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source: palm/trunk/SOURCE/init_3d_model.f90 @ 1215

Last change on this file since 1215 was 1213, checked in by raasch, 11 years ago
last commit documented
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File size: 65.1 KB

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[1]	1	#if defined( __ibmy_special )
	2	@PROCESS NOOPTimize
	3	#endif
	4	SUBROUTINE init_3d_model
	5
[1036]	6	!--------------------------------------------------------------------------------!
	7	! This file is part of PALM.
	8	!
	9	! PALM is free software: you can redistribute it and/or modify it under the terms
	10	! of the GNU General Public License as published by the Free Software Foundation,
	11	! either version 3 of the License, or (at your option) any later version.
	12	!
	13	! PALM is distributed in the hope that it will be useful, but WITHOUT ANY
	14	! WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
	15	! A PARTICULAR PURPOSE. See the GNU General Public License for more details.
	16	!
	17	! You should have received a copy of the GNU General Public License along with
	18	! PALM. If not, see <http://www.gnu.org/licenses/>.
	19	!
	20	! Copyright 1997-2012 Leibniz University Hannover
	21	!--------------------------------------------------------------------------------!
	22	!
[254]	23	! Current revisions:
[732]	24	! ------------------
[1054]	25	!
[1213]	26	!
[1054]	27	! Former revisions:
	28	! -----------------
	29	! $Id: init_3d_model.f90 1213 2013-08-15 09:03:50Z kanani $
	30	!
[1213]	31	! 1212 2013-08-15 08:46:27Z raasch
	32	! array tri is allocated and included in data copy statement
	33	!
[1196]	34	! 1195 2013-07-01 12:27:57Z heinze
	35	! Bugfix: move allocation of ref_state to parin.f90 and read_var_list.f90
	36	!
[1182]	37	! 1179 2013-06-14 05:57:58Z raasch
	38	! allocate and set ref_state to be used in buoyancy terms
	39	!
[1172]	40	! 1171 2013-05-30 11:27:45Z raasch
	41	! diss array is allocated with full size if accelerator boards are used
	42	!
[1160]	43	! 1159 2013-05-21 11:58:22Z fricke
	44	! -bc_lr_dirneu, bc_lr_neudir, bc_ns_dirneu, bc_ns_neudir
	45	!
[1154]	46	! 1153 2013-05-10 14:33:08Z raasch
	47	! diss array is allocated with dummy elements even if it is not needed
[1171]	48	! (required by PGI 13.4 / CUDA 5.0)
[1154]	49	!
[1116]	50	! 1115 2013-03-26 18:16:16Z hoffmann
	51	! unused variables removed
	52	!
[1114]	53	! 1113 2013-03-10 02:48:14Z raasch
	54	! openACC directive modified
	55	!
[1112]	56	! 1111 2013-03-08 23:54:10Z raasch
	57	! openACC directives added for pres
	58	! array diss allocated only if required
	59	!
[1093]	60	! 1092 2013-02-02 11:24:22Z raasch
	61	! unused variables removed
	62	!
[1066]	63	! 1065 2012-11-22 17:42:36Z hoffmann
	64	! allocation of diss (dissipation rate) in case of turbulence = .TRUE. added
	65	!
[1054]	66	! 1053 2012-11-13 17:11:03Z hoffmann
[1053]	67	! allocation and initialisation of necessary data arrays for the two-moment
	68	! cloud physics scheme the two new prognostic equations (nr, qr):
	69	! +dr, lambda_r, mu_r, sed_, xr, s, sws, swst, , _p, t_m, _1, _2, _3,
	70	! +tend_*, prr
[979]	71	!
[1037]	72	! 1036 2012-10-22 13:43:42Z raasch
	73	! code put under GPL (PALM 3.9)
	74	!
[1033]	75	! 1032 2012-10-21 13:03:21Z letzel
	76	! save memory by not allocating pt_2 in case of neutral = .T.
	77	!
[1026]	78	! 1025 2012-10-07 16:04:41Z letzel
	79	! bugfix: swap indices of mask for ghost boundaries
	80	!
[1017]	81	! 1015 2012-09-27 09:23:24Z raasch
	82	! mask is set to zero for ghost boundaries
	83	!
[1011]	84	! 1010 2012-09-20 07:59:54Z raasch
	85	! cpp switch __nopointer added for pointer free version
	86	!
[1004]	87	! 1003 2012-09-14 14:35:53Z raasch
	88	! nxra,nyna, nzta replaced ny nxr, nyn, nzt
	89	!
[1002]	90	! 1001 2012-09-13 14:08:46Z raasch
	91	! all actions concerning leapfrog scheme removed
	92	!
[997]	93	! 996 2012-09-07 10:41:47Z raasch
	94	! little reformatting
	95	!
[979]	96	! 978 2012-08-09 08:28:32Z fricke
[978]	97	! outflow damping layer removed
	98	! roughness length for scalar quantites z0h added
	99	! damping zone for the potential temperatur in case of non-cyclic lateral
	100	! boundaries added
	101	! initialization of ptdf_x, ptdf_y
	102	! initialization of c_u_m, c_u_m_l, c_v_m, c_v_m_l, c_w_m, c_w_m_l
[708]	103	!
[850]	104	! 849 2012-03-15 10:35:09Z raasch
	105	! init_particles renamed lpm_init
	106	!
[826]	107	! 825 2012-02-19 03:03:44Z raasch
	108	! wang_collision_kernel renamed wang_kernel
	109	!
[791]	110	! 790 2011-11-29 03:11:20Z raasch
	111	! diss is also allocated in case that the Wang kernel is used
	112	!
[788]	113	! 787 2011-11-28 12:49:05Z heinze $
	114	! bugfix: call init_advec in every case - not only for inital runs
	115	!
[786]	116	! 785 2011-11-28 09:47:19Z raasch
	117	! initialization of rdf_sc
	118	!
[768]	119	! 767 2011-10-14 06:39:12Z raasch
	120	! adjustments concerning implementation of prescribed u,v-profiles
	121	! bugfix: dirichlet_0 conditions for ug/vg moved to check_parameters
	122	!
[760]	123	! 759 2011-09-15 13:58:31Z raasch
	124	! Splitting of parallel I/O in blocks of PEs
	125	! Bugfix: No zero assignments to volume_flow_initial and volume_flow_area in
	126	! case of normal restart runs.
	127	!
[714]	128	! 713 2011-03-30 14:21:21Z suehring
[732]	129	! weight_substep and weight_pres are given as fractions.
[714]	130	!
[710]	131	! 709 2011-03-30 09:31:40Z raasch
	132	! formatting adjustments
	133	!
[708]	134	! 707 2011-03-29 11:39:40Z raasch
[707]	135	! p_sub renamed p_loc and allocated depending on the chosen pressure solver,
	136	! initial assignments of zero to array p for iterative solvers only,
	137	! bc_lr/ns replaced by bc_lr/ns_dirrad/raddir
[674]	138	!
[708]	139	! 680 2011-02-04 23:16:06Z gryschka
[681]	140	! bugfix: volume_flow_control
[668]	141	!
[674]	142	! 673 2011-01-18 16:19:48Z suehring
	143	! weight_substep (moved from advec_ws) and weight_pres added.
	144	! Allocate p_sub when using Multigrid or SOR solver.
	145	! Call of ws_init moved behind the if requests.
	146	!
[668]	147	! 667 2010-12-23 12:06:00Z suehring/gryschka
[667]	148	! nxl-1, nxr+1, nys-1, nyn+1 replaced by nxlg, nxrg, nysg, nyng in loops and
	149	! allocation of arrays. Calls of exchange_horiz are modified.
[709]	150	! Call ws_init to initialize arrays needed for calculating statisticas and for
[667]	151	! optimization when ws-scheme is used.
	152	! Initial volume flow is now calculated by using the variable hom_sum.
	153	! Therefore the correction of initial volume flow for non-flat topography
	154	! removed (removed u_nzb_p1_for_vfc and v_nzb_p1_for_vfc)
	155	! Changed surface boundary conditions for u and v in case of ibc_uv_b == 0 from
[709]	156	! mirror to Dirichlet boundary conditions (u=v=0), so that k=nzb is
	157	! representative for the height z0.
[667]	158	! Bugfix: type conversion of '1' to 64bit for the MAX function (ngp_3d_inner)
	159	!
[623]	160	! 622 2010-12-10 08:08:13Z raasch
	161	! optional barriers included in order to speed up collective operations
	162	!
[561]	163	! 560 2010-09-09 10:06:09Z weinreis
	164	! bugfix: correction of calculating ngp_3d for 64 bit
	165	!
[486]	166	! 485 2010-02-05 10:57:51Z raasch
	167	! calculation of ngp_3d + ngp_3d_inner changed because they have now 64 bit
	168	!
[482]	169	! 407 2009-12-01 15:01:15Z maronga
	170	! var_ts is replaced by dots_max
	171	! Enabled passive scalar/humidity wall fluxes for non-flat topography
	172	!
[392]	173	! 388 2009-09-23 09:40:33Z raasch
[388]	174	! Initialization of prho added.
[359]	175	! bugfix: correction of initial volume flow for non-flat topography
	176	! bugfix: zero initialization of arrays within buildings for 'cyclic_fill'
[333]	177	! bugfix: avoid that ngp_2dh_s_inner becomes zero
[328]	178	! initializing_actions='read_data_for_recycling' renamed to 'cyclic_fill', now
	179	! independent of turbulent_inflow
[254]	180	! Output of messages replaced by message handling routine.
[240]	181	! Set the starting level and the vertical smoothing factor used for
	182	! the external pressure gradient
[254]	183	! +conserve_volume_flow_mode: 'default', 'initial_profiles', 'inflow_profile'
[241]	184	! and 'bulk_velocity'
[292]	185	! If the inversion height calculated by the prerun is zero,
	186	! inflow_damping_height must be explicitly specified.
[139]	187	!
[198]	188	! 181 2008-07-30 07:07:47Z raasch
	189	! bugfix: zero assignments to tendency arrays in case of restarts,
	190	! further extensions and modifications in the initialisation of the plant
	191	! canopy model,
	192	! allocation of hom_sum moved to parin, initialization of spectrum_x\|y directly
	193	! after allocating theses arrays,
	194	! read data for recycling added as new initialization option,
	195	! dummy allocation for diss
	196	!
