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source: palm/trunk/SOURCE/init_3d_model.f90 @ 1230

Last change on this file since 1230 was 1222, checked in by raasch, 11 years ago
last commit documented
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File size: 65.4 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	!
[1222]	26	!
[1054]	27	! Former revisions:
	28	! -----------------
	29	! $Id: init_3d_model.f90 1222 2013-09-10 14:48:09Z raasch $
	30	!
[1222]	31	! 1221 2013-09-10 08:59:13Z raasch
	32	! +rflags_s_inner in copyin statement, use copyin for most arrays instead of
	33	! copy
	34	!
[1213]	35	! 1212 2013-08-15 08:46:27Z raasch
	36	! array tri is allocated and included in data copy statement
	37	!
[1196]	38	! 1195 2013-07-01 12:27:57Z heinze
	39	! Bugfix: move allocation of ref_state to parin.f90 and read_var_list.f90
	40	!
[1182]	41	! 1179 2013-06-14 05:57:58Z raasch
	42	! allocate and set ref_state to be used in buoyancy terms
	43	!
[1172]	44	! 1171 2013-05-30 11:27:45Z raasch
	45	! diss array is allocated with full size if accelerator boards are used
	46	!
[1160]	47	! 1159 2013-05-21 11:58:22Z fricke
	48	! -bc_lr_dirneu, bc_lr_neudir, bc_ns_dirneu, bc_ns_neudir
	49	!
[1154]	50	! 1153 2013-05-10 14:33:08Z raasch
	51	! diss array is allocated with dummy elements even if it is not needed
[1171]	52	! (required by PGI 13.4 / CUDA 5.0)
[1154]	53	!
[1116]	54	! 1115 2013-03-26 18:16:16Z hoffmann
	55	! unused variables removed
	56	!
[1114]	57	! 1113 2013-03-10 02:48:14Z raasch
	58	! openACC directive modified
	59	!
[1112]	60	! 1111 2013-03-08 23:54:10Z raasch
	61	! openACC directives added for pres
	62	! array diss allocated only if required
	63	!
[1093]	64	! 1092 2013-02-02 11:24:22Z raasch
	65	! unused variables removed
	66	!
[1066]	67	! 1065 2012-11-22 17:42:36Z hoffmann
	68	! allocation of diss (dissipation rate) in case of turbulence = .TRUE. added
	69	!
[1054]	70	! 1053 2012-11-13 17:11:03Z hoffmann
[1053]	71	! allocation and initialisation of necessary data arrays for the two-moment
	72	! cloud physics scheme the two new prognostic equations (nr, qr):
	73	! +dr, lambda_r, mu_r, sed_, xr, s, sws, swst, , _p, t_m, _1, _2, _3,
	74	! +tend_*, prr
[979]	75	!
[1037]	76	! 1036 2012-10-22 13:43:42Z raasch
	77	! code put under GPL (PALM 3.9)
	78	!
[1033]	79	! 1032 2012-10-21 13:03:21Z letzel
	80	! save memory by not allocating pt_2 in case of neutral = .T.
	81	!
[1026]	82	! 1025 2012-10-07 16:04:41Z letzel
	83	! bugfix: swap indices of mask for ghost boundaries
	84	!
[1017]	85	! 1015 2012-09-27 09:23:24Z raasch
	86	! mask is set to zero for ghost boundaries
	87	!
[1011]	88	! 1010 2012-09-20 07:59:54Z raasch
	89	! cpp switch __nopointer added for pointer free version
	90	!
[1004]	91	! 1003 2012-09-14 14:35:53Z raasch
	92	! nxra,nyna, nzta replaced ny nxr, nyn, nzt
	93	!
[1002]	94	! 1001 2012-09-13 14:08:46Z raasch
	95	! all actions concerning leapfrog scheme removed
	96	!
[997]	97	! 996 2012-09-07 10:41:47Z raasch
	98	! little reformatting
	99	!
[979]	100	! 978 2012-08-09 08:28:32Z fricke
[978]	101	! outflow damping layer removed
	102	! roughness length for scalar quantites z0h added
	103	! damping zone for the potential temperatur in case of non-cyclic lateral
	104	! boundaries added
	105	! initialization of ptdf_x, ptdf_y
	106	! initialization of c_u_m, c_u_m_l, c_v_m, c_v_m_l, c_w_m, c_w_m_l
[708]	107	!
