,i)+1,j,i) = 0.0_wp
	868	v(nzb:nzb_v_inner(j,i)+1,j,i) = 0.0_wp
	869	ENDDO
	870	ENDDO
	871	ENDIF
[1]	872
[75]	873	IF ( humidity .OR. passive_scalar ) THEN
[667]	874	DO i = nxlg, nxrg
	875	DO j = nysg, nyng
[1]	876	q(:,j,i) = q_init
	877	ENDDO
	878	ENDDO
[1822]	879	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1115]	880	!
	881	!-- Initialze nc_1d with default value
	882	nc_1d(:) = nc_const
	883
[1822]	884	DO i = nxlg, nxrg
	885	DO j = nysg, nyng
	886	qr(:,j,i) = 0.0_wp
	887	nr(:,j,i) = 0.0_wp
[1053]	888	ENDDO
[1822]	889	ENDDO
[1115]	890
[1053]	891	ENDIF
[1]	892	ENDIF
	893
[94]	894	IF ( ocean ) THEN
[667]	895	DO i = nxlg, nxrg
	896	DO j = nysg, nyng
[94]	897	sa(:,j,i) = sa_init
	898	ENDDO
	899	ENDDO
	900	ENDIF
[1]	901
	902	IF ( constant_diffusion ) THEN
	903	km = km_constant
	904	kh = km / prandtl_number
[1340]	905	e = 0.0_wp
	906	ELSEIF ( e_init > 0.0_wp ) THEN
[108]	907	DO k = nzb+1, nzt
[1340]	908	km(k,:,:) = 0.1_wp * l_grid(k) * SQRT( e_init )
[108]	909	ENDDO
	910	km(nzb,:,:) = km(nzb+1,:,:)
	911	km(nzt+1,:,:) = km(nzt,:,:)
	912	kh = km / prandtl_number
	913	e = e_init
[1]	914	ELSE
[108]	915	IF ( .NOT. ocean ) THEN
[1340]	916	kh = 0.01_wp ! there must exist an initial diffusion, because
	917	km = 0.01_wp ! otherwise no TKE would be produced by the
[108]	918	! production terms, as long as not yet
	919	! e = (u/cm)*2 at k=nzb+1
	920	ELSE
[1340]	921	kh = 0.00001_wp
	922	km = 0.00001_wp
[108]	923	ENDIF
[1340]	924	e = 0.0_wp
[1]	925	ENDIF
[1691]	926	ol = ( zu(nzb+1) - zw(nzb) ) / zeta_min
[1340]	927	ts = 0.0_wp
	928	us = 0.0_wp
	929	usws = 0.0_wp
[102]	930	uswst = top_momentumflux_u
[1340]	931	vsws = 0.0_wp
[102]	932	vswst = top_momentumflux_v
[1340]	933	IF ( humidity .OR. passive_scalar ) qs = 0.0_wp
[1]	934
	935	!
	936	!-- Compute initial temperature field and other constants used in case
	937	!-- of a sloping surface
	938	IF ( sloping_surface ) CALL init_slope
	939
[1402]	940	CALL location_message( 'finished', .TRUE. )
[1384]	941
[1788]	942	ELSEIF ( INDEX(initializing_actions, 'by_user') /= 0 ) &
[46]	943	THEN
[1384]	944
[1402]	945	CALL location_message( 'initializing by user', .FALSE. )
[46]	946	!
	947	!-- Initialization will completely be done by the user
	948	CALL user_init_3d_model
	949
[1402]	950	CALL location_message( 'finished', .TRUE. )
[1384]	951
[1]	952	ENDIF
[1384]	953
[1402]	954	CALL location_message( 'initializing statistics, boundary conditions, etc.', &
	955	.FALSE. )
[1384]	956
[667]	957	!
	958	!-- Bottom boundary
	959	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2 ) THEN
[1340]	960	u(nzb,:,:) = 0.0_wp
	961	v(nzb,:,:) = 0.0_wp
[667]	962	ENDIF
[1]	963
	964	!
[151]	965	!-- Apply channel flow boundary condition
[132]	966	IF ( TRIM( bc_uv_t ) == 'dirichlet_0' ) THEN
[1340]	967	u(nzt+1,:,:) = 0.0_wp
	968	v(nzt+1,:,:) = 0.0_wp
[132]	969	ENDIF
	970
	971	!
[1]	972	!-- Calculate virtual potential temperature
[1340]	973	IF ( humidity ) vpt = pt * ( 1.0_wp + 0.61_wp * q )
[1]	974
	975	!
	976	!-- Store initial profiles for output purposes etc.
	977	hom(:,1,5,:) = SPREAD( u(:,nys,nxl), 2, statistic_regions+1 )
	978	hom(:,1,6,:) = SPREAD( v(:,nys,nxl), 2, statistic_regions+1 )
[667]	979	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2) THEN
[1340]	980	hom(nzb,1,5,:) = 0.0_wp
	981	hom(nzb,1,6,:) = 0.0_wp
[1]	982	ENDIF
	983	hom(:,1,7,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	984	hom(:,1,23,:) = SPREAD( km(:,nys,nxl), 2, statistic_regions+1 )
	985	hom(:,1,24,:) = SPREAD( kh(:,nys,nxl), 2, statistic_regions+1 )
	986
[97]	987	IF ( ocean ) THEN
	988	!
	989	!-- Store initial salinity profile
	990	hom(:,1,26,:) = SPREAD( sa(:,nys,nxl), 2, statistic_regions+1 )
	991	ENDIF
[1]	992
[75]	993	IF ( humidity ) THEN
[1]	994	!
	995	!-- Store initial profile of total water content, virtual potential
	996	!-- temperature
	997	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	998	hom(:,1,29,:) = SPREAD( vpt(:,nys,nxl), 2, statistic_regions+1 )
	999	IF ( cloud_physics .OR. cloud_droplets ) THEN
	1000	!
	1001	!-- Store initial profile of specific humidity and potential
	1002	!-- temperature
	1003	hom(:,1,27,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	1004	hom(:,1,28,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	1005	ENDIF
	1006	ENDIF
	1007
	1008	IF ( passive_scalar ) THEN
	1009	!
	1010	!-- Store initial scalar profile
	1011	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	1012	ENDIF
	1013
	1014	!