[139]	197	! 138 2007-11-28 10:03:58Z letzel
[132]	198	! New counter ngp_2dh_s_inner.
	199	! Allow new case bc_uv_t = 'dirichlet_0' for channel flow.
	200	! Corrected calculation of initial volume flow for 'set_1d-model_profiles' and
	201	! 'set_constant_profiles' in case of buildings in the reference cross-sections.
[77]	202	!
[110]	203	! 108 2007-08-24 15:10:38Z letzel
	204	! Flux initialization in case of coupled runs, +momentum fluxes at top boundary,
	205	! +arrays for phase speed c_u, c_v, c_w, indices for u\|v\|w_m_l\|r changed
	206	! +qswst_remote in case of atmosphere model with humidity coupled to ocean
	207	! Rayleigh damping for ocean, optionally calculate km and kh from initial
	208	! TKE e_init
	209	!
[98]	210	! 97 2007-06-21 08:23:15Z raasch
	211	! Initialization of salinity, call of init_ocean
	212	!
[90]	213	! 87 2007-05-22 15:46:47Z raasch
	214	! var_hom and var_sum renamed pr_palm
	215	!
[77]	216	! 75 2007-03-22 09:54:05Z raasch
[73]	217	! Arrays for radiation boundary conditions are allocated (u_m_l, u_m_r, etc.),
	218	! bugfix for cases with the outflow damping layer extending over more than one
[75]	219	! subdomain, moisture renamed humidity,
	220	! new initializing action "by_user" calls user_init_3d_model,
[72]	221	! precipitation_amount/rate, ts_value are allocated, +module netcdf_control,
[51]	222	! initial velocities at nzb+1 are regarded for volume
	223	! flow control in case they have been set zero before (to avoid small timesteps)
[75]	224	! -uvmean_outflow, uxrp, vynp eliminated
[1]	225	!
[39]	226	! 19 2007-02-23 04:53:48Z raasch
	227	! +handling of top fluxes
	228	!
[3]	229	! RCS Log replace by Id keyword, revision history cleaned up
	230	!
[1]	231	! Revision 1.49 2006/08/22 15:59:07 raasch
	232	! No optimization of this file on the ibmy (Yonsei Univ.)
	233	!
	234	! Revision 1.1 1998/03/09 16:22:22 raasch
	235	! Initial revision
	236	!
	237	!
	238	! Description:
	239	! ------------
	240	! Allocation of arrays and initialization of the 3D model via
	241	! a) pre-run the 1D model
	242	! or
	243	! b) pre-set constant linear profiles
	244	! or
	245	! c) read values of a previous run
	246	!------------------------------------------------------------------------------!
	247
[667]	248	USE advec_ws
[1]	249	USE arrays_3d
	250	USE averaging
[72]	251	USE cloud_parameters
[1]	252	USE constants
	253	USE control_parameters
	254	USE cpulog
[978]	255	USE grid_variables
[1]	256	USE indices
	257	USE interfaces
	258	USE model_1d
[51]	259	USE netcdf_control
[1]	260	USE particle_attributes
	261	USE pegrid
	262	USE profil_parameter
	263	USE random_function_mod
	264	USE statistics
[1111]	265	USE transpose_indices
[1]	266
	267	IMPLICIT NONE
	268
[559]	269	INTEGER :: i, ind_array(1), j, k, sr
[1]	270
[485]	271	INTEGER, DIMENSION(:), ALLOCATABLE :: ngp_2dh_l
[1]	272
[132]	273	INTEGER, DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_outer_l, &
[996]	274	ngp_2dh_s_inner_l
[1]	275
	276	REAL, DIMENSION(1:2) :: volume_flow_area_l, volume_flow_initial_l
	277
[485]	278	REAL, DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_l, ngp_3d_inner_tmp
[1]	279
[485]	280
[1]	281	!
	282	!-- Allocate arrays
	283	ALLOCATE( ngp_2dh(0:statistic_regions), ngp_2dh_l(0:statistic_regions), &
	284	ngp_3d(0:statistic_regions), &
	285	ngp_3d_inner(0:statistic_regions), &
	286	ngp_3d_inner_l(0:statistic_regions), &
[485]	287	ngp_3d_inner_tmp(0:statistic_regions), &
[1]	288	sums_divnew_l(0:statistic_regions), &
	289	sums_divold_l(0:statistic_regions) )
[1195]	290	ALLOCATE( dp_smooth_factor(nzb:nzt), rdf(nzb+1:nzt), rdf_sc(nzb+1:nzt) )
[143]	291	ALLOCATE( ngp_2dh_outer(nzb:nzt+1,0:statistic_regions), &
[1]	292	ngp_2dh_outer_l(nzb:nzt+1,0:statistic_regions), &
[132]	293	ngp_2dh_s_inner(nzb:nzt+1,0:statistic_regions), &
	294	ngp_2dh_s_inner_l(nzb:nzt+1,0:statistic_regions), &
[996]	295	rmask(nysg:nyng,nxlg:nxrg,0:statistic_regions), &
[87]	296	sums(nzb:nzt+1,pr_palm+max_pr_user), &
	297	sums_l(nzb:nzt+1,pr_palm+max_pr_user,0:threads_per_task-1), &
[1]	298	sums_l_l(nzb:nzt+1,0:statistic_regions,0:threads_per_task-1), &
	299	sums_up_fraction_l(10,3,0:statistic_regions), &
[48]	300	sums_wsts_bc_l(nzb:nzt+1,0:statistic_regions), &
[394]	301	ts_value(dots_max,0:statistic_regions) )
[978]	302	ALLOCATE( ptdf_x(nxlg:nxrg), ptdf_y(nysg:nyng) )
[1]	303
[1001]	304	ALLOCATE( rif(nysg:nyng,nxlg:nxrg), shf(nysg:nyng,nxlg:nxrg), &
	305	ts(nysg:nyng,nxlg:nxrg), tswst(nysg:nyng,nxlg:nxrg), &
	306	us(nysg:nyng,nxlg:nxrg), usws(nysg:nyng,nxlg:nxrg), &
	307	uswst(nysg:nyng,nxlg:nxrg), vsws(nysg:nyng,nxlg:nxrg), &
	308	vswst(nysg:nyng,nxlg:nxrg), z0(nysg:nyng,nxlg:nxrg), &
[978]	309	z0h(nysg:nyng,nxlg:nxrg) )
[1]	310
[1010]	311	ALLOCATE( d(nzb+1:nzt,nys:nyn,nxl:nxr), &
	312	kh(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	313	km(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	314	p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	315	tend(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	316
	317	#if defined( __nopointer )
	318	ALLOCATE( e(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	319	e_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	320	pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	321	pt_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	322	u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	323	u_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	324	v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	325	v_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	326	w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	327	w_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	328	te_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	329	tpt_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	330	tu_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	331	tv_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	332	tw_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	333	#else
	334	ALLOCATE( e_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	335	e_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	336	e_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	337	pt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	338	pt_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	339	u_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	340	u_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	341	u_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	342	v_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	343	v_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	344	v_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	345	w_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	346	w_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	347	w_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1032]	348	IF ( .NOT. neutral ) THEN
	349	ALLOCATE( pt_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	350	ENDIF
[1010]	351	#endif
	352
[673]	353	!
[707]	354	!-- Following array is required for perturbation pressure within the iterative
	355	!-- pressure solvers. For the multistep schemes (Runge-Kutta), array p holds
	356	!-- the weighted average of the substeps and cannot be used in the Poisson
	357	!-- solver.
	358	IF ( psolver == 'sor' ) THEN
	359	ALLOCATE( p_loc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	360	ELSEIF ( psolver == 'multigrid' ) THEN
	361	!
	362	!-- For performance reasons, multigrid is using one ghost layer only
	363	ALLOCATE( p_loc(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
[673]	364	ENDIF
[1]	365
[1111]	366	!
	367	!-- Array for storing constant coeffficients of the tridiagonal solver
	368	IF ( psolver == 'poisfft' ) THEN
[1212]	369	ALLOCATE( tri(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1,2) )
[1111]	370	ALLOCATE( tric(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1) )
	371	ENDIF
	372
[75]	373	IF ( humidity .OR. passive_scalar ) THEN
[1]	374	!
[75]	375	!-- 2D-humidity/scalar arrays
[1001]	376	ALLOCATE ( qs(nysg:nyng,nxlg:nxrg), &
	377	qsws(nysg:nyng,nxlg:nxrg), &
	378	qswst(nysg:nyng,nxlg:nxrg) )
[1]	379
	380	!
[75]	381	!-- 3D-humidity/scalar arrays
[1010]	382	#if defined( __nopointer )
	383	ALLOCATE( q(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	384	q_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	385	tq_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	386	#else
[667]	387	ALLOCATE( q_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	388	q_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	389	q_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	390	#endif
[1]	391
	392	!
[75]	393	!-- 3D-arrays needed for humidity only
	394	IF ( humidity ) THEN
[1010]	395	#if defined( __nopointer )
	396	ALLOCATE( vpt(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	397	#else
[667]	398	ALLOCATE( vpt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	399	#endif
[1]	400
	401	IF ( cloud_physics ) THEN
[1053]	402
[1]	403	!
	404	!-- Liquid water content
[1010]	405	#if defined( __nopointer )
	406	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	407	#else
[667]	408	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	409	#endif
[72]	410	!
	411	!-- Precipitation amount and rate (only needed if output is switched)
[667]	412	ALLOCATE( precipitation_amount(nysg:nyng,nxlg:nxrg), &
	413	precipitation_rate(nysg:nyng,nxlg:nxrg) )
[1053]	414
	415	IF ( icloud_scheme == 0 ) THEN
	416	!
[1115]	417	!-- 1D-arrays
	418	ALLOCATE ( nc_1d(nzb:nzt+1), pt_1d(nzb:nzt+1), &
	419	q_1d(nzb:nzt+1), qc_1d(nzb:nzt+1) )
[1053]	420	!
[1115]	421	!-- 3D-cloud water content
[1053]	422	#if defined( __nopointer )
[1115]	423	ALLOCATE( qc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	424	#else
[1115]	425	ALLOCATE( qc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	426	#endif
	427	!
	428	!-- 3D-tendency arrays
[1115]	429	ALLOCATE( tend_pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	430	tend_q(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	431
	432	IF ( precipitation ) THEN
[1053]	433	!
[1115]	434	!-- 1D-arrays
	435	ALLOCATE ( nr_1d(nzb:nzt+1), qr_1d(nzb:nzt+1) )
	436	!