[850]	108	! 849 2012-03-15 10:35:09Z raasch
	109	! init_particles renamed lpm_init
	110	!
[826]	111	! 825 2012-02-19 03:03:44Z raasch
	112	! wang_collision_kernel renamed wang_kernel
	113	!
[791]	114	! 790 2011-11-29 03:11:20Z raasch
	115	! diss is also allocated in case that the Wang kernel is used
	116	!
[788]	117	! 787 2011-11-28 12:49:05Z heinze $
	118	! bugfix: call init_advec in every case - not only for inital runs
	119	!
[786]	120	! 785 2011-11-28 09:47:19Z raasch
	121	! initialization of rdf_sc
	122	!
[768]	123	! 767 2011-10-14 06:39:12Z raasch
	124	! adjustments concerning implementation of prescribed u,v-profiles
	125	! bugfix: dirichlet_0 conditions for ug/vg moved to check_parameters
	126	!
[760]	127	! 759 2011-09-15 13:58:31Z raasch
	128	! Splitting of parallel I/O in blocks of PEs
	129	! Bugfix: No zero assignments to volume_flow_initial and volume_flow_area in
	130	! case of normal restart runs.
	131	!
[714]	132	! 713 2011-03-30 14:21:21Z suehring
[732]	133	! weight_substep and weight_pres are given as fractions.
[714]	134	!
[710]	135	! 709 2011-03-30 09:31:40Z raasch
	136	! formatting adjustments
	137	!
[708]	138	! 707 2011-03-29 11:39:40Z raasch
[707]	139	! p_sub renamed p_loc and allocated depending on the chosen pressure solver,
	140	! initial assignments of zero to array p for iterative solvers only,
	141	! bc_lr/ns replaced by bc_lr/ns_dirrad/raddir
[674]	142	!
[708]	143	! 680 2011-02-04 23:16:06Z gryschka
[681]	144	! bugfix: volume_flow_control
[668]	145	!
[674]	146	! 673 2011-01-18 16:19:48Z suehring
	147	! weight_substep (moved from advec_ws) and weight_pres added.
	148	! Allocate p_sub when using Multigrid or SOR solver.
	149	! Call of ws_init moved behind the if requests.
	150	!
[668]	151	! 667 2010-12-23 12:06:00Z suehring/gryschka
[667]	152	! nxl-1, nxr+1, nys-1, nyn+1 replaced by nxlg, nxrg, nysg, nyng in loops and
	153	! allocation of arrays. Calls of exchange_horiz are modified.
[709]	154	! Call ws_init to initialize arrays needed for calculating statisticas and for
[667]	155	! optimization when ws-scheme is used.
	156	! Initial volume flow is now calculated by using the variable hom_sum.
	157	! Therefore the correction of initial volume flow for non-flat topography
	158	! removed (removed u_nzb_p1_for_vfc and v_nzb_p1_for_vfc)
	159	! Changed surface boundary conditions for u and v in case of ibc_uv_b == 0 from
[709]	160	! mirror to Dirichlet boundary conditions (u=v=0), so that k=nzb is
	161	! representative for the height z0.
[667]	162	! Bugfix: type conversion of '1' to 64bit for the MAX function (ngp_3d_inner)
	163	!
[623]	164	! 622 2010-12-10 08:08:13Z raasch
	165	! optional barriers included in order to speed up collective operations
	166	!
[561]	167	! 560 2010-09-09 10:06:09Z weinreis
	168	! bugfix: correction of calculating ngp_3d for 64 bit
	169	!
[486]	170	! 485 2010-02-05 10:57:51Z raasch
	171	! calculation of ngp_3d + ngp_3d_inner changed because they have now 64 bit
	172	!
[482]	173	! 407 2009-12-01 15:01:15Z maronga
	174	! var_ts is replaced by dots_max
	175	! Enabled passive scalar/humidity wall fluxes for non-flat topography
	176	!
[392]	177	! 388 2009-09-23 09:40:33Z raasch
[388]	178	! Initialization of prho added.