[1400]	1015	!-- Initialize the random number generators (from numerical recipes)
	1016	CALL random_function_ini
[1429]	1017
[1400]	1018	IF ( random_generator == 'random-parallel' ) THEN
[1429]	1019	!-- Asigning an ID to every vertical gridpoint column
	1020	!-- dependig on the ensemble run number.
	1021	random_dummy=1
[1400]	1022	DO j=0,ny
	1023	DO i=0,nx
[1788]	1024	id_random_array(j,i) = random_dummy + 1E6 &
	1025	* ( ensemble_member_nr - 1000 )
[1429]	1026	random_dummy = random_dummy + 1
[1400]	1027	END DO
	1028	ENDDO
[1429]	1029	!-- Initializing with random_seed_parallel for every vertical
	1030	!-- gridpoint column.
	1031	random_dummy=0
[1400]	1032	DO j = nysg, nyng
	1033	DO i = nxlg, nxrg
	1034	CALL random_seed_parallel (random_sequence=id_random_array(j, i))
	1035	CALL random_number_parallel (random_dummy)
	1036	CALL random_seed_parallel (get=seq_random_array(:, j, i))
	1037	END DO
	1038	ENDDO
	1039	ENDIF
	1040
	1041	!
[19]	1042	!-- Initialize fluxes at bottom surface
[1]	1043	IF ( use_surface_fluxes ) THEN
	1044
	1045	IF ( constant_heatflux ) THEN
	1046	!
	1047	!-- Heat flux is prescribed
	1048	IF ( random_heatflux ) THEN
	1049	CALL disturb_heatflux
	1050	ELSE
	1051	shf = surface_heatflux
	1052	!
[1241]	1053	!-- Initialize shf with data from external file LSF_DATA
[1788]	1054	IF ( large_scale_forcing .AND. lsf_surf ) THEN
[1241]	1055	CALL ls_forcing_surf ( simulated_time )
	1056	ENDIF
	1057
	1058	!
[1]	1059	!-- Over topography surface_heatflux is replaced by wall_heatflux(0)
	1060	IF ( TRIM( topography ) /= 'flat' ) THEN
[667]	1061	DO i = nxlg, nxrg
	1062	DO j = nysg, nyng
[1]	1063	IF ( nzb_s_inner(j,i) /= 0 ) THEN
	1064	shf(j,i) = wall_heatflux(0)
	1065	ENDIF
	1066	ENDDO
	1067	ENDDO
	1068	ENDIF
	1069	ENDIF
	1070	ENDIF
	1071
	1072	!
	1073	!-- Determine the near-surface water flux
[75]	1074	IF ( humidity .OR. passive_scalar ) THEN
[1822]	1075	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1076	qrsws = 0.0_wp
	1077	nrsws = 0.0_wp
[1053]	1078	ENDIF
[1]	1079	IF ( constant_waterflux ) THEN
	1080	qsws = surface_waterflux
[407]	1081	!
	1082	!-- Over topography surface_waterflux is replaced by
	1083	!-- wall_humidityflux(0)
	1084	IF ( TRIM( topography ) /= 'flat' ) THEN
	1085	wall_qflux = wall_humidityflux
[667]	1086	DO i = nxlg, nxrg
	1087	DO j = nysg, nyng
[407]	1088	IF ( nzb_s_inner(j,i) /= 0 ) THEN
	1089	qsws(j,i) = wall_qflux(0)
	1090	ENDIF
	1091	ENDDO
	1092	ENDDO
	1093	ENDIF
[1]	1094	ENDIF
	1095	ENDIF
	1096
	1097	ENDIF
	1098
	1099	!
[19]	1100	!-- Initialize fluxes at top surface
[94]	1101	!-- Currently, only the heatflux and salinity flux can be prescribed.
	1102	!-- The latent flux is zero in this case!
[19]	1103	IF ( use_top_fluxes ) THEN
	1104
	1105	IF ( constant_top_heatflux ) THEN
	1106	!
	1107	!-- Heat flux is prescribed
	1108	tswst = top_heatflux
	1109
[1053]	1110	IF ( humidity .OR. passive_scalar ) THEN
[1340]	1111	qswst = 0.0_wp
[1822]	1112	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1113	nrswst = 0.0_wp
	1114	qrswst = 0.0_wp
[1053]	1115	ENDIF
	1116	ENDIF
[94]	1117
	1118	IF ( ocean ) THEN
[95]	1119	saswsb = bottom_salinityflux
[94]	1120	saswst = top_salinityflux
	1121	ENDIF
[102]	1122	ENDIF
[19]	1123
[102]	1124	!
	1125	!-- Initialization in case of a coupled model run
	1126	IF ( coupling_mode == 'ocean_to_atmosphere' ) THEN
[1340]	1127	tswst = 0.0_wp
[102]	1128	ENDIF
	1129
[19]	1130	ENDIF
	1131
	1132	!
[1]	1133	!-- Initialize Prandtl layer quantities
[1691]	1134	IF ( constant_flux_layer ) THEN
[1]	1135
	1136	z0 = roughness_length
[978]	1137	z0h = z0h_factor * z0
[1788]	1138	z0q = z0h_factor * z0
[1]	1139
	1140	IF ( .NOT. constant_heatflux ) THEN
	1141	!
	1142	!-- Surface temperature is prescribed. Here the heat flux cannot be
[1691]	1143	!-- simply estimated, because therefore ol, u* and theta* would have
[1]	1144	!-- to be computed by iteration. This is why the heat flux is assumed
	1145	!-- to be zero before the first time step. It approaches its correct
	1146	!-- value in the course of the first few time steps.
[1340]	1147	shf = 0.0_wp
[1]	1148	ENDIF
	1149
[75]	1150	IF ( humidity .OR. passive_scalar ) THEN
[1788]	1151	IF ( .NOT. constant_waterflux ) qsws = 0.0_wp
[1822]	1152	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1153	qrsws = 0.0_wp
	1154	nrsws = 0.0_wp
[1053]	1155	ENDIF
[1]	1156	ENDIF
	1157
	1158	ENDIF
	1159
[1179]	1160	!