	437	!
	438	!-- 3D-tendency arrays
	439	ALLOCATE( tend_nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	440	tend_qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	441	!
	442	!-- 2D-rain water content and rain drop concentration arrays
	443	ALLOCATE ( qrs(nysg:nyng,nxlg:nxrg), &
	444	qrsws(nysg:nyng,nxlg:nxrg), &
	445	qrswst(nysg:nyng,nxlg:nxrg), &
	446	nrs(nysg:nyng,nxlg:nxrg), &
	447	nrsws(nysg:nyng,nxlg:nxrg), &
	448	nrswst(nysg:nyng,nxlg:nxrg) )
	449	!
	450	!-- 3D-rain water content, rain drop concentration arrays
	451	#if defined( __nopointer )
	452	ALLOCATE( nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	453	nr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	454	qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	455	qr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	456	tnr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	457	tqr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	458	#else
	459	ALLOCATE( nr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	460	nr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	461	nr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	462	qr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	463	qr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	464	qr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	465	#endif
	466	!
	467	!-- 3d-precipitation rate
[1053]	468	ALLOCATE( prr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	469	ENDIF
	470
	471	ENDIF
[1]	472	ENDIF
	473
	474	IF ( cloud_droplets ) THEN
	475	!
[1010]	476	!-- Liquid water content, change in liquid water content
	477	#if defined( __nopointer )
	478	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	479	ql_c(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	480	#else
[667]	481	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	482	ql_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	483	#endif
	484	!
	485	!-- Real volume of particles (with weighting), volume of particles
	486	ALLOCATE ( ql_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	487	ql_vp(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	488	ENDIF
	489
	490	ENDIF
	491
	492	ENDIF
	493
[94]	494	IF ( ocean ) THEN
[1001]	495	ALLOCATE( saswsb(nysg:nyng,nxlg:nxrg), &
	496	saswst(nysg:nyng,nxlg:nxrg) )
[1010]	497	#if defined( __nopointer )
	498	ALLOCATE( prho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	499	rho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	500	sa(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	501	sa_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	502	tsa_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	503	#else
[667]	504	ALLOCATE( prho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	505	rho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	506	sa_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	507	sa_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	508	sa_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[388]	509	prho => prho_1
	510	rho => rho_1 ! routines calc_mean_profile and diffusion_e require
	511	! density to be apointer
[1010]	512	#endif
[108]	513	IF ( humidity_remote ) THEN
[667]	514	ALLOCATE( qswst_remote(nysg:nyng,nxlg:nxrg))
[108]	515	qswst_remote = 0.0
	516	ENDIF
[94]	517	ENDIF
	518
[1]	519	!
	520	!-- 3D-array for storing the dissipation, needed for calculating the sgs
	521	!-- particle velocities
[1171]	522	IF ( use_sgs_for_particles .OR. wang_kernel .OR. turbulence .OR. &
	523	num_acc_per_node > 0 ) THEN
[1153]	524	ALLOCATE( diss(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	525	ENDIF
	526
	527	IF ( dt_dosp /= 9999999.9 ) THEN
	528	ALLOCATE( spectrum_x( 1:nx/2, 1:10, 1:10 ), &
	529	spectrum_y( 1:ny/2, 1:10, 1:10 ) )
[146]	530	spectrum_x = 0.0
	531	spectrum_y = 0.0
[1]	532	ENDIF
	533
	534	!
[138]	535	!-- 3D-arrays for the leaf area density and the canopy drag coefficient
	536	IF ( plant_canopy ) THEN
[667]	537	ALLOCATE ( lad_s(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	538	lad_u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	539	lad_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	540	lad_w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	541	cdc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[153]	542
	543	IF ( passive_scalar ) THEN
[996]	544	ALLOCATE ( sls(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	545	sec(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[153]	546	ENDIF
	547
	548	IF ( cthf /= 0.0 ) THEN
[996]	549	ALLOCATE ( lai(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	550	canopy_heat_flux(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[153]	551	ENDIF
	552
[138]	553	ENDIF
	554
	555	!
[51]	556	!-- 4D-array for storing the Rif-values at vertical walls
	557	IF ( topography /= 'flat' ) THEN
[667]	558	ALLOCATE( rif_wall(nzb:nzt+1,nysg:nyng,nxlg:nxrg,1:4) )
[51]	559	rif_wall = 0.0
	560	ENDIF
	561
	562	!
[106]	563	!-- Arrays to store velocity data from t-dt and the phase speeds which
	564	!-- are needed for radiation boundary conditions
[73]	565	IF ( outflow_l ) THEN
[667]	566	ALLOCATE( u_m_l(nzb:nzt+1,nysg:nyng,1:2), &
	567	v_m_l(nzb:nzt+1,nysg:nyng,0:1), &
	568	w_m_l(nzb:nzt+1,nysg:nyng,0:1) )
[73]	569	ENDIF
	570	IF ( outflow_r ) THEN
[667]	571	ALLOCATE( u_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	572	v_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	573	w_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx) )
[73]	574	ENDIF
[106]	575	IF ( outflow_l .OR. outflow_r ) THEN
[667]	576	ALLOCATE( c_u(nzb:nzt+1,nysg:nyng), c_v(nzb:nzt+1,nysg:nyng), &
	577	c_w(nzb:nzt+1,nysg:nyng) )
[106]	578	ENDIF
[73]	579	IF ( outflow_s ) THEN
[667]	580	ALLOCATE( u_m_s(nzb:nzt+1,0:1,nxlg:nxrg), &
	581	v_m_s(nzb:nzt+1,1:2,nxlg:nxrg), &
	582	w_m_s(nzb:nzt+1,0:1,nxlg:nxrg) )
[73]	583	ENDIF
	584	IF ( outflow_n ) THEN
[667]	585	ALLOCATE( u_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	586	v_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	587	w_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg) )
[73]	588	ENDIF
[106]	589	IF ( outflow_s .OR. outflow_n ) THEN
[667]	590	ALLOCATE( c_u(nzb:nzt+1,nxlg:nxrg), c_v(nzb:nzt+1,nxlg:nxrg), &
	591	c_w(nzb:nzt+1,nxlg:nxrg) )
[106]	592	ENDIF
[996]	593	IF ( outflow_l .OR. outflow_r .OR. outflow_s .OR. outflow_n ) THEN
[978]	594	ALLOCATE( c_u_m_l(nzb:nzt+1), c_v_m_l(nzb:nzt+1), c_w_m_l(nzb:nzt+1) )
	595	ALLOCATE( c_u_m(nzb:nzt+1), c_v_m(nzb:nzt+1), c_w_m(nzb:nzt+1) )
	596	ENDIF
[73]	597
[978]	598
[1010]	599	#if ! defined( __nopointer )
[73]	600	!
[1]	601	!-- Initial assignment of the pointers
[1001]	602	e => e_1; e_p => e_2; te_m => e_3
[1032]	603	IF ( .NOT. neutral ) THEN
	604	pt => pt_1; pt_p => pt_2; tpt_m => pt_3
	605	ELSE
	606	pt => pt_1; pt_p => pt_1; tpt_m => pt_3
	607	ENDIF
[1001]	608	u => u_1; u_p => u_2; tu_m => u_3
	609	v => v_1; v_p => v_2; tv_m => v_3
	610	w => w_1; w_p => w_2; tw_m => w_3
[1]	611
[1001]	612	IF ( humidity .OR. passive_scalar ) THEN
	613	q => q_1; q_p => q_2; tq_m => q_3
[1053]	614	IF ( humidity ) THEN
	615	vpt => vpt_1
	616	IF ( cloud_physics ) THEN
	617	ql => ql_1
	618	IF ( icloud_scheme == 0 ) THEN
[1115]	619	qc => qc_1
	620	IF ( precipitation ) THEN
	621	qr => qr_1; qr_p => qr_2; tqr_m => qr_3
	622	nr => nr_1; nr_p => nr_2; tnr_m => nr_3
	623	ENDIF
[1053]	624	ENDIF
	625	ENDIF
	626	ENDIF
[1001]	627	IF ( cloud_droplets ) THEN
	628	ql => ql_1
	629	ql_c => ql_2
[1]	630	ENDIF
[1001]	631	ENDIF
[1]	632
[1001]	633	IF ( ocean ) THEN
	634	sa => sa_1; sa_p => sa_2; tsa_m => sa_3
	635	ENDIF
[1010]	636	#endif
[1]	637
	638	!
[709]	639	!-- Allocate arrays containing the RK coefficient for calculation of
	640	!-- perturbation pressure and turbulent fluxes. At this point values are
	641	!-- set for pressure calculation during initialization (where no timestep
	642	!-- is done). Further below the values needed within the timestep scheme
	643	!-- will be set.
	644	ALLOCATE( weight_substep(1:intermediate_timestep_count_max), &
[673]	645	weight_pres(1:intermediate_timestep_count_max) )
[709]	646	weight_substep = 1.0
	647	weight_pres = 1.0
	648	intermediate_timestep_count = 1 ! needed when simulated_time = 0.0
[673]	649
	650	!
[1]	651	!-- Initialize model variables
[147]	652	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[328]	653	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
[1]	654	!
	655	!-- First model run of a possible job queue.
	656	!-- Initial profiles of the variables must be computes.
	657	IF ( INDEX( initializing_actions, 'set_1d-model_profiles' ) /= 0 ) THEN
	658	!
	659	!-- Use solutions of the 1D model as initial profiles,
	660	!-- start 1D model
	661	CALL init_1d_model
	662	!
	663	!-- Transfer initial profiles to the arrays of the 3D model
[667]	664	DO i = nxlg, nxrg
	665	DO j = nysg, nyng
[1]	666	e(:,j,i) = e1d
	667	kh(:,j,i) = kh1d
	668	km(:,j,i) = km1d
	669	pt(:,j,i) = pt_init
	670	u(:,j,i) = u1d
	671	v(:,j,i) = v1d
	672	ENDDO
	673	ENDDO
	674
[75]	675	IF ( humidity .OR. passive_scalar ) THEN
[667]	676	DO i = nxlg, nxrg
	677	DO j = nysg, nyng
[1]	678	q(:,j,i) = q_init
	679	ENDDO
	680	ENDDO
[1115]	681	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	682	precipitation ) THEN
[1053]	683	DO i = nxlg, nxrg
	684	DO j = nysg, nyng
[1115]	685	qr(:,j,i) = 0.0
	686	nr(:,j,i) = 0.0
[1053]	687	ENDDO
	688	ENDDO
[1115]	689	!