[359]	179	! bugfix: correction of initial volume flow for non-flat topography
	180	! bugfix: zero initialization of arrays within buildings for 'cyclic_fill'
[333]	181	! bugfix: avoid that ngp_2dh_s_inner becomes zero
[328]	182	! initializing_actions='read_data_for_recycling' renamed to 'cyclic_fill', now
	183	! independent of turbulent_inflow
[254]	184	! Output of messages replaced by message handling routine.
[240]	185	! Set the starting level and the vertical smoothing factor used for
	186	! the external pressure gradient
[254]	187	! +conserve_volume_flow_mode: 'default', 'initial_profiles', 'inflow_profile'
[241]	188	! and 'bulk_velocity'
[292]	189	! If the inversion height calculated by the prerun is zero,
	190	! inflow_damping_height must be explicitly specified.
[139]	191	!
[198]	192	! 181 2008-07-30 07:07:47Z raasch
	193	! bugfix: zero assignments to tendency arrays in case of restarts,
	194	! further extensions and modifications in the initialisation of the plant
	195	! canopy model,
	196	! allocation of hom_sum moved to parin, initialization of spectrum_x\|y directly
	197	! after allocating theses arrays,
	198	! read data for recycling added as new initialization option,
	199	! dummy allocation for diss
	200	!
[139]	201	! 138 2007-11-28 10:03:58Z letzel
[132]	202	! New counter ngp_2dh_s_inner.
	203	! Allow new case bc_uv_t = 'dirichlet_0' for channel flow.
	204	! Corrected calculation of initial volume flow for 'set_1d-model_profiles' and
	205	! 'set_constant_profiles' in case of buildings in the reference cross-sections.
[77]	206	!
[110]	207	! 108 2007-08-24 15:10:38Z letzel
	208	! Flux initialization in case of coupled runs, +momentum fluxes at top boundary,
	209	! +arrays for phase speed c_u, c_v, c_w, indices for u\|v\|w_m_l\|r changed
	210	! +qswst_remote in case of atmosphere model with humidity coupled to ocean
	211	! Rayleigh damping for ocean, optionally calculate km and kh from initial
	212	! TKE e_init
	213	!
[98]	214	! 97 2007-06-21 08:23:15Z raasch
	215	! Initialization of salinity, call of init_ocean
	216	!
[90]	217	! 87 2007-05-22 15:46:47Z raasch
	218	! var_hom and var_sum renamed pr_palm
	219	!
[77]	220	! 75 2007-03-22 09:54:05Z raasch
[73]	221	! Arrays for radiation boundary conditions are allocated (u_m_l, u_m_r, etc.),
	222	! bugfix for cases with the outflow damping layer extending over more than one
[75]	223	! subdomain, moisture renamed humidity,
	224	! new initializing action "by_user" calls user_init_3d_model,
[72]	225	! precipitation_amount/rate, ts_value are allocated, +module netcdf_control,
[51]	226	! initial velocities at nzb+1 are regarded for volume
	227	! flow control in case they have been set zero before (to avoid small timesteps)
[75]	228	! -uvmean_outflow, uxrp, vynp eliminated
[1]	229	!
[39]	230	! 19 2007-02-23 04:53:48Z raasch
	231	! +handling of top fluxes
	232	!
[3]	233	! RCS Log replace by Id keyword, revision history cleaned up
	234	!
[1]	235	! Revision 1.49 2006/08/22 15:59:07 raasch
	236	! No optimization of this file on the ibmy (Yonsei Univ.)
	237	!
	238	! Revision 1.1 1998/03/09 16:22:22 raasch
	239	! Initial revision
	240	!
	241	!
	242	! Description:
	243	! ------------
	244	! Allocation of arrays and initialization of the 3D model via
	245	! a) pre-run the 1D model
	246	! or
	247	! b) pre-set constant linear profiles
	248	! or
	249	! c) read values of a previous run
	250	!------------------------------------------------------------------------------!