	1161	!-- Set the reference state to be used in the buoyancy terms (for ocean runs
	1162	!-- the reference state will be set (overwritten) in init_ocean)
	1163	IF ( use_single_reference_value ) THEN
[1788]	1164	IF ( .NOT. humidity ) THEN
[1179]	1165	ref_state(:) = pt_reference
	1166	ELSE
	1167	ref_state(:) = vpt_reference
	1168	ENDIF
	1169	ELSE
[1788]	1170	IF ( .NOT. humidity ) THEN
[1179]	1171	ref_state(:) = pt_init(:)
	1172	ELSE
	1173	ref_state(:) = vpt(:,nys,nxl)
	1174	ENDIF
	1175	ENDIF
[152]	1176
	1177	!
[707]	1178	!-- For the moment, vertical velocity is zero
[1340]	1179	w = 0.0_wp
[1]	1180
	1181	!
	1182	!-- Initialize array sums (must be defined in first call of pres)
[1340]	1183	sums = 0.0_wp
[1]	1184
	1185	!
[707]	1186	!-- In case of iterative solvers, p must get an initial value
[1575]	1187	IF ( psolver(1:9) == 'multigrid' .OR. psolver == 'sor' ) p = 0.0_wp
[707]	1188
	1189	!
[72]	1190	!-- Treating cloud physics, liquid water content and precipitation amount
	1191	!-- are zero at beginning of the simulation
	1192	IF ( cloud_physics ) THEN
[1340]	1193	ql = 0.0_wp
[1822]	1194	qc = 0.0_wp
	1195
	1196	precipitation_amount = 0.0_wp
	1197
	1198	IF ( microphysics_seifert ) THEN
[1115]	1199	nc_1d = nc_const
	1200	ENDIF
[72]	1201	ENDIF
[673]	1202	!
[1]	1203	!-- Impose vortex with vertical axis on the initial velocity profile
	1204	IF ( INDEX( initializing_actions, 'initialize_vortex' ) /= 0 ) THEN
	1205	CALL init_rankine
	1206	ENDIF
	1207
	1208	!
	1209	!-- Impose temperature anomaly (advection test only)
	1210	IF ( INDEX( initializing_actions, 'initialize_ptanom' ) /= 0 ) THEN
	1211	CALL init_pt_anomaly
	1212	ENDIF
	1213
	1214	!
	1215	!-- If required, change the surface temperature at the start of the 3D run
[1340]	1216	IF ( pt_surface_initial_change /= 0.0_wp ) THEN
[1]	1217	pt(nzb,:,:) = pt(nzb,:,:) + pt_surface_initial_change
	1218	ENDIF
	1219
	1220	!
	1221	!-- If required, change the surface humidity/scalar at the start of the 3D
	1222	!-- run
[1788]	1223	IF ( ( humidity .OR. passive_scalar ) .AND. &
[1340]	1224	q_surface_initial_change /= 0.0_wp ) THEN
[1]	1225	q(nzb,:,:) = q(nzb,:,:) + q_surface_initial_change
	1226	ENDIF
	1227
	1228	!
	1229	!-- Initialize old and new time levels.
[1340]	1230	te_m = 0.0_wp; tpt_m = 0.0_wp; tu_m = 0.0_wp; tv_m = 0.0_wp; tw_m = 0.0_wp
[1]	1231	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
	1232
[75]	1233	IF ( humidity .OR. passive_scalar ) THEN
[1340]	1234	tq_m = 0.0_wp
[1]	1235	q_p = q
[1822]	1236	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1237	tqr_m = 0.0_wp
[1822]	1238	qr_p = qr
[1340]	1239	tnr_m = 0.0_wp
[1822]	1240	nr_p = nr
[1053]	1241	ENDIF
[1]	1242	ENDIF
	1243
[94]	1244	IF ( ocean ) THEN
[1340]	1245	tsa_m = 0.0_wp
[94]	1246	sa_p = sa
	1247	ENDIF
[667]	1248
[1402]	1249	CALL location_message( 'finished', .TRUE. )
[94]	1250
[1788]	1251	ELSEIF ( TRIM( initializing_actions ) == 'read_restart_data' .OR. &
	1252	TRIM( initializing_actions ) == 'cyclic_fill' ) &
[1]	1253	THEN
[1384]	1254
[1402]	1255	CALL location_message( 'initializing in case of restart / cyclic_fill', &
	1256	.FALSE. )
[1]	1257	!
[767]	1258	!-- When reading data for cyclic fill of 3D prerun data files, read
	1259	!-- some of the global variables from the restart file which are required
	1260	!-- for initializing the inflow
[328]	1261	IF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
[559]	1262
[759]	1263	DO i = 0, io_blocks-1
	1264	IF ( i == io_group ) THEN
	1265	CALL read_parts_of_var_list
	1266	CALL close_file( 13 )
	1267	ENDIF
	1268	#if defined( __parallel )
	1269	CALL MPI_BARRIER( comm2d, ierr )
	1270	#endif
	1271	ENDDO
[328]	1272
[767]	1273	ENDIF
	1274
[151]	1275	!
[767]	1276	!-- Read binary data from restart file
	1277	DO i = 0, io_blocks-1
	1278	IF ( i == io_group ) THEN
	1279	CALL read_3d_binary
	1280	ENDIF
	1281	#if defined( __parallel )
	1282	CALL MPI_BARRIER( comm2d, ierr )
	1283	#endif
	1284	ENDDO
	1285
[328]	1286	!
[767]	1287	!-- Initialization of the turbulence recycling method
[1788]	1288	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
[767]	1289	turbulent_inflow ) THEN
	1290	!
	1291	!-- First store the profiles to be used at the inflow.
	1292	!-- These profiles are the (temporally) and horizontally averaged vertical
	1293	!-- profiles from the prerun. Alternatively, prescribed profiles
	1294	!-- for u,v-components can be used.
[1615]	1295	ALLOCATE( mean_inflow_profiles(nzb:nzt+1,6) )
[151]	1296
[767]	1297	IF ( use_prescribed_profile_data ) THEN
	1298	mean_inflow_profiles(:,1) = u_init ! u
	1299	mean_inflow_profiles(:,2) = v_init ! v
	1300	ELSE
[328]	1301	mean_inflow_profiles(:,1) = hom_sum(:,1,0) ! u
	1302	mean_inflow_profiles(:,2) = hom_sum(:,2,0) ! v
[767]	1303	ENDIF
	1304	mean_inflow_profiles(:,4) = hom_sum(:,4,0) ! pt
	1305	mean_inflow_profiles(:,5) = hom_sum(:,8,0) ! e
[1615]	1306	mean_inflow_profiles(:,6) = hom_sum(:,41,0) ! q
[151]	1307
	1308	!
