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source: palm/trunk/SOURCE/init_3d_model.f90 @ 1903

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

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