	251
[667]	252	USE advec_ws
[1]	253	USE arrays_3d
	254	USE averaging
[72]	255	USE cloud_parameters
[1]	256	USE constants
	257	USE control_parameters
	258	USE cpulog
[978]	259	USE grid_variables
[1]	260	USE indices
	261	USE interfaces
	262	USE model_1d
[51]	263	USE netcdf_control
[1]	264	USE particle_attributes
	265	USE pegrid
	266	USE profil_parameter
	267	USE random_function_mod
	268	USE statistics
[1111]	269	USE transpose_indices
[1]	270
	271	IMPLICIT NONE
	272
[559]	273	INTEGER :: i, ind_array(1), j, k, sr
[1]	274
[485]	275	INTEGER, DIMENSION(:), ALLOCATABLE :: ngp_2dh_l
[1]	276
[132]	277	INTEGER, DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_outer_l, &
[996]	278	ngp_2dh_s_inner_l
[1]	279
	280	REAL, DIMENSION(1:2) :: volume_flow_area_l, volume_flow_initial_l
	281
[485]	282	REAL, DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_l, ngp_3d_inner_tmp
[1]	283
[485]	284
[1]	285	!
	286	!-- Allocate arrays
	287	ALLOCATE( ngp_2dh(0:statistic_regions), ngp_2dh_l(0:statistic_regions), &
	288	ngp_3d(0:statistic_regions), &
	289	ngp_3d_inner(0:statistic_regions), &
	290	ngp_3d_inner_l(0:statistic_regions), &
[485]	291	ngp_3d_inner_tmp(0:statistic_regions), &
[1]	292	sums_divnew_l(0:statistic_regions), &
	293	sums_divold_l(0:statistic_regions) )
[1195]	294	ALLOCATE( dp_smooth_factor(nzb:nzt), rdf(nzb+1:nzt), rdf_sc(nzb+1:nzt) )
[143]	295	ALLOCATE( ngp_2dh_outer(nzb:nzt+1,0:statistic_regions), &
[1]	296	ngp_2dh_outer_l(nzb:nzt+1,0:statistic_regions), &
[132]	297	ngp_2dh_s_inner(nzb:nzt+1,0:statistic_regions), &
	298	ngp_2dh_s_inner_l(nzb:nzt+1,0:statistic_regions), &
[996]	299	rmask(nysg:nyng,nxlg:nxrg,0:statistic_regions), &
[87]	300	sums(nzb:nzt+1,pr_palm+max_pr_user), &
	301	sums_l(nzb:nzt+1,pr_palm+max_pr_user,0:threads_per_task-1), &
[1]	302	sums_l_l(nzb:nzt+1,0:statistic_regions,0:threads_per_task-1), &
	303	sums_up_fraction_l(10,3,0:statistic_regions), &
[48]	304	sums_wsts_bc_l(nzb:nzt+1,0:statistic_regions), &
[394]	305	ts_value(dots_max,0:statistic_regions) )
[978]	306	ALLOCATE( ptdf_x(nxlg:nxrg), ptdf_y(nysg:nyng) )
[1]	307
[1001]	308	ALLOCATE( rif(nysg:nyng,nxlg:nxrg), shf(nysg:nyng,nxlg:nxrg), &
	309	ts(nysg:nyng,nxlg:nxrg), tswst(nysg:nyng,nxlg:nxrg), &
	310	us(nysg:nyng,nxlg:nxrg), usws(nysg:nyng,nxlg:nxrg), &
	311	uswst(nysg:nyng,nxlg:nxrg), vsws(nysg:nyng,nxlg:nxrg), &
	312	vswst(nysg:nyng,nxlg:nxrg), z0(nysg:nyng,nxlg:nxrg), &
[978]	313	z0h(nysg:nyng,nxlg:nxrg) )
[1]	314
[1010]	315	ALLOCATE( d(nzb+1:nzt,nys:nyn,nxl:nxr), &
	316	kh(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	317	km(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	318	p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	319	tend(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	320
	321	#if defined( __nopointer )
	322	ALLOCATE( e(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	323	e_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	324	pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	325	pt_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	326	u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	327	u_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	328	v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	329	v_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	330	w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	331	w_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	332	te_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	333	tpt_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	334	tu_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	335	tv_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	336	tw_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	337	#else
	338	ALLOCATE( e_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	339	e_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	340	e_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	341	pt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	342	pt_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	343	u_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	344	u_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	345	u_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	346	v_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	347	v_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	348	v_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	349	w_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	350	w_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	351	w_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1032]	352	IF ( .NOT. neutral ) THEN
	353	ALLOCATE( pt_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	354	ENDIF
[1010]	355	#endif
	356
[673]	357	!