[767]	1309	!-- If necessary, adjust the horizontal flow field to the prescribed
	1310	!-- profiles
	1311	IF ( use_prescribed_profile_data ) THEN
	1312	DO i = nxlg, nxrg
[667]	1313	DO j = nysg, nyng
[328]	1314	DO k = nzb, nzt+1
[767]	1315	u(k,j,i) = u(k,j,i) - hom_sum(k,1,0) + u_init(k)
	1316	v(k,j,i) = v(k,j,i) - hom_sum(k,2,0) + v_init(k)
[328]	1317	ENDDO
[151]	1318	ENDDO
[767]	1319	ENDDO
	1320	ENDIF
[151]	1321
	1322	!
[767]	1323	!-- Use these mean profiles at the inflow (provided that Dirichlet
	1324	!-- conditions are used)
	1325	IF ( inflow_l ) THEN
	1326	DO j = nysg, nyng
	1327	DO k = nzb, nzt+1
	1328	u(k,j,nxlg:-1) = mean_inflow_profiles(k,1)
	1329	v(k,j,nxlg:-1) = mean_inflow_profiles(k,2)
[1340]	1330	w(k,j,nxlg:-1) = 0.0_wp
[767]	1331	pt(k,j,nxlg:-1) = mean_inflow_profiles(k,4)
	1332	e(k,j,nxlg:-1) = mean_inflow_profiles(k,5)
[1615]	1333	IF ( humidity .OR. passive_scalar ) &
	1334	q(k,j,nxlg:-1) = mean_inflow_profiles(k,6)
[767]	1335	ENDDO
	1336	ENDDO
	1337	ENDIF
	1338
[151]	1339	!
[767]	1340	!-- Calculate the damping factors to be used at the inflow. For a
	1341	!-- turbulent inflow the turbulent fluctuations have to be limited
	1342	!-- vertically because otherwise the turbulent inflow layer will grow
	1343	!-- in time.
[1340]	1344	IF ( inflow_damping_height == 9999999.9_wp ) THEN
[767]	1345	!
	1346	!-- Default: use the inversion height calculated by the prerun; if
	1347	!-- this is zero, inflow_damping_height must be explicitly
	1348	!-- specified.
[1340]	1349	IF ( hom_sum(nzb+6,pr_palm,0) /= 0.0_wp ) THEN
[767]	1350	inflow_damping_height = hom_sum(nzb+6,pr_palm,0)
	1351	ELSE
[1788]	1352	WRITE( message_string, * ) 'inflow_damping_height must be ', &
	1353	'explicitly specified because&the inversion height ', &
[767]	1354	'calculated by the prerun is zero.'
	1355	CALL message( 'init_3d_model', 'PA0318', 1, 2, 0, 6, 0 )
[292]	1356	ENDIF
[151]	1357
[767]	1358	ENDIF
	1359
[1340]	1360	IF ( inflow_damping_width == 9999999.9_wp ) THEN
[151]	1361	!
[767]	1362	!-- Default for the transition range: one tenth of the undamped
	1363	!-- layer
[1340]	1364	inflow_damping_width = 0.1_wp * inflow_damping_height
[151]	1365
[767]	1366	ENDIF
[151]	1367
[767]	1368	ALLOCATE( inflow_damping_factor(nzb:nzt+1) )
[151]	1369
[767]	1370	DO k = nzb, nzt+1
[151]	1371
[767]	1372	IF ( zu(k) <= inflow_damping_height ) THEN
[1340]	1373	inflow_damping_factor(k) = 1.0_wp
[996]	1374	ELSEIF ( zu(k) <= ( inflow_damping_height + inflow_damping_width ) ) THEN
[1340]	1375	inflow_damping_factor(k) = 1.0_wp - &
[996]	1376	( zu(k) - inflow_damping_height ) / &
	1377	inflow_damping_width
[767]	1378	ELSE
[1340]	1379	inflow_damping_factor(k) = 0.0_wp
[767]	1380	ENDIF
[151]	1381
[767]	1382	ENDDO
[151]	1383
[147]	1384	ENDIF
	1385
[152]	1386	!
[359]	1387	!-- Inside buildings set velocities and TKE back to zero
[1788]	1388	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
[359]	1389	topography /= 'flat' ) THEN
	1390	!
	1391	!-- Inside buildings set velocities and TKE back to zero.
	1392	!-- Other scalars (pt, q, s, km, kh, p, sa, ...) are ignored at present,
	1393	!-- maybe revise later.
[1001]	1394	DO i = nxlg, nxrg
	1395	DO j = nysg, nyng
[1340]	1396	u (nzb:nzb_u_inner(j,i),j,i) = 0.0_wp
	1397	v (nzb:nzb_v_inner(j,i),j,i) = 0.0_wp
	1398	w (nzb:nzb_w_inner(j,i),j,i) = 0.0_wp
	1399	e (nzb:nzb_w_inner(j,i),j,i) = 0.0_wp
	1400	tu_m(nzb:nzb_u_inner(j,i),j,i) = 0.0_wp
	1401	tv_m(nzb:nzb_v_inner(j,i),j,i) = 0.0_wp
	1402	tw_m(nzb:nzb_w_inner(j,i),j,i) = 0.0_wp
	1403	te_m(nzb:nzb_w_inner(j,i),j,i) = 0.0_wp
	1404	tpt_m(nzb:nzb_w_inner(j,i),j,i) = 0.0_wp
[359]	1405	ENDDO
[1001]	1406	ENDDO
[359]	1407
	1408	ENDIF
	1409
	1410	!
[1]	1411	!-- Calculate initial temperature field and other constants used in case
	1412	!-- of a sloping surface
	1413	IF ( sloping_surface ) CALL init_slope
	1414
	1415	!
	1416	!-- Initialize new time levels (only done in order to set boundary values
	1417	!-- including ghost points)
	1418	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
[1053]	1419	IF ( humidity .OR. passive_scalar ) THEN
	1420	q_p = q
[1822]	1421	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1053]	1422	qr_p = qr
	1423	nr_p = nr
	1424	ENDIF
	1425	ENDIF
[94]	1426	IF ( ocean ) sa_p = sa
[1]	1427
[181]	1428	!