	690	!-- Initialze nc_1d with default value
	691	nc_1d(:) = nc_const
	692
[1053]	693	ENDIF
[1]	694	ENDIF
	695
	696	IF ( .NOT. constant_diffusion ) THEN
[667]	697	DO i = nxlg, nxrg
	698	DO j = nysg, nyng
[1]	699	e(:,j,i) = e1d
	700	ENDDO
	701	ENDDO
	702	!
	703	!-- Store initial profiles for output purposes etc.
	704	hom(:,1,25,:) = SPREAD( l1d, 2, statistic_regions+1 )
	705
	706	IF ( prandtl_layer ) THEN
	707	rif = rif1d(nzb+1)
	708	ts = 0.0 ! could actually be computed more accurately in the
	709	! 1D model. Update when opportunity arises.
	710	us = us1d
	711	usws = usws1d
	712	vsws = vsws1d
	713	ELSE
	714	ts = 0.0 ! must be set, because used in
	715	rif = 0.0 ! flowste
	716	us = 0.0
	717	usws = 0.0
	718	vsws = 0.0
	719	ENDIF
	720
	721	ELSE
	722	e = 0.0 ! must be set, because used in
	723	rif = 0.0 ! flowste
	724	ts = 0.0
	725	us = 0.0
	726	usws = 0.0
	727	vsws = 0.0
	728	ENDIF
[102]	729	uswst = top_momentumflux_u
	730	vswst = top_momentumflux_v
[1]	731
	732	!
	733	!-- In every case qs = 0.0 (see also pt)
	734	!-- This could actually be computed more accurately in the 1D model.
	735	!-- Update when opportunity arises!
[1053]	736	IF ( humidity .OR. passive_scalar ) THEN
	737	qs = 0.0
[1115]	738	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	739	precipitation ) THEN
[1053]	740	qrs = 0.0
	741	nrs = 0.0
	742	ENDIF
	743	ENDIF
[1]	744
	745	!
	746	!-- inside buildings set velocities back to zero
	747	IF ( topography /= 'flat' ) THEN
	748	DO i = nxl-1, nxr+1
	749	DO j = nys-1, nyn+1
	750	u(nzb:nzb_u_inner(j,i),j,i) = 0.0
	751	v(nzb:nzb_v_inner(j,i),j,i) = 0.0
	752	ENDDO
	753	ENDDO
[667]	754
[1]	755	!
	756	!-- WARNING: The extra boundary conditions set after running the
	757	!-- ------- 1D model impose an error on the divergence one layer
	758	!-- below the topography; need to correct later
	759	!-- ATTENTION: Provisional correction for Piacsek & Williams
	760	!-- --------- advection scheme: keep u and v zero one layer below
	761	!-- the topography.
[667]	762	IF ( ibc_uv_b == 1 ) THEN
	763	!
[1]	764	!-- Neumann condition
	765	DO i = nxl-1, nxr+1
	766	DO j = nys-1, nyn+1
	767	IF ( nzb_u_inner(j,i) == 0 ) u(0,j,i) = u(1,j,i)
	768	IF ( nzb_v_inner(j,i) == 0 ) v(0,j,i) = v(1,j,i)
	769	ENDDO
	770	ENDDO
	771
	772	ENDIF
	773
	774	ENDIF
	775
	776	ELSEIF ( INDEX(initializing_actions, 'set_constant_profiles') /= 0 ) &
	777	THEN
	778	!
	779	!-- Use constructed initial profiles (velocity constant with height,
	780	!-- temperature profile with constant gradient)
[667]	781	DO i = nxlg, nxrg
	782	DO j = nysg, nyng
[1]	783	pt(:,j,i) = pt_init
	784	u(:,j,i) = u_init
	785	v(:,j,i) = v_init
	786	ENDDO
	787	ENDDO
[75]	788
[1]	789	!
[292]	790	!-- Set initial horizontal velocities at the lowest computational grid
	791	!-- levels to zero in order to avoid too small time steps caused by the
	792	!-- diffusion limit in the initial phase of a run (at k=1, dz/2 occurs
	793	!-- in the limiting formula!). The original values are stored to be later
	794	!-- used for volume flow control.
[667]	795	DO i = nxlg, nxrg
	796	DO j = nysg, nyng
[1]	797	u(nzb:nzb_u_inner(j,i)+1,j,i) = 0.0
	798	v(nzb:nzb_v_inner(j,i)+1,j,i) = 0.0
	799	ENDDO
	800	ENDDO
	801
[75]	802	IF ( humidity .OR. passive_scalar ) THEN
[667]	803	DO i = nxlg, nxrg
	804	DO j = nysg, nyng
[1]	805	q(:,j,i) = q_init
	806	ENDDO
	807	ENDDO
[1115]	808	IF ( cloud_physics .AND. icloud_scheme == 0 ) THEN
	809	!
	810	!-- Initialze nc_1d with default value
	811	nc_1d(:) = nc_const
	812
	813	IF ( precipitation ) THEN
	814	DO i = nxlg, nxrg
	815	DO j = nysg, nyng
	816	qr(:,j,i) = 0.0
	817	nr(:,j,i) = 0.0
	818	ENDDO
[1053]	819	ENDDO
[1115]	820	ENDIF
	821
[1053]	822	ENDIF
[1]	823	ENDIF
	824
[94]	825	IF ( ocean ) THEN
[667]	826	DO i = nxlg, nxrg
	827	DO j = nysg, nyng
[94]	828	sa(:,j,i) = sa_init
	829	ENDDO
	830	ENDDO
	831	ENDIF
[1]	832
	833	IF ( constant_diffusion ) THEN
	834	km = km_constant
	835	kh = km / prandtl_number
[108]	836	e = 0.0
	837	ELSEIF ( e_init > 0.0 ) THEN
	838	DO k = nzb+1, nzt
	839	km(k,:,:) = 0.1 * l_grid(k) * SQRT( e_init )
	840	ENDDO
	841	km(nzb,:,:) = km(nzb+1,:,:)
	842	km(nzt+1,:,:) = km(nzt,:,:)
	843	kh = km / prandtl_number
	844	e = e_init
[1]	845	ELSE
[108]	846	IF ( .NOT. ocean ) THEN
	847	kh = 0.01 ! there must exist an initial diffusion, because
	848	km = 0.01 ! otherwise no TKE would be produced by the
	849	! production terms, as long as not yet
	850	! e = (u/cm)*2 at k=nzb+1
	851	ELSE
	852	kh = 0.00001
	853	km = 0.00001
	854	ENDIF
	855	e = 0.0
[1]	856	ENDIF
[102]	857	rif = 0.0
	858	ts = 0.0
	859	us = 0.0
	860	usws = 0.0
	861	uswst = top_momentumflux_u
	862	vsws = 0.0
	863	vswst = top_momentumflux_v
[75]	864	IF ( humidity .OR. passive_scalar ) qs = 0.0
[1]	865
	866	!
	867	!-- Compute initial temperature field and other constants used in case
	868	!-- of a sloping surface
	869	IF ( sloping_surface ) CALL init_slope
	870
[46]	871	ELSEIF ( INDEX(initializing_actions, 'by_user') /= 0 ) &
	872	THEN
	873	!
	874	!-- Initialization will completely be done by the user
	875	CALL user_init_3d_model
	876
[1]	877	ENDIF
[667]	878	!
	879	!-- Bottom boundary
	880	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2 ) THEN
	881	u(nzb,:,:) = 0.0
	882	v(nzb,:,:) = 0.0
	883	ENDIF
[1]	884
	885	!
[151]	886	!-- Apply channel flow boundary condition
[132]	887	IF ( TRIM( bc_uv_t ) == 'dirichlet_0' ) THEN
	888	u(nzt+1,:,:) = 0.0
	889	v(nzt+1,:,:) = 0.0
	890	ENDIF
	891
	892	!
[1]	893	!-- Calculate virtual potential temperature
[75]	894	IF ( humidity ) vpt = pt * ( 1.0 + 0.61 * q )
[1]	895
	896	!
	897	!-- Store initial profiles for output purposes etc.
	898	hom(:,1,5,:) = SPREAD( u(:,nys,nxl), 2, statistic_regions+1 )
	899	hom(:,1,6,:) = SPREAD( v(:,nys,nxl), 2, statistic_regions+1 )
[667]	900	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2) THEN
	901	hom(nzb,1,5,:) = 0.0
	902	hom(nzb,1,6,:) = 0.0
[1]	903	ENDIF
	904	hom(:,1,7,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	905	hom(:,1,23,:) = SPREAD( km(:,nys,nxl), 2, statistic_regions+1 )
	906	hom(:,1,24,:) = SPREAD( kh(:,nys,nxl), 2, statistic_regions+1 )
	907
[97]	908	IF ( ocean ) THEN
	909	!
	910	!-- Store initial salinity profile
	911	hom(:,1,26,:) = SPREAD( sa(:,nys,nxl), 2, statistic_regions+1 )
	912	ENDIF
[1]	913
[75]	914	IF ( humidity ) THEN
[1]	915	!
	916	!-- Store initial profile of total water content, virtual potential
	917	!-- temperature
	918	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	919	hom(:,1,29,:) = SPREAD( vpt(:,nys,nxl), 2, statistic_regions+1 )
	920	IF ( cloud_physics .OR. cloud_droplets ) THEN
	921	!
	922	!-- Store initial profile of specific humidity and potential
	923	!-- temperature
	924	hom(:,1,27,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	925	hom(:,1,28,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	926	ENDIF
	927	ENDIF
	928
	929	IF ( passive_scalar ) THEN
	930	!
	931	!-- Store initial scalar profile
	932	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	933	ENDIF
	934
	935	!
[19]	936	!-- Initialize fluxes at bottom surface
[1]	937	IF ( use_surface_fluxes ) THEN
	938
	939	IF ( constant_heatflux ) THEN
	940	!
	941	!-- Heat flux is prescribed
	942	IF ( random_heatflux ) THEN
	943	CALL disturb_heatflux
	944	ELSE
	945	shf = surface_heatflux
	946	!