[707]	358	!-- Following array is required for perturbation pressure within the iterative
	359	!-- pressure solvers. For the multistep schemes (Runge-Kutta), array p holds
	360	!-- the weighted average of the substeps and cannot be used in the Poisson
	361	!-- solver.
	362	IF ( psolver == 'sor' ) THEN
	363	ALLOCATE( p_loc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	364	ELSEIF ( psolver == 'multigrid' ) THEN
	365	!
	366	!-- For performance reasons, multigrid is using one ghost layer only
	367	ALLOCATE( p_loc(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
[673]	368	ENDIF
[1]	369
[1111]	370	!
	371	!-- Array for storing constant coeffficients of the tridiagonal solver
	372	IF ( psolver == 'poisfft' ) THEN
[1212]	373	ALLOCATE( tri(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1,2) )
[1111]	374	ALLOCATE( tric(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1) )
	375	ENDIF
	376
[75]	377	IF ( humidity .OR. passive_scalar ) THEN
[1]	378	!
[75]	379	!-- 2D-humidity/scalar arrays
[1001]	380	ALLOCATE ( qs(nysg:nyng,nxlg:nxrg), &
	381	qsws(nysg:nyng,nxlg:nxrg), &
	382	qswst(nysg:nyng,nxlg:nxrg) )
[1]	383
	384	!
[75]	385	!-- 3D-humidity/scalar arrays
[1010]	386	#if defined( __nopointer )
	387	ALLOCATE( q(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	388	q_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	389	tq_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	390	#else
[667]	391	ALLOCATE( q_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	392	q_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	393	q_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	394	#endif
[1]	395
	396	!
[75]	397	!-- 3D-arrays needed for humidity only
	398	IF ( humidity ) THEN
[1010]	399	#if defined( __nopointer )
	400	ALLOCATE( vpt(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	401	#else
[667]	402	ALLOCATE( vpt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	403	#endif
[1]	404
	405	IF ( cloud_physics ) THEN
[1053]	406
[1]	407	!
	408	!-- Liquid water content
[1010]	409	#if defined( __nopointer )
	410	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	411	#else
[667]	412	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	413	#endif
[72]	414	!
	415	!-- Precipitation amount and rate (only needed if output is switched)
[667]	416	ALLOCATE( precipitation_amount(nysg:nyng,nxlg:nxrg), &
	417	precipitation_rate(nysg:nyng,nxlg:nxrg) )
[1053]	418
	419	IF ( icloud_scheme == 0 ) THEN
	420	!
[1115]	421	!-- 1D-arrays
	422	ALLOCATE ( nc_1d(nzb:nzt+1), pt_1d(nzb:nzt+1), &
	423	q_1d(nzb:nzt+1), qc_1d(nzb:nzt+1) )
[1053]	424	!
[1115]	425	!-- 3D-cloud water content
[1053]	426	#if defined( __nopointer )
[1115]	427	ALLOCATE( qc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	428	#else
[1115]	429	ALLOCATE( qc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	430	#endif
	431	!
	432	!-- 3D-tendency arrays
[1115]	433	ALLOCATE( tend_pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	434	tend_q(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	435
	436	IF ( precipitation ) THEN
[1053]	437	!
[1115]	438	!-- 1D-arrays
	439	ALLOCATE ( nr_1d(nzb:nzt+1), qr_1d(nzb:nzt+1) )
	440	!
	441	!
	442	!-- 3D-tendency arrays
	443	ALLOCATE( tend_nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	444	tend_qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	445	!
	446	!-- 2D-rain water content and rain drop concentration arrays
	447	ALLOCATE ( qrs(nysg:nyng,nxlg:nxrg), &
	448	qrsws(nysg:nyng,nxlg:nxrg), &
	449	qrswst(nysg:nyng,nxlg:nxrg), &
	450	nrs(nysg:nyng,nxlg:nxrg), &
	451	nrsws(nysg:nyng,nxlg:nxrg), &
	452	nrswst(nysg:nyng,nxlg:nxrg) )
	453	!