	1429	!-- Allthough tendency arrays are set in prognostic_equations, they have
	1430	!-- have to be predefined here because they are used (but multiplied with 0)
	1431	!-- there before they are set.
[1340]	1432	te_m = 0.0_wp; tpt_m = 0.0_wp; tu_m = 0.0_wp; tv_m = 0.0_wp; tw_m = 0.0_wp
[1053]	1433	IF ( humidity .OR. passive_scalar ) THEN
[1340]	1434	tq_m = 0.0_wp
[1822]	1435	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1436	tqr_m = 0.0_wp
	1437	tnr_m = 0.0_wp
[1053]	1438	ENDIF
	1439	ENDIF
[1340]	1440	IF ( ocean ) tsa_m = 0.0_wp
[181]	1441
[1402]	1442	CALL location_message( 'finished', .TRUE. )
[1384]	1443
[1]	1444	ELSE
	1445	!
	1446	!-- Actually this part of the programm should not be reached
[254]	1447	message_string = 'unknown initializing problem'
	1448	CALL message( 'init_3d_model', 'PA0193', 1, 2, 0, 6, 0 )
[1]	1449	ENDIF
	1450
[151]	1451
	1452	IF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
[1]	1453	!
[151]	1454	!-- Initialize old timelevels needed for radiation boundary conditions
	1455	IF ( outflow_l ) THEN
	1456	u_m_l(:,:,:) = u(:,:,1:2)
	1457	v_m_l(:,:,:) = v(:,:,0:1)
	1458	w_m_l(:,:,:) = w(:,:,0:1)
	1459	ENDIF
	1460	IF ( outflow_r ) THEN
	1461	u_m_r(:,:,:) = u(:,:,nx-1:nx)
	1462	v_m_r(:,:,:) = v(:,:,nx-1:nx)
	1463	w_m_r(:,:,:) = w(:,:,nx-1:nx)
	1464	ENDIF
	1465	IF ( outflow_s ) THEN
	1466	u_m_s(:,:,:) = u(:,0:1,:)
	1467	v_m_s(:,:,:) = v(:,1:2,:)
	1468	w_m_s(:,:,:) = w(:,0:1,:)
	1469	ENDIF
	1470	IF ( outflow_n ) THEN
	1471	u_m_n(:,:,:) = u(:,ny-1:ny,:)
	1472	v_m_n(:,:,:) = v(:,ny-1:ny,:)
	1473	w_m_n(:,:,:) = w(:,ny-1:ny,:)
	1474	ENDIF
[667]	1475
[151]	1476	ENDIF
[680]	1477
[667]	1478	!
	1479	!-- Calculate the initial volume flow at the right and north boundary
[709]	1480	IF ( conserve_volume_flow ) THEN
[151]	1481
[767]	1482	IF ( use_prescribed_profile_data ) THEN
[667]	1483
[1340]	1484	volume_flow_initial_l = 0.0_wp
	1485	volume_flow_area_l = 0.0_wp
[732]	1486
[667]	1487	IF ( nxr == nx ) THEN
	1488	DO j = nys, nyn
[709]	1489	DO k = nzb_2d(j,nx)+1, nzt
[1788]	1490	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[767]	1491	u_init(k) * dzw(k)
	1492	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1493	ENDDO
	1494	ENDDO
	1495	ENDIF
	1496
	1497	IF ( nyn == ny ) THEN
	1498	DO i = nxl, nxr
	1499	DO k = nzb_2d(ny,i)+1, nzt
	1500	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1501	v_init(k) * dzw(k)
	1502	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1503	ENDDO
	1504	ENDDO
	1505	ENDIF
	1506
	1507	#if defined( __parallel )
	1508	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1509	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1510	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1511	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1512
	1513	#else
	1514	volume_flow_initial = volume_flow_initial_l
	1515	volume_flow_area = volume_flow_area_l
	1516	#endif
	1517
	1518	ELSEIF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
	1519
[1340]	1520	volume_flow_initial_l = 0.0_wp
	1521	volume_flow_area_l = 0.0_wp
[767]	1522
	1523	IF ( nxr == nx ) THEN
	1524	DO j = nys, nyn
	1525	DO k = nzb_2d(j,nx)+1, nzt
[1788]	1526	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[667]	1527	hom_sum(k,1,0) * dzw(k)
	1528	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1529	ENDDO
	1530	ENDDO
	1531	ENDIF
	1532
	1533	IF ( nyn == ny ) THEN
	1534	DO i = nxl, nxr
[709]	1535	DO k = nzb_2d(ny,i)+1, nzt
[1788]	1536	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[709]	1537	hom_sum(k,2,0) * dzw(k)
[667]	1538	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1539	ENDDO
	1540	ENDDO
	1541	ENDIF
	1542
[732]	1543	#if defined( __parallel )
	1544	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1545	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1546	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1547	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1548
	1549	#else
	1550	volume_flow_initial = volume_flow_initial_l
	1551	volume_flow_area = volume_flow_area_l
	1552	#endif
	1553
[667]	1554	ELSEIF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
	1555
[1340]	1556	volume_flow_initial_l = 0.0_wp
	1557	volume_flow_area_l = 0.0_wp
[732]	1558
[667]	1559	IF ( nxr == nx ) THEN
	1560	DO j = nys, nyn
[709]	1561	DO k = nzb_2d(j,nx)+1, nzt
[667]	1562	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[709]	1563	u(k,j,nx) * dzw(k)
[667]	1564	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1565	ENDDO
	1566	ENDDO
	1567	ENDIF
	1568
	1569	IF ( nyn == ny ) THEN
	1570	DO i = nxl, nxr
[709]	1571	DO k = nzb_2d(ny,i)+1, nzt
[1788]	1572	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[667]	1573	v(k,ny,i) * dzw(k)
	1574	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1575	ENDDO
	1576	ENDDO
	1577	ENDIF
	1578
	1579	#if defined( __parallel )
[732]	1580	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1581	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1582	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1583	2, MPI_REAL, MPI_SUM, comm2d, ierr )
[667]	1584
	1585	#else
[732]	1586	volume_flow_initial = volume_flow_initial_l
	1587	volume_flow_area = volume_flow_area_l
[667]	1588	#endif
	1589
[732]	1590	ENDIF
	1591
[151]	1592	!