	947	!-- Over topography surface_heatflux is replaced by wall_heatflux(0)
	948	IF ( TRIM( topography ) /= 'flat' ) THEN
[667]	949	DO i = nxlg, nxrg
	950	DO j = nysg, nyng
[1]	951	IF ( nzb_s_inner(j,i) /= 0 ) THEN
	952	shf(j,i) = wall_heatflux(0)
	953	ENDIF
	954	ENDDO
	955	ENDDO
	956	ENDIF
	957	ENDIF
	958	ENDIF
	959
	960	!
	961	!-- Determine the near-surface water flux
[75]	962	IF ( humidity .OR. passive_scalar ) THEN
[1115]	963	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	964	precipitation ) THEN
	965	qrsws = 0.0
	966	nrsws = 0.0
[1053]	967	ENDIF
[1]	968	IF ( constant_waterflux ) THEN
	969	qsws = surface_waterflux
[407]	970	!
	971	!-- Over topography surface_waterflux is replaced by
	972	!-- wall_humidityflux(0)
	973	IF ( TRIM( topography ) /= 'flat' ) THEN
	974	wall_qflux = wall_humidityflux
[667]	975	DO i = nxlg, nxrg
	976	DO j = nysg, nyng
[407]	977	IF ( nzb_s_inner(j,i) /= 0 ) THEN
	978	qsws(j,i) = wall_qflux(0)
	979	ENDIF
	980	ENDDO
	981	ENDDO
	982	ENDIF
[1]	983	ENDIF
	984	ENDIF
	985
	986	ENDIF
	987
	988	!
[19]	989	!-- Initialize fluxes at top surface
[94]	990	!-- Currently, only the heatflux and salinity flux can be prescribed.
	991	!-- The latent flux is zero in this case!
[19]	992	IF ( use_top_fluxes ) THEN
	993
	994	IF ( constant_top_heatflux ) THEN
	995	!
	996	!-- Heat flux is prescribed
	997	tswst = top_heatflux
	998
[1053]	999	IF ( humidity .OR. passive_scalar ) THEN
	1000	qswst = 0.0
[1115]	1001	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1002	precipitation ) THEN
[1053]	1003	nrswst = 0.0
	1004	qrswst = 0.0
	1005	ENDIF
	1006	ENDIF
[94]	1007
	1008	IF ( ocean ) THEN
[95]	1009	saswsb = bottom_salinityflux
[94]	1010	saswst = top_salinityflux
	1011	ENDIF
[102]	1012	ENDIF
[19]	1013
[102]	1014	!
	1015	!-- Initialization in case of a coupled model run
	1016	IF ( coupling_mode == 'ocean_to_atmosphere' ) THEN
	1017	tswst = 0.0
	1018	ENDIF
	1019
[19]	1020	ENDIF
	1021
	1022	!
[1]	1023	!-- Initialize Prandtl layer quantities
	1024	IF ( prandtl_layer ) THEN
	1025
	1026	z0 = roughness_length
[978]	1027	z0h = z0h_factor * z0
[1]	1028
	1029	IF ( .NOT. constant_heatflux ) THEN
	1030	!
	1031	!-- Surface temperature is prescribed. Here the heat flux cannot be
	1032	!-- simply estimated, because therefore rif, u* and theta* would have
	1033	!-- to be computed by iteration. This is why the heat flux is assumed
	1034	!-- to be zero before the first time step. It approaches its correct
	1035	!-- value in the course of the first few time steps.
	1036	shf = 0.0
	1037	ENDIF
	1038
[75]	1039	IF ( humidity .OR. passive_scalar ) THEN
[1001]	1040	IF ( .NOT. constant_waterflux ) qsws = 0.0
[1115]	1041	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1042	precipitation ) THEN
	1043	qrsws = 0.0
	1044	nrsws = 0.0
[1053]	1045	ENDIF
[1]	1046	ENDIF
	1047
	1048	ENDIF
	1049
[1179]	1050	!
	1051	!-- Set the reference state to be used in the buoyancy terms (for ocean runs
	1052	!-- the reference state will be set (overwritten) in init_ocean)
	1053	IF ( use_single_reference_value ) THEN
	1054	IF ( .NOT. humidity ) THEN
	1055	ref_state(:) = pt_reference
	1056	ELSE
	1057	ref_state(:) = vpt_reference
	1058	ENDIF
	1059	ELSE
	1060	IF ( .NOT. humidity ) THEN
	1061	ref_state(:) = pt_init(:)
	1062	ELSE
	1063	ref_state(:) = vpt(:,nys,nxl)
	1064	ENDIF
	1065	ENDIF
[152]	1066
	1067	!
[707]	1068	!-- For the moment, vertical velocity is zero
	1069	w = 0.0
[1]	1070
	1071	!
	1072	!-- Initialize array sums (must be defined in first call of pres)
	1073	sums = 0.0
	1074
	1075	!
[707]	1076	!-- In case of iterative solvers, p must get an initial value
	1077	IF ( psolver == 'multigrid' .OR. psolver == 'sor' ) p = 0.0
	1078
	1079	!
[72]	1080	!-- Treating cloud physics, liquid water content and precipitation amount
	1081	!-- are zero at beginning of the simulation
	1082	IF ( cloud_physics ) THEN
	1083	ql = 0.0
	1084	IF ( precipitation ) precipitation_amount = 0.0
[1115]	1085	IF ( icloud_scheme == 0 ) THEN
	1086	qc = 0.0
	1087	nc_1d = nc_const
	1088	ENDIF
[72]	1089	ENDIF
[673]	1090	!
[1]	1091	!-- Impose vortex with vertical axis on the initial velocity profile
	1092	IF ( INDEX( initializing_actions, 'initialize_vortex' ) /= 0 ) THEN
	1093	CALL init_rankine
	1094	ENDIF
	1095
	1096	!
	1097	!-- Impose temperature anomaly (advection test only)
	1098	IF ( INDEX( initializing_actions, 'initialize_ptanom' ) /= 0 ) THEN
	1099	CALL init_pt_anomaly
	1100	ENDIF
	1101
	1102	!
	1103	!-- If required, change the surface temperature at the start of the 3D run
	1104	IF ( pt_surface_initial_change /= 0.0 ) THEN
	1105	pt(nzb,:,:) = pt(nzb,:,:) + pt_surface_initial_change
	1106	ENDIF
	1107
	1108	!
	1109	!-- If required, change the surface humidity/scalar at the start of the 3D
	1110	!-- run
[75]	1111	IF ( ( humidity .OR. passive_scalar ) .AND. &
[1]	1112	q_surface_initial_change /= 0.0 ) THEN
	1113	q(nzb,:,:) = q(nzb,:,:) + q_surface_initial_change
	1114	ENDIF
	1115	!
	1116	!-- Initialize the random number generator (from numerical recipes)
	1117	CALL random_function_ini
	1118
	1119	!
	1120	!-- Initialize old and new time levels.
[1001]	1121	te_m = 0.0; tpt_m = 0.0; tu_m = 0.0; tv_m = 0.0; tw_m = 0.0
[1]	1122	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
	1123
[75]	1124	IF ( humidity .OR. passive_scalar ) THEN
[1001]	1125	tq_m = 0.0
[1]	1126	q_p = q
[1115]	1127	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1128	precipitation ) THEN
[1053]	1129	tqr_m = 0.0
	1130	qr_p = qr
	1131	tnr_m = 0.0
	1132	nr_p = nr
	1133	ENDIF
[1]	1134	ENDIF
	1135
[94]	1136	IF ( ocean ) THEN
	1137	tsa_m = 0.0
	1138	sa_p = sa
	1139	ENDIF
[667]	1140
[94]	1141
[147]	1142	ELSEIF ( TRIM( initializing_actions ) == 'read_restart_data' .OR. &
[667]	1143	TRIM( initializing_actions ) == 'cyclic_fill' ) &
[1]	1144	THEN
	1145	!
[767]	1146	!-- When reading data for cyclic fill of 3D prerun data files, read
	1147	!-- some of the global variables from the restart file which are required
	1148	!-- for initializing the inflow
[328]	1149	IF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
[559]	1150
[759]	1151	DO i = 0, io_blocks-1
	1152	IF ( i == io_group ) THEN
	1153	CALL read_parts_of_var_list
	1154	CALL close_file( 13 )
	1155	ENDIF
	1156	#if defined( __parallel )
	1157	CALL MPI_BARRIER( comm2d, ierr )
	1158	#endif
	1159	ENDDO
[328]	1160
[767]	1161	ENDIF
	1162
[151]	1163	!
[767]	1164	!-- Read binary data from restart file
	1165	DO i = 0, io_blocks-1
	1166	IF ( i == io_group ) THEN
	1167	CALL read_3d_binary
	1168	ENDIF
	1169	#if defined( __parallel )
	1170	CALL MPI_BARRIER( comm2d, ierr )
	1171	#endif
	1172	ENDDO
	1173
[328]	1174	!
[767]	1175	!-- Initialization of the turbulence recycling method
	1176	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
	1177	turbulent_inflow ) THEN
	1178	!
	1179	!-- First store the profiles to be used at the inflow.
	1180	!-- These profiles are the (temporally) and horizontally averaged vertical
	1181	!-- profiles from the prerun. Alternatively, prescribed profiles
	1182	!-- for u,v-components can be used.
	1183	ALLOCATE( mean_inflow_profiles(nzb:nzt+1,5) )
[151]	1184
[767]	1185	IF ( use_prescribed_profile_data ) THEN
	1186	mean_inflow_profiles(:,1) = u_init ! u
	1187	mean_inflow_profiles(:,2) = v_init ! v
	1188	ELSE
[328]	1189	mean_inflow_profiles(:,1) = hom_sum(:,1,0) ! u
	1190	mean_inflow_profiles(:,2) = hom_sum(:,2,0) ! v
[767]	1191	ENDIF
	1192	mean_inflow_profiles(:,4) = hom_sum(:,4,0) ! pt
	1193	mean_inflow_profiles(:,5) = hom_sum(:,8,0) ! e
[151]	1194
	1195	!
[767]	1196	!-- If necessary, adjust the horizontal flow field to the prescribed
	1197	!-- profiles
	1198	IF ( use_prescribed_profile_data ) THEN
	1199	DO i = nxlg, nxrg
[667]	1200	DO j = nysg, nyng
[328]	1201	DO k = nzb, nzt+1
[767]	1202	u(k,j,i) = u(k,j,i) - hom_sum(k,1,0) + u_init(k)
	1203	v(k,j,i) = v(k,j,i) - hom_sum(k,2,0) + v_init(k)
[328]	1204	ENDDO
[151]	1205	ENDDO
[767]	1206	ENDDO
	1207	ENDIF
[151]	1208
	1209	!