	454	!-- 3D-rain water content, rain drop concentration arrays
	455	#if defined( __nopointer )
	456	ALLOCATE( nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	457	nr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	458	qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	459	qr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	460	tnr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	461	tqr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	462	#else
	463	ALLOCATE( nr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	464	nr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	465	nr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	466	qr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	467	qr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	468	qr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	469	#endif
	470	!
	471	!-- 3d-precipitation rate
[1053]	472	ALLOCATE( prr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	473	ENDIF
	474
	475	ENDIF
[1]	476	ENDIF
	477
	478	IF ( cloud_droplets ) THEN
	479	!
[1010]	480	!-- Liquid water content, change in liquid water content
	481	#if defined( __nopointer )
	482	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	483	ql_c(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	484	#else
[667]	485	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	486	ql_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	487	#endif
	488	!
	489	!-- Real volume of particles (with weighting), volume of particles
	490	ALLOCATE ( ql_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	491	ql_vp(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	492	ENDIF
	493
	494	ENDIF
	495
	496	ENDIF
	497
[94]	498	IF ( ocean ) THEN
[1001]	499	ALLOCATE( saswsb(nysg:nyng,nxlg:nxrg), &
	500	saswst(nysg:nyng,nxlg:nxrg) )
[1010]	501	#if defined( __nopointer )
	502	ALLOCATE( prho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	503	rho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	504	sa(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	505	sa_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	506	tsa_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	507	#else
[667]	508	ALLOCATE( prho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	509	rho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	510	sa_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	511	sa_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	512	sa_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[388]	513	prho => prho_1
	514	rho => rho_1 ! routines calc_mean_profile and diffusion_e require
	515	! density to be apointer
[1010]	516	#endif
[108]	517	IF ( humidity_remote ) THEN
[667]	518	ALLOCATE( qswst_remote(nysg:nyng,nxlg:nxrg))
[108]	519	qswst_remote = 0.0
	520	ENDIF
[94]	521	ENDIF
	522
[1]	523	!
	524	!-- 3D-array for storing the dissipation, needed for calculating the sgs
	525	!-- particle velocities
[1171]	526	IF ( use_sgs_for_particles .OR. wang_kernel .OR. turbulence .OR. &
	527	num_acc_per_node > 0 ) THEN
[1153]	528	ALLOCATE( diss(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	529	ENDIF
	530
	531	IF ( dt_dosp /= 9999999.9 ) THEN
	532	ALLOCATE( spectrum_x( 1:nx/2, 1:10, 1:10 ), &
	533	spectrum_y( 1:ny/2, 1:10, 1:10 ) )
[146]	534	spectrum_x = 0.0
	535	spectrum_y = 0.0
[1]	536	ENDIF
	537
	538	!
[138]	539	!-- 3D-arrays for the leaf area density and the canopy drag coefficient
	540	IF ( plant_canopy ) THEN
[667]	541	ALLOCATE ( lad_s(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	542	lad_u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	543	lad_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	544	lad_w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	545	cdc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[153]	546
	547	IF ( passive_scalar ) THEN
[996]	548	ALLOCATE ( sls(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	549	sec(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[153]	550	ENDIF
	551
	552	IF ( cthf /= 0.0 ) THEN
[996]	553	ALLOCATE ( lai(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	554	canopy_heat_flux(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[153]	555	ENDIF
	556
[138]	557	ENDIF
	558
	559	!
[51]	560	!-- 4D-array for storing the Rif-values at vertical walls
	561	IF ( topography /= 'flat' ) THEN
[667]	562	ALLOCATE( rif_wall(nzb:nzt+1,nysg:nyng,nxlg:nxrg,1:4) )
[51]	563	rif_wall = 0.0
	564	ENDIF
	565
	566	!