[709]	1593	!-- In case of 'bulk_velocity' mode, volume_flow_initial is calculated
	1594	!-- from u\|v_bulk instead
[680]	1595	IF ( TRIM( conserve_volume_flow_mode ) == 'bulk_velocity' ) THEN
	1596	volume_flow_initial(1) = u_bulk * volume_flow_area(1)
	1597	volume_flow_initial(2) = v_bulk * volume_flow_area(2)
	1598	ENDIF
[667]	1599
[680]	1600	ENDIF
	1601
[787]	1602	!
	1603	!-- Initialize quantities for special advections schemes
	1604	CALL init_advec
[680]	1605
[667]	1606	!
[680]	1607	!-- Impose random perturbation on the horizontal velocity field and then
	1608	!-- remove the divergences from the velocity field at the initial stage
[1788]	1609	IF ( create_disturbances .AND. disturbance_energy_limit /= 0.0_wp .AND. &
	1610	TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[680]	1611	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1612
[1402]	1613	CALL location_message( 'creating initial disturbances', .FALSE. )
[680]	1614	CALL disturb_field( nzb_u_inner, tend, u )
	1615	CALL disturb_field( nzb_v_inner, tend, v )
[1402]	1616	CALL location_message( 'finished', .TRUE. )
[1384]	1617
[1402]	1618	CALL location_message( 'calling pressure solver', .FALSE. )
[680]	1619	n_sor = nsor_ini
[1221]	1620	!$acc data copyin( d, ddzu, ddzw, nzb_s_inner, nzb_u_inner ) &
	1621	!$acc copyin( nzb_v_inner, nzb_w_inner, p, rflags_s_inner, tend ) &
	1622	!$acc copyin( weight_pres, weight_substep ) &
	1623	!$acc copy( tri, tric, u, v, w )
[680]	1624	CALL pres
[1111]	1625	!$acc end data
[680]	1626	n_sor = nsor
[1402]	1627	CALL location_message( 'finished', .TRUE. )
[1384]	1628
[680]	1629	ENDIF
	1630
	1631	!
[1484]	1632	!-- If required, initialize quantities needed for the plant canopy model
	1633	IF ( plant_canopy ) CALL init_plant_canopy
[138]	1634
	1635	!
[1]	1636	!-- If required, initialize dvrp-software
[1340]	1637	IF ( dt_dvrp /= 9999999.9_wp ) CALL init_dvrp
[1]	1638
[96]	1639	IF ( ocean ) THEN
[1]	1640	!
[96]	1641	!-- Initialize quantities needed for the ocean model
	1642	CALL init_ocean
[388]	1643
[96]	1644	ELSE
	1645	!
	1646	!-- Initialize quantities for handling cloud physics
[849]	1647	!-- This routine must be called before lpm_init, because
[96]	1648	!-- otherwise, array pt_d_t, needed in data_output_dvrp (called by
[849]	1649	!-- lpm_init) is not defined.
[96]	1650	CALL init_cloud_physics
	1651	ENDIF
[1]	1652
	1653	!
	1654	!-- If required, initialize particles
[849]	1655	IF ( particle_advection ) CALL lpm_init
[1]	1656
[1585]	1657	!
	1658	!-- If required, initialize quantities needed for the LSM
	1659	IF ( land_surface ) THEN
	1660	CALL location_message( 'initializing land surface model', .FALSE. )
[1817]	1661	CALL lsm_init
[1585]	1662	CALL location_message( 'finished', .TRUE. )
	1663	ENDIF
[1496]	1664
[1]	1665	!
[1691]	1666	!-- Initialize surface layer (done after LSM as roughness length are required
	1667	!-- for initialization
	1668	IF ( constant_flux_layer ) THEN
	1669	CALL location_message( 'initializing surface layer', .FALSE. )
	1670	CALL init_surface_layer_fluxes
	1671	CALL location_message( 'finished', .TRUE. )
	1672	ENDIF
	1673
	1674	!
[1496]	1675	!-- If required, initialize radiation model
	1676	IF ( radiation ) THEN
[1585]	1677	CALL location_message( 'initializing radiation model', .FALSE. )
[1496]	1678	CALL init_radiation
[1585]	1679	CALL location_message( 'finished', .TRUE. )
[1496]	1680	ENDIF
	1681
	1682	!
[673]	1683	!-- Initialize the ws-scheme.
	1684	IF ( ws_scheme_sca .OR. ws_scheme_mom ) CALL ws_init
[1]	1685
	1686	!
[709]	1687	!-- Setting weighting factors for calculation of perturbation pressure
[1762]	1688	!-- and turbulent quantities from the RK substeps
	1689	!-- TO_DO: zeroth element is added to weight_pres because in nesting pres
	1690	!-- may need to be called outside the RK-substeps
	1691	weight_pres(0) = 1.0_wp
[709]	1692	IF ( TRIM(timestep_scheme) == 'runge-kutta-3' ) THEN ! for RK3-method
	1693
[1322]	1694	weight_substep(1) = 1._wp/6._wp
	1695	weight_substep(2) = 3._wp/10._wp
	1696	weight_substep(3) = 8._wp/15._wp
[709]	1697
[1322]	1698	weight_pres(1) = 1._wp/3._wp
	1699	weight_pres(2) = 5._wp/12._wp
	1700	weight_pres(3) = 1._wp/4._wp
[709]	1701
	1702	ELSEIF ( TRIM(timestep_scheme) == 'runge-kutta-2' ) THEN ! for RK2-method
	1703
[1322]	1704	weight_substep(1) = 1._wp/2._wp
	1705	weight_substep(2) = 1._wp/2._wp
[673]	1706
[1322]	1707	weight_pres(1) = 1._wp/2._wp
	1708	weight_pres(2) = 1._wp/2._wp
[709]	1709
[1001]	1710	ELSE ! for Euler-method
[709]	1711
[1340]	1712	weight_substep(1) = 1.0_wp
	1713	weight_pres(1) = 1.0_wp
[709]	1714
[673]	1715	ENDIF
	1716
	1717	!