[767]	1210	!-- Use these mean profiles at the inflow (provided that Dirichlet
	1211	!-- conditions are used)
	1212	IF ( inflow_l ) THEN
	1213	DO j = nysg, nyng
	1214	DO k = nzb, nzt+1
	1215	u(k,j,nxlg:-1) = mean_inflow_profiles(k,1)
	1216	v(k,j,nxlg:-1) = mean_inflow_profiles(k,2)
	1217	w(k,j,nxlg:-1) = 0.0
	1218	pt(k,j,nxlg:-1) = mean_inflow_profiles(k,4)
	1219	e(k,j,nxlg:-1) = mean_inflow_profiles(k,5)
	1220	ENDDO
	1221	ENDDO
	1222	ENDIF
	1223
[151]	1224	!
[767]	1225	!-- Calculate the damping factors to be used at the inflow. For a
	1226	!-- turbulent inflow the turbulent fluctuations have to be limited
	1227	!-- vertically because otherwise the turbulent inflow layer will grow
	1228	!-- in time.
	1229	IF ( inflow_damping_height == 9999999.9 ) THEN
	1230	!
	1231	!-- Default: use the inversion height calculated by the prerun; if
	1232	!-- this is zero, inflow_damping_height must be explicitly
	1233	!-- specified.
	1234	IF ( hom_sum(nzb+6,pr_palm,0) /= 0.0 ) THEN
	1235	inflow_damping_height = hom_sum(nzb+6,pr_palm,0)
	1236	ELSE
	1237	WRITE( message_string, * ) 'inflow_damping_height must be ',&
	1238	'explicitly specified because&the inversion height ', &
	1239	'calculated by the prerun is zero.'
	1240	CALL message( 'init_3d_model', 'PA0318', 1, 2, 0, 6, 0 )
[292]	1241	ENDIF
[151]	1242
[767]	1243	ENDIF
	1244
	1245	IF ( inflow_damping_width == 9999999.9 ) THEN
[151]	1246	!
[767]	1247	!-- Default for the transition range: one tenth of the undamped
	1248	!-- layer
	1249	inflow_damping_width = 0.1 * inflow_damping_height
[151]	1250
[767]	1251	ENDIF
[151]	1252
[767]	1253	ALLOCATE( inflow_damping_factor(nzb:nzt+1) )
[151]	1254
[767]	1255	DO k = nzb, nzt+1
[151]	1256
[767]	1257	IF ( zu(k) <= inflow_damping_height ) THEN
	1258	inflow_damping_factor(k) = 1.0
[996]	1259	ELSEIF ( zu(k) <= ( inflow_damping_height + inflow_damping_width ) ) THEN
	1260	inflow_damping_factor(k) = 1.0 - &
	1261	( zu(k) - inflow_damping_height ) / &
	1262	inflow_damping_width
[767]	1263	ELSE
	1264	inflow_damping_factor(k) = 0.0
	1265	ENDIF
[151]	1266
[767]	1267	ENDDO
[151]	1268
[147]	1269	ENDIF
	1270
[152]	1271	!
[359]	1272	!-- Inside buildings set velocities and TKE back to zero
	1273	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
	1274	topography /= 'flat' ) THEN
	1275	!
	1276	!-- Inside buildings set velocities and TKE back to zero.
	1277	!-- Other scalars (pt, q, s, km, kh, p, sa, ...) are ignored at present,
	1278	!-- maybe revise later.
[1001]	1279	DO i = nxlg, nxrg
	1280	DO j = nysg, nyng
	1281	u (nzb:nzb_u_inner(j,i),j,i) = 0.0
	1282	v (nzb:nzb_v_inner(j,i),j,i) = 0.0
	1283	w (nzb:nzb_w_inner(j,i),j,i) = 0.0
	1284	e (nzb:nzb_w_inner(j,i),j,i) = 0.0
	1285	tu_m(nzb:nzb_u_inner(j,i),j,i) = 0.0
	1286	tv_m(nzb:nzb_v_inner(j,i),j,i) = 0.0
	1287	tw_m(nzb:nzb_w_inner(j,i),j,i) = 0.0
	1288	te_m(nzb:nzb_w_inner(j,i),j,i) = 0.0
	1289	tpt_m(nzb:nzb_w_inner(j,i),j,i) = 0.0
[359]	1290	ENDDO
[1001]	1291	ENDDO
[359]	1292
	1293	ENDIF
	1294
	1295	!
[1]	1296	!-- Calculate initial temperature field and other constants used in case
	1297	!-- of a sloping surface
	1298	IF ( sloping_surface ) CALL init_slope
	1299
	1300	!
	1301	!-- Initialize new time levels (only done in order to set boundary values
	1302	!-- including ghost points)
	1303	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
[1053]	1304	IF ( humidity .OR. passive_scalar ) THEN
	1305	q_p = q
[1115]	1306	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1307	precipitation ) THEN
[1053]	1308	qr_p = qr
	1309	nr_p = nr
	1310	ENDIF
	1311	ENDIF
[94]	1312	IF ( ocean ) sa_p = sa
[1]	1313
[181]	1314	!
	1315	!-- Allthough tendency arrays are set in prognostic_equations, they have
	1316	!-- have to be predefined here because they are used (but multiplied with 0)
	1317	!-- there before they are set.
[1001]	1318	te_m = 0.0; tpt_m = 0.0; tu_m = 0.0; tv_m = 0.0; tw_m = 0.0
[1053]	1319	IF ( humidity .OR. passive_scalar ) THEN
	1320	tq_m = 0.0
[1115]	1321	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1322	precipitation ) THEN
[1053]	1323	tqr_m = 0.0
	1324	tnr_m = 0.0
	1325	ENDIF
	1326	ENDIF
[1001]	1327	IF ( ocean ) tsa_m = 0.0
[181]	1328
[1]	1329	ELSE
	1330	!
	1331	!-- Actually this part of the programm should not be reached
[254]	1332	message_string = 'unknown initializing problem'
	1333	CALL message( 'init_3d_model', 'PA0193', 1, 2, 0, 6, 0 )
[1]	1334	ENDIF
	1335
[151]	1336
	1337	IF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
[1]	1338	!
[151]	1339	!-- Initialize old timelevels needed for radiation boundary conditions
	1340	IF ( outflow_l ) THEN
	1341	u_m_l(:,:,:) = u(:,:,1:2)
	1342	v_m_l(:,:,:) = v(:,:,0:1)
	1343	w_m_l(:,:,:) = w(:,:,0:1)
	1344	ENDIF
	1345	IF ( outflow_r ) THEN
	1346	u_m_r(:,:,:) = u(:,:,nx-1:nx)
	1347	v_m_r(:,:,:) = v(:,:,nx-1:nx)
	1348	w_m_r(:,:,:) = w(:,:,nx-1:nx)
	1349	ENDIF
	1350	IF ( outflow_s ) THEN
	1351	u_m_s(:,:,:) = u(:,0:1,:)
	1352	v_m_s(:,:,:) = v(:,1:2,:)
	1353	w_m_s(:,:,:) = w(:,0:1,:)
	1354	ENDIF
	1355	IF ( outflow_n ) THEN
	1356	u_m_n(:,:,:) = u(:,ny-1:ny,:)
	1357	v_m_n(:,:,:) = v(:,ny-1:ny,:)
	1358	w_m_n(:,:,:) = w(:,ny-1:ny,:)
	1359	ENDIF
[667]	1360
[151]	1361	ENDIF
[680]	1362
[667]	1363	!
	1364	!-- Calculate the initial volume flow at the right and north boundary
[709]	1365	IF ( conserve_volume_flow ) THEN
[151]	1366
[767]	1367	IF ( use_prescribed_profile_data ) THEN
[667]	1368
[732]	1369	volume_flow_initial_l = 0.0
	1370	volume_flow_area_l = 0.0
	1371
[667]	1372	IF ( nxr == nx ) THEN
	1373	DO j = nys, nyn
[709]	1374	DO k = nzb_2d(j,nx)+1, nzt
[667]	1375	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[767]	1376	u_init(k) * dzw(k)
	1377	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1378	ENDDO
	1379	ENDDO
	1380	ENDIF
	1381
	1382	IF ( nyn == ny ) THEN
	1383	DO i = nxl, nxr
	1384	DO k = nzb_2d(ny,i)+1, nzt
	1385	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1386	v_init(k) * dzw(k)
	1387	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1388	ENDDO
	1389	ENDDO
	1390	ENDIF
	1391
	1392	#if defined( __parallel )
	1393	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1394	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1395	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1396	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1397
	1398	#else
	1399	volume_flow_initial = volume_flow_initial_l
	1400	volume_flow_area = volume_flow_area_l
	1401	#endif
	1402
	1403	ELSEIF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
	1404
	1405	volume_flow_initial_l = 0.0
	1406	volume_flow_area_l = 0.0
	1407
	1408	IF ( nxr == nx ) THEN
	1409	DO j = nys, nyn
	1410	DO k = nzb_2d(j,nx)+1, nzt
	1411	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[667]	1412	hom_sum(k,1,0) * dzw(k)
	1413	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1414	ENDDO
	1415	ENDDO
	1416	ENDIF
	1417
	1418	IF ( nyn == ny ) THEN
	1419	DO i = nxl, nxr
[709]	1420	DO k = nzb_2d(ny,i)+1, nzt
[667]	1421	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[709]	1422	hom_sum(k,2,0) * dzw(k)
[667]	1423	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1424	ENDDO
	1425	ENDDO
	1426	ENDIF
	1427
[732]	1428	#if defined( __parallel )
	1429	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1430	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1431	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1432	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1433
	1434	#else
	1435	volume_flow_initial = volume_flow_initial_l
	1436	volume_flow_area = volume_flow_area_l
	1437	#endif
	1438
[667]	1439	ELSEIF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
	1440
[732]	1441	volume_flow_initial_l = 0.0
	1442	volume_flow_area_l = 0.0
	1443
[667]	1444	IF ( nxr == nx ) THEN
	1445	DO j = nys, nyn
[709]	1446	DO k = nzb_2d(j,nx)+1, nzt
[667]	1447	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[709]	1448	u(k,j,nx) * dzw(k)
[667]	1449	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1450	ENDDO
	1451	ENDDO
	1452	ENDIF
	1453
	1454	IF ( nyn == ny ) THEN
	1455	DO i = nxl, nxr
[709]	1456	DO k = nzb_2d(ny,i)+1, nzt
[667]	1457	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1458	v(k,ny,i) * dzw(k)
	1459	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1460	ENDDO
	1461	ENDDO
	1462	ENDIF
	1463
	1464	#if defined( __parallel )
[732]	1465	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1466	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1467	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1468	2, MPI_REAL, MPI_SUM, comm2d, ierr )
[667]	1469
	1470	#else
[732]	1471	volume_flow_initial = volume_flow_initial_l
	1472	volume_flow_area = volume_flow_area_l
[667]	1473	#endif
	1474
[732]	1475	ENDIF
	1476
[151]	1477	!