[106]	567	!-- Arrays to store velocity data from t-dt and the phase speeds which
	568	!-- are needed for radiation boundary conditions
[73]	569	IF ( outflow_l ) THEN
[667]	570	ALLOCATE( u_m_l(nzb:nzt+1,nysg:nyng,1:2), &
	571	v_m_l(nzb:nzt+1,nysg:nyng,0:1), &
	572	w_m_l(nzb:nzt+1,nysg:nyng,0:1) )
[73]	573	ENDIF
	574	IF ( outflow_r ) THEN
[667]	575	ALLOCATE( u_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	576	v_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	577	w_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx) )
[73]	578	ENDIF
[106]	579	IF ( outflow_l .OR. outflow_r ) THEN
[667]	580	ALLOCATE( c_u(nzb:nzt+1,nysg:nyng), c_v(nzb:nzt+1,nysg:nyng), &
	581	c_w(nzb:nzt+1,nysg:nyng) )
[106]	582	ENDIF
[73]	583	IF ( outflow_s ) THEN
[667]	584	ALLOCATE( u_m_s(nzb:nzt+1,0:1,nxlg:nxrg), &
	585	v_m_s(nzb:nzt+1,1:2,nxlg:nxrg), &
	586	w_m_s(nzb:nzt+1,0:1,nxlg:nxrg) )
[73]	587	ENDIF
	588	IF ( outflow_n ) THEN
[667]	589	ALLOCATE( u_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	590	v_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	591	w_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg) )
[73]	592	ENDIF
[106]	593	IF ( outflow_s .OR. outflow_n ) THEN
[667]	594	ALLOCATE( c_u(nzb:nzt+1,nxlg:nxrg), c_v(nzb:nzt+1,nxlg:nxrg), &
	595	c_w(nzb:nzt+1,nxlg:nxrg) )
[106]	596	ENDIF
[996]	597	IF ( outflow_l .OR. outflow_r .OR. outflow_s .OR. outflow_n ) THEN
[978]	598	ALLOCATE( c_u_m_l(nzb:nzt+1), c_v_m_l(nzb:nzt+1), c_w_m_l(nzb:nzt+1) )
	599	ALLOCATE( c_u_m(nzb:nzt+1), c_v_m(nzb:nzt+1), c_w_m(nzb:nzt+1) )
	600	ENDIF
[73]	601
[978]	602
[1010]	603	#if ! defined( __nopointer )
[73]	604	!
[1]	605	!-- Initial assignment of the pointers
[1001]	606	e => e_1; e_p => e_2; te_m => e_3
[1032]	607	IF ( .NOT. neutral ) THEN
	608	pt => pt_1; pt_p => pt_2; tpt_m => pt_3
	609	ELSE
	610	pt => pt_1; pt_p => pt_1; tpt_m => pt_3
	611	ENDIF
[1001]	612	u => u_1; u_p => u_2; tu_m => u_3
	613	v => v_1; v_p => v_2; tv_m => v_3
	614	w => w_1; w_p => w_2; tw_m => w_3
[1]	615
[1001]	616	IF ( humidity .OR. passive_scalar ) THEN
	617	q => q_1; q_p => q_2; tq_m => q_3
[1053]	618	IF ( humidity ) THEN
	619	vpt => vpt_1
	620	IF ( cloud_physics ) THEN
	621	ql => ql_1
	622	IF ( icloud_scheme == 0 ) THEN
[1115]	623	qc => qc_1
	624	IF ( precipitation ) THEN
	625	qr => qr_1; qr_p => qr_2; tqr_m => qr_3
	626	nr => nr_1; nr_p => nr_2; tnr_m => nr_3
	627	ENDIF
[1053]	628	ENDIF
	629	ENDIF
	630	ENDIF
[1001]	631	IF ( cloud_droplets ) THEN
	632	ql => ql_1
	633	ql_c => ql_2
[1]	634	ENDIF
[1001]	635	ENDIF
[1]	636
[1001]	637	IF ( ocean ) THEN
	638	sa => sa_1; sa_p => sa_2; tsa_m => sa_3
	639	ENDIF
[1010]	640	#endif
[1]	641
	642	!
[709]	643	!-- Allocate arrays containing the RK coefficient for calculation of
	644	!-- perturbation pressure and turbulent fluxes. At this point values are
	645	!-- set for pressure calculation during initialization (where no timestep
	646	!-- is done). Further below the values needed within the timestep scheme
	647	!-- will be set.
	648	ALLOCATE( weight_