[1]	1718	!-- Initialize Rayleigh damping factors
[1340]	1719	rdf = 0.0_wp
	1720	rdf_sc = 0.0_wp
	1721	IF ( rayleigh_damping_factor /= 0.0_wp ) THEN
[1788]	1722	IF ( .NOT. ocean ) THEN
[108]	1723	DO k = nzb+1, nzt
	1724	IF ( zu(k) >= rayleigh_damping_height ) THEN
[1788]	1725	rdf(k) = rayleigh_damping_factor * &
[1340]	1726	( SIN( pi * 0.5_wp * ( zu(k) - rayleigh_damping_height ) &
[1788]	1727	/ ( zu(nzt) - rayleigh_damping_height ) ) &
[1]	1728	)**2
[108]	1729	ENDIF
	1730	ENDDO
	1731	ELSE
	1732	DO k = nzt, nzb+1, -1
	1733	IF ( zu(k) <= rayleigh_damping_height ) THEN
[1788]	1734	rdf(k) = rayleigh_damping_factor * &
[1340]	1735	( SIN( pi * 0.5_wp * ( rayleigh_damping_height - zu(k) ) &
[1788]	1736	/ ( rayleigh_damping_height - zu(nzb+1) ) ) &
[108]	1737	)**2
	1738	ENDIF
	1739	ENDDO
	1740	ENDIF
[1]	1741	ENDIF
[785]	1742	IF ( scalar_rayleigh_damping ) rdf_sc = rdf
[1]	1743
	1744	!
[240]	1745	!-- Initialize the starting level and the vertical smoothing factor used for
	1746	!-- the external pressure gradient
[1340]	1747	dp_smooth_factor = 1.0_wp
[240]	1748	IF ( dp_external ) THEN
	1749	!
	1750	!-- Set the starting level dp_level_ind_b only if it has not been set before
	1751	!-- (e.g. in init_grid).
	1752	IF ( dp_level_ind_b == 0 ) THEN
	1753	ind_array = MINLOC( ABS( dp_level_b - zu ) )
	1754	dp_level_ind_b = ind_array(1) - 1 + nzb
	1755	! MINLOC uses lower array bound 1
	1756	ENDIF
	1757	IF ( dp_smooth ) THEN
[1340]	1758	dp_smooth_factor(:dp_level_ind_b) = 0.0_wp
[240]	1759	DO k = dp_level_ind_b+1, nzt
[1340]	1760	dp_smooth_factor(k) = 0.5_wp * ( 1.0_wp + SIN( pi * &
	1761	( REAL( k - dp_level_ind_b, KIND=wp ) / &
	1762	REAL( nzt - dp_level_ind_b, KIND=wp ) - 0.5_wp ) ) )
[240]	1763	ENDDO
	1764	ENDIF
	1765	ENDIF
	1766
	1767	!
[978]	1768	!-- Initialize damping zone for the potential temperature in case of
	1769	!-- non-cyclic lateral boundaries. The damping zone has the maximum value
	1770	!-- at the inflow boundary and decreases to zero at pt_damping_width.
[1340]	1771	ptdf_x = 0.0_wp
	1772	ptdf_y = 0.0_wp
[1159]	1773	IF ( bc_lr_dirrad ) THEN
[996]	1774	DO i = nxl, nxr
[978]	1775	IF ( ( i * dx ) < pt_damping_width ) THEN
[1340]	1776	ptdf_x(i) = pt_damping_factor * ( SIN( pi * 0.5_wp * &
	1777	REAL( pt_damping_width - i * dx, KIND=wp ) / ( &
[1788]	1778	REAL( pt_damping_width, KIND=wp ) ) ) )**2
[73]	1779	ENDIF
	1780	ENDDO
[1159]	1781	ELSEIF ( bc_lr_raddir ) THEN
[996]	1782	DO i = nxl, nxr
[978]	1783	IF ( ( i * dx ) > ( nx * dx - pt_damping_width ) ) THEN
[1322]	1784	ptdf_x(i) = pt_damping_factor * &
[1340]	1785	SIN( pi * 0.5_wp * &
	1786	( ( i - nx ) * dx + pt_damping_width ) / &
	1787	REAL( pt_damping_width, KIND=wp ) )**2
[73]	1788	ENDIF
[978]	1789	ENDDO
[1159]	1790	ELSEIF ( bc_ns_dirrad ) THEN
[996]	1791	DO j = nys, nyn
[978]	1792	IF ( ( j * dy ) > ( ny * dy - pt_damping_width ) ) THEN
[1322]	1793	ptdf_y(j) = pt_damping_factor * &
[1340]	1794	SIN( pi * 0.5_wp * &
	1795	( ( j - ny ) * dy + pt_damping_width ) / &
	1796	REAL( pt_damping_width, KIND=wp ) )**2
[1]	1797	ENDIF
[978]	1798	ENDDO
[1159]	1799	ELSEIF ( bc_ns_raddir ) THEN
[996]	1800	DO j = nys, nyn
[978]	1801	IF ( ( j * dy ) < pt_damping_width ) THEN
[1322]	1802	ptdf_y(j) = pt_damping_factor * &
[1340]	1803	SIN( pi * 0.5_wp * &
	1804	( pt_damping_width - j * dy ) / &
	1805	REAL( pt_damping_width, KIND=wp ) )**2
[1]	1806	ENDIF
[73]	1807	ENDDO
[1]	1808	ENDIF
	1809
	1810	!
[709]	1811	!-- Initialize local summation arrays for routine flow_statistics.
	1812	!-- This is necessary because they may not yet have been initialized when they
	1813	!-- are called from flow_statistics (or - depending on the chosen model run -
	1814	!-- are never initialized)
[1340]	1815	sums_divnew_l = 0.0_wp
	1816	sums_divold_l = 0.0_wp
	1817	sums_l_l = 0.0_wp
	1818	sums_up_fraction_l = 0.0_wp
	1819	sums_wsts_bc_l = 0.0_wp
[1]	1820
	1821	!
	1822	!-- Pre-set masks for regional statistics. Default is the total model domain.
[1015]	1823	!-- Ghost points are excluded because counting values at the ghost boundaries
	1824	!-- would bias the statistics
[1340]	1825	rmask = 1.0_wp
	1826	rmask(:,nxlg:nxl-1,:) = 0.0_wp; rmask(:,nxr+1:nxrg,:) = 0.0_wp
	1827	rmask(nysg:nys-1,:,:) = 0.0_wp; rmask(nyn+1:nyng,:,:) = 0.0_wp
[1]	1828
	1829	!