[709]	1478	!-- In case of 'bulk_velocity' mode, volume_flow_initial is calculated
	1479	!-- from u\|v_bulk instead
[680]	1480	IF ( TRIM( conserve_volume_flow_mode ) == 'bulk_velocity' ) THEN
	1481	volume_flow_initial(1) = u_bulk * volume_flow_area(1)
	1482	volume_flow_initial(2) = v_bulk * volume_flow_area(2)
	1483	ENDIF
[667]	1484
[680]	1485	ENDIF
	1486
[787]	1487	!
	1488	!-- Initialize quantities for special advections schemes
	1489	CALL init_advec
[680]	1490
[667]	1491	!
[680]	1492	!-- Impose random perturbation on the horizontal velocity field and then
	1493	!-- remove the divergences from the velocity field at the initial stage
	1494	IF ( create_disturbances .AND. &
	1495	TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
	1496	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1497
	1498	CALL disturb_field( nzb_u_inner, tend, u )
	1499	CALL disturb_field( nzb_v_inner, tend, v )
	1500	n_sor = nsor_ini
[1212]	1501	!$acc data copy( d, ddzu, ddzw, nzb_s_inner, nzb_u_inner, nzb_v_inner, nzb_w_inner, p, tri, tric, u, v, w, weight_pres, weight_substep, tend )
[680]	1502	CALL pres
[1111]	1503	!$acc end data
[680]	1504	n_sor = nsor
	1505	ENDIF
	1506
	1507	!
[138]	1508	!-- Initialization of the leaf area density
[709]	1509	IF ( plant_canopy ) THEN
[138]	1510
	1511	SELECT CASE ( TRIM( canopy_mode ) )
	1512
	1513	CASE( 'block' )
	1514
[667]	1515	DO i = nxlg, nxrg
	1516	DO j = nysg, nyng
[138]	1517	lad_s(:,j,i) = lad(:)
	1518	cdc(:,j,i) = drag_coefficient
[709]	1519	IF ( passive_scalar ) THEN
[153]	1520	sls(:,j,i) = leaf_surface_concentration
	1521	sec(:,j,i) = scalar_exchange_coefficient
	1522	ENDIF
[138]	1523	ENDDO
	1524	ENDDO
	1525
	1526	CASE DEFAULT
	1527
	1528	!
	1529	!-- The DEFAULT case is reached either if the parameter
	1530	!-- canopy mode contains a wrong character string or if the
	1531	!-- user has coded a special case in the user interface.
	1532	!-- There, the subroutine user_init_plant_canopy checks
	1533	!-- which of these two conditions applies.
	1534	CALL user_init_plant_canopy
	1535
	1536	END SELECT
	1537
[667]	1538	CALL exchange_horiz( lad_s, nbgp )
	1539	CALL exchange_horiz( cdc, nbgp )
[138]	1540
[709]	1541	IF ( passive_scalar ) THEN
[667]	1542	CALL exchange_horiz( sls, nbgp )
	1543	CALL exchange_horiz( sec, nbgp )
[153]	1544	ENDIF
	1545
	1546	!
	1547	!-- Sharp boundaries of the plant canopy in horizontal directions
	1548	!-- In vertical direction the interpolation is retained, as the leaf
	1549	!-- area density is initialised by prescribing a vertical profile
	1550	!-- consisting of piecewise linear segments. The upper boundary
	1551	!-- of the plant canopy is now defined by lad_w(pch_index,:,:) = 0.0.
	1552
[138]	1553	DO i = nxl, nxr
	1554	DO j = nys, nyn
	1555	DO k = nzb, nzt+1
[709]	1556	IF ( lad_s(k,j,i) > 0.0 ) THEN
[153]	1557	lad_u(k,j,i) = lad_s(k,j,i)
	1558	lad_u(k,j,i+1) = lad_s(k,j,i)
	1559	lad_v(k,j,i) = lad_s(k,j,i)
	1560	lad_v(k,j+1,i) = lad_s(k,j,i)
	1561	ENDIF
[138]	1562	ENDDO
	1563	DO k = nzb, nzt
	1564	lad_w(k,j,i) = 0.5 * ( lad_s(k+1,j,i) + lad_s(k,j,i) )
	1565	ENDDO
	1566	ENDDO
	1567	ENDDO
	1568
[153]	1569	lad_w(pch_index,:,:) = 0.0
	1570	lad_w(nzt+1,:,:) = lad_w(nzt,:,:)
[138]	1571
[667]	1572	CALL exchange_horiz( lad_u, nbgp )
	1573	CALL exchange_horiz( lad_v, nbgp )
	1574	CALL exchange_horiz( lad_w, nbgp )
[153]	1575
	1576	!
	1577	!-- Initialisation of the canopy heat source distribution
[709]	1578	IF ( cthf /= 0.0 ) THEN
[153]	1579	!
	1580	!-- Piecewise evaluation of the leaf area index by
	1581	!-- integration of the leaf area density
	1582	lai(:,:,:) = 0.0
[667]	1583	DO i = nxlg, nxrg
	1584	DO j = nysg, nyng
[153]	1585	DO k = pch_index-1, 0, -1
	1586	lai(k,j,i) = lai(k+1,j,i) + &
	1587	( 0.5 * ( lad_w(k+1,j,i) + &
	1588	lad_s(k+1,j,i) ) * &
	1589	( zw(k+1) - zu(k+1) ) ) + &
	1590	( 0.5 * ( lad_w(k,j,i) + &
	1591	lad_s(k+1,j,i) ) * &
	1592	( zu(k+1) - zw(k) ) )
	1593	ENDDO
	1594	ENDDO
	1595	ENDDO
	1596
	1597	!
	1598	!-- Evaluation of the upward kinematic vertical heat flux within the
	1599	!-- canopy
[667]	1600	DO i = nxlg, nxrg
	1601	DO j = nysg, nyng
[153]	1602	DO k = 0, pch_index
	1603	canopy_heat_flux(k,j,i) = cthf * &
	1604	exp( -0.6 * lai(k,j,i) )
	1605	ENDDO
	1606	ENDDO
	1607	ENDDO
	1608
	1609	!
	1610	!-- The near surface heat flux is derived from the heat flux
	1611	!-- distribution within the canopy
	1612	shf(:,:) = canopy_heat_flux(0,:,:)
	1613
	1614	ENDIF
	1615
[138]	1616	ENDIF
	1617
	1618	!
[1]	1619	!-- If required, initialize dvrp-software
	1620	IF ( dt_dvrp /= 9999999.9 ) CALL init_dvrp
	1621
[96]	1622	IF ( ocean ) THEN
[1]	1623	!
[96]	1624	!-- Initialize quantities needed for the ocean model
	1625	CALL init_ocean
[388]	1626
[96]	1627	ELSE
	1628	!
	1629	!-- Initialize quantities for handling cloud physics
[849]	1630	!-- This routine must be called before lpm_init, because
[96]	1631	!-- otherwise, array pt_d_t, needed in data_output_dvrp (called by
[849]	1632	!-- lpm_init) is not defined.
[96]	1633	CALL init_cloud_physics
	1634	ENDIF
[1]	1635
	1636	!
	1637	!-- If required, initialize particles
[849]	1638	IF ( particle_advection ) CALL lpm_init
[1]	1639
	1640	!
[673]	1641	!-- Initialize the ws-scheme.
	1642	IF ( ws_scheme_sca .OR. ws_scheme_mom ) CALL ws_init
[1]	1643
	1644	!
[709]	1645	!-- Setting weighting factors for calculation of perturbation pressure
	1646	!-- and turbulent quantities from the RK substeps
	1647	IF ( TRIM(timestep_scheme) == 'runge-kutta-3' ) THEN ! for RK3-method
	1648
[713]	1649	weight_substep(1) = 1./6.
	1650	weight_substep(2) = 3./10.
	1651	weight_substep(3) = 8./15.
[709]	1652
[713]	1653	weight_pres(1) = 1./3.
	1654	weight_pres(2) = 5./12.
	1655	weight_pres(3) = 1./4.
[709]	1656
	1657	ELSEIF ( TRIM(timestep_scheme) == 'runge-kutta-2' ) THEN ! for RK2-method
	1658
[713]	1659	weight_substep(1) = 1./2.
	1660	weight_substep(2) = 1./2.
[673]	1661
[713]	1662	weight_pres(1) = 1./2.
	1663	weight_pres(2) = 1./2.
[709]	1664
[1001]	1665	ELSE ! for Euler-method
[709]	1666
[673]	1667	weight_substep(1) = 1.0
[709]	1668	weight_pres(1) = 1.0
	1669
[673]	1670	ENDIF
	1671
	1672	!
[1]	1673	!-- Initialize Rayleigh damping factors
[785]	1674	rdf = 0.0
	1675	rdf_sc = 0.0
[1]	1676	IF ( rayleigh_damping_factor /= 0.0 ) THEN
[108]	1677	IF ( .NOT. ocean ) THEN
	1678	DO k = nzb+1, nzt
	1679	IF ( zu(k) >= rayleigh_damping_height ) THEN
	1680	rdf(k) = rayleigh_damping_factor * &
[1]	1681	( SIN( pi * 0.5 * ( zu(k) - rayleigh_damping_height ) &
	1682	/ ( zu(nzt) - rayleigh_damping_height ) )&
	1683	)**2
[108]	1684	ENDIF
	1685	ENDDO
	1686	ELSE
	1687	DO k = nzt, nzb+1, -1
	1688	IF ( zu(k) <= rayleigh_damping_height ) THEN
	1689	rdf(k) = rayleigh_damping_factor * &
	1690	( SIN( pi * 0.5 * ( rayleigh_damping_height - zu(k) ) &
	1691	/ ( rayleigh_damping_height - zu(nzb+1)))&
	1692	)**2
	1693	ENDIF
	1694	ENDDO
	1695	ENDIF
[1]	1696	ENDIF
[785]	1697	IF ( scalar_rayleigh_damping ) rdf_sc = rdf
[1]	1698
	1699	!