[51]	1830	!-- User-defined initializing actions. Check afterwards, if maximum number
[709]	1831	!-- of allowed timeseries is exceeded
[1]	1832	CALL user_init
	1833
[51]	1834	IF ( dots_num > dots_max ) THEN
[1788]	1835	WRITE( message_string, * ) 'number of time series quantities exceeds', &
	1836	' its maximum of dots_max = ', dots_max, &
[254]	1837	' &Please increase dots_max in modules.f90.'
	1838	CALL message( 'init_3d_model', 'PA0194', 1, 2, 0, 6, 0 )
[51]	1839	ENDIF
	1840
[1]	1841	!
	1842	!-- Input binary data file is not needed anymore. This line must be placed
	1843	!-- after call of user_init!
	1844	CALL close_file( 13 )
	1845
	1846	!
	1847	!-- Compute total sum of active mask grid points
[1738]	1848	!-- and the mean surface level height for each statistic region
[1]	1849	!-- ngp_2dh: number of grid points of a horizontal cross section through the
	1850	!-- total domain
	1851	!-- ngp_3d: number of grid points of the total domain
[132]	1852	ngp_2dh_outer_l = 0
	1853	ngp_2dh_outer = 0
	1854	ngp_2dh_s_inner_l = 0
	1855	ngp_2dh_s_inner = 0
	1856	ngp_2dh_l = 0
	1857	ngp_2dh = 0
[1340]	1858	ngp_3d_inner_l = 0.0_wp
[132]	1859	ngp_3d_inner = 0
	1860	ngp_3d = 0
	1861	ngp_sums = ( nz + 2 ) * ( pr_palm + max_pr_user )
[1]	1862
[1738]	1863	mean_surface_level_height = 0.0_wp
	1864	mean_surface_level_height_l = 0.0_wp
	1865
[1]	1866	DO sr = 0, statistic_regions
	1867	DO i = nxl, nxr
	1868	DO j = nys, nyn
[1340]	1869	IF ( rmask(j,i,sr) == 1.0_wp ) THEN
[1]	1870	!
	1871	!-- All xy-grid points
	1872	ngp_2dh_l(sr) = ngp_2dh_l(sr) + 1
[1788]	1873	mean_surface_level_height_l(sr) = mean_surface_level_height_l(sr) &
	1874	+ zw(nzb_s_inner(j,i))
[1]	1875	!
	1876	!-- xy-grid points above topography
	1877	DO k = nzb_s_outer(j,i), nz + 1
	1878	ngp_2dh_outer_l(k,sr) = ngp_2dh_outer_l(k,sr) + 1
	1879	ENDDO
[132]	1880	DO k = nzb_s_inner(j,i), nz + 1
	1881	ngp_2dh_s_inner_l(k,sr) = ngp_2dh_s_inner_l(k,sr) + 1
	1882	ENDDO
[1]	1883	!
	1884	!-- All grid points of the total domain above topography
[1788]	1885	ngp_3d_inner_l(sr) = ngp_3d_inner_l(sr) &
	1886	+ ( nz - nzb_s_inner(j,i) + 2 )
[1]	1887	ENDIF
	1888	ENDDO
	1889	ENDDO
	1890	ENDDO
	1891
	1892	sr = statistic_regions + 1
	1893	#if defined( __parallel )
[622]	1894	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	1895	CALL MPI_ALLREDUCE( ngp_2dh_l(0), ngp_2dh(0), sr, MPI_INTEGER, MPI_SUM, &
[1]	1896	comm2d, ierr )
[622]	1897	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	1898	CALL MPI_ALLREDUCE( ngp_2dh_outer_l(0,0), ngp_2dh_outer(0,0), (nz+2)*sr, &
[1]	1899	MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	1900	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	1901	CALL MPI_ALLREDUCE( ngp_2dh_s_inner_l(0,0), ngp_2dh_s_inner(0,0), &
[132]	1902	(nz+2)*sr, MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	1903	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	1904	CALL MPI_ALLREDUCE( ngp_3d_inner_l(0), ngp_3d_inner_tmp(0), sr, MPI_REAL, &
[1]	1905	MPI_SUM, comm2d, ierr )
[485]	1906	ngp_3d_inner = INT( ngp_3d_inner_tmp, KIND = SELECTED_INT_KIND( 18 ) )
[1738]	1907	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	1908	CALL MPI_ALLREDUCE( mean_surface_level_height_l(0), &
	1909	mean_surface_level_height(0), sr, MPI_REAL, &
[1738]	1910	MPI_SUM, comm2d, ierr )
	1911	mean_surface_level_height = mean_surface_level_height / REAL( ngp_2dh )
[1]	1912	#else
[132]	1913	ngp_2dh = ngp_2dh_l
	1914	ngp_2dh_outer = ngp_2dh_outer_l
	1915	ngp_2dh_s_inner = ngp_2dh_s_inner_l
[485]	1916	ngp_3d_inner = INT( ngp_3d_inner_l, KIND = SELECTED_INT_KIND( 18 ) )
[1738]	1917	mean_surface_level_height = mean_surface_level_height_l / REAL( ngp_2dh_l )
[1]	1918	#endif
	1919
[560]	1920	ngp_3d = INT ( ngp_2dh, KIND = SELECTED_INT_KIND( 18 ) ) * &
	1921	INT ( (nz + 2 ), KIND = SELECTED_INT_KIND( 18 ) )
[1]	1922
	1923	!
	1924	!-- Set a lower limit of 1 in order to avoid zero divisions in flow_statistics,
	1925	!-- buoyancy, etc. A zero value will occur for cases where all grid points of
	1926	!-- the respective subdomain lie below the surface topography
[667]	1927	ngp_2dh_outer = MAX( 1, ngp_2dh_outer(:,:) )
[1788]	1928	ngp_3d_inner = MAX( INT(1, KIND = SELECTED_INT_KIND( 18 )), &
[631]	1929	ngp_3d_inner(:) )
[667]	1930	ngp_2dh_s_inner = MAX( 1, ngp_2dh_s_inner(:,:) )
[1]	1931
[1788]	1932	DEALLOCATE( mean_surface_level_height_l, ngp_2dh_l, ngp_2dh_outer_l, &
[1738]	1933	ngp_3d_inner_l, ngp_3d_inner_tmp )
[1]	1934
[1402]	1935	CALL location_message( 'leaving init_3d_model', .TRUE. )
[1]	1936
	1937	END SUBROUTINE init_3d_model

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