[240]	1700	!-- Initialize the starting level and the vertical smoothing factor used for
	1701	!-- the external pressure gradient
	1702	dp_smooth_factor = 1.0
	1703	IF ( dp_external ) THEN
	1704	!
	1705	!-- Set the starting level dp_level_ind_b only if it has not been set before
	1706	!-- (e.g. in init_grid).
	1707	IF ( dp_level_ind_b == 0 ) THEN
	1708	ind_array = MINLOC( ABS( dp_level_b - zu ) )
	1709	dp_level_ind_b = ind_array(1) - 1 + nzb
	1710	! MINLOC uses lower array bound 1
	1711	ENDIF
	1712	IF ( dp_smooth ) THEN
	1713	dp_smooth_factor(:dp_level_ind_b) = 0.0
	1714	DO k = dp_level_ind_b+1, nzt
	1715	dp_smooth_factor(k) = 0.5 * ( 1.0 + SIN( pi * &
	1716	( REAL( k - dp_level_ind_b ) / &
	1717	REAL( nzt - dp_level_ind_b ) - 0.5 ) ) )
	1718	ENDDO
	1719	ENDIF
	1720	ENDIF
	1721
	1722	!
[978]	1723	!-- Initialize damping zone for the potential temperature in case of
	1724	!-- non-cyclic lateral boundaries. The damping zone has the maximum value
	1725	!-- at the inflow boundary and decreases to zero at pt_damping_width.
	1726	ptdf_x = 0.0
	1727	ptdf_y = 0.0
[1159]	1728	IF ( bc_lr_dirrad ) THEN
[996]	1729	DO i = nxl, nxr
[978]	1730	IF ( ( i * dx ) < pt_damping_width ) THEN
	1731	ptdf_x(i) = pt_damping_factor * ( SIN( pi * 0.5 * &
	1732	REAL( pt_damping_width - i * dx ) / ( &
	1733	REAL( pt_damping_width ) ) ) )**2
[73]	1734	ENDIF
	1735	ENDDO
[1159]	1736	ELSEIF ( bc_lr_raddir ) THEN
[996]	1737	DO i = nxl, nxr
[978]	1738	IF ( ( i * dx ) > ( nx * dx - pt_damping_width ) ) THEN
[996]	1739	ptdf_x(i) = pt_damping_factor * &
	1740	SIN( pi * 0.5 * ( ( i - nx ) * dx + pt_damping_width ) / &
	1741	REAL( pt_damping_width ) )**2
[73]	1742	ENDIF
[978]	1743	ENDDO
[1159]	1744	ELSEIF ( bc_ns_dirrad ) THEN
[996]	1745	DO j = nys, nyn
[978]	1746	IF ( ( j * dy ) > ( ny * dy - pt_damping_width ) ) THEN
[996]	1747	ptdf_y(j) = pt_damping_factor * &
	1748	SIN( pi * 0.5 * ( ( j - ny ) * dy + pt_damping_width ) / &
	1749	REAL( pt_damping_width ) )**2
[1]	1750	ENDIF
[978]	1751	ENDDO
[1159]	1752	ELSEIF ( bc_ns_raddir ) THEN
[996]	1753	DO j = nys, nyn
[978]	1754	IF ( ( j * dy ) < pt_damping_width ) THEN
[996]	1755	ptdf_y(j) = pt_damping_factor * &
	1756	SIN( pi * 0.5 * ( pt_damping_width - j * dy ) / &
	1757	REAL( pt_damping_width ) )**2
[1]	1758	ENDIF
[73]	1759	ENDDO
[1]	1760	ENDIF
	1761
	1762	!
[709]	1763	!-- Initialize local summation arrays for routine flow_statistics.
	1764	!-- This is necessary because they may not yet have been initialized when they
	1765	!-- are called from flow_statistics (or - depending on the chosen model run -
	1766	!-- are never initialized)
[1]	1767	sums_divnew_l = 0.0
	1768	sums_divold_l = 0.0
	1769	sums_l_l = 0.0
	1770	sums_up_fraction_l = 0.0
	1771	sums_wsts_bc_l = 0.0
	1772
	1773	!
	1774	!-- Pre-set masks for regional statistics. Default is the total model domain.
[1015]	1775	!-- Ghost points are excluded because counting values at the ghost boundaries
	1776	!-- would bias the statistics
[1]	1777	rmask = 1.0
[1025]	1778	rmask(:,nxlg:nxl-1,:) = 0.0; rmask(:,nxr+1:nxrg,:) = 0.0
	1779	rmask(nysg:nys-1,:,:) = 0.0; rmask(nyn+1:nyng,:,:) = 0.0
[1]	1780
	1781	!
[51]	1782	!-- User-defined initializing actions. Check afterwards, if maximum number
[709]	1783	!-- of allowed timeseries is exceeded
[1]	1784	CALL user_init
	1785
[51]	1786	IF ( dots_num > dots_max ) THEN
[254]	1787	WRITE( message_string, * ) 'number of time series quantities exceeds', &
[274]	1788	' its maximum of dots_max = ', dots_max, &
[254]	1789	' &Please increase dots_max in modules.f90.'
	1790	CALL message( 'init_3d_model', 'PA0194', 1, 2, 0, 6, 0 )
[51]	1791	ENDIF
	1792
[1]	1793	!
	1794	!-- Input binary data file is not needed anymore. This line must be placed
	1795	!-- after call of user_init!
	1796	CALL close_file( 13 )
	1797
	1798	!
	1799	!-- Compute total sum of active mask grid points
	1800	!-- ngp_2dh: number of grid points of a horizontal cross section through the
	1801	!-- total domain
	1802	!-- ngp_3d: number of grid points of the total domain
[132]	1803	ngp_2dh_outer_l = 0
	1804	ngp_2dh_outer = 0
	1805	ngp_2dh_s_inner_l = 0
	1806	ngp_2dh_s_inner = 0
	1807	ngp_2dh_l = 0
	1808	ngp_2dh = 0
[485]	1809	ngp_3d_inner_l = 0.0
[132]	1810	ngp_3d_inner = 0
	1811	ngp_3d = 0
	1812	ngp_sums = ( nz + 2 ) * ( pr_palm + max_pr_user )
[1]	1813
	1814	DO sr = 0, statistic_regions
	1815	DO i = nxl, nxr
	1816	DO j = nys, nyn
	1817	IF ( rmask(j,i,sr) == 1.0 ) THEN
	1818	!
	1819	!-- All xy-grid points
	1820	ngp_2dh_l(sr) = ngp_2dh_l(sr) + 1
	1821	!
	1822	!-- xy-grid points above topography
	1823	DO k = nzb_s_outer(j,i), nz + 1
	1824	ngp_2dh_outer_l(k,sr) = ngp_2dh_outer_l(k,sr) + 1
	1825	ENDDO
[132]	1826	DO k = nzb_s_inner(j,i), nz + 1
	1827	ngp_2dh_s_inner_l(k,sr) = ngp_2dh_s_inner_l(k,sr) + 1
	1828	ENDDO
[1]	1829	!
	1830	!-- All grid points of the total domain above topography
	1831	ngp_3d_inner_l(sr) = ngp_3d_inner_l(sr) + &
	1832	( nz - nzb_s_inner(j,i) + 2 )
	1833	ENDIF
	1834	ENDDO
	1835	ENDDO
	1836	ENDDO
	1837
	1838	sr = statistic_regions + 1
	1839	#if defined( __parallel )
[622]	1840	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1841	CALL MPI_ALLREDUCE( ngp_2dh_l(0), ngp_2dh(0), sr, MPI_INTEGER, MPI_SUM, &
[1]	1842	comm2d, ierr )
[622]	1843	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1844	CALL MPI_ALLREDUCE( ngp_2dh_outer_l(0,0), ngp_2dh_outer(0,0), (nz+2)*sr, &
[1]	1845	MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	1846	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1847	CALL MPI_ALLREDUCE( ngp_2dh_s_inner_l(0,0), ngp_2dh_s_inner(0,0), &
[132]	1848	(nz+2)*sr, MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	1849	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1850	CALL MPI_ALLREDUCE( ngp_3d_inner_l(0), ngp_3d_inner_tmp(0), sr, MPI_REAL, &
[1]	1851	MPI_SUM, comm2d, ierr )
[485]	1852	ngp_3d_inner = INT( ngp_3d_inner_tmp, KIND = SELECTED_INT_KIND( 18 ) )
[1]	1853	#else
[132]	1854	ngp_2dh = ngp_2dh_l
	1855	ngp_2dh_outer = ngp_2dh_outer_l
	1856	ngp_2dh_s_inner = ngp_2dh_s_inner_l
[485]	1857	ngp_3d_inner = INT( ngp_3d_inner_l, KIND = SELECTED_INT_KIND( 18 ) )
[1]	1858	#endif
	1859
[560]	1860	ngp_3d = INT ( ngp_2dh, KIND = SELECTED_INT_KIND( 18 ) ) * &
	1861	INT ( (nz + 2 ), KIND = SELECTED_INT_KIND( 18 ) )
[1]	1862
	1863	!
	1864	!-- Set a lower limit of 1 in order to avoid zero divisions in flow_statistics,
	1865	!-- buoyancy, etc. A zero value will occur for cases where all grid points of
	1866	!-- the respective subdomain lie below the surface topography
[667]	1867	ngp_2dh_outer = MAX( 1, ngp_2dh_outer(:,:) )
[631]	1868	ngp_3d_inner = MAX( INT(1, KIND = SELECTED_INT_KIND( 18 )), &
	1869	ngp_3d_inner(:) )
[667]	1870	ngp_2dh_s_inner = MAX( 1, ngp_2dh_s_inner(:,:) )
[1]	1871
[485]	1872	DEALLOCATE( ngp_2dh_l, ngp_2dh_outer_l, ngp_3d_inner_l, ngp_3d_inner_tmp )
[1]	1873
	1874
	1875	END SUBROUTINE init_3d_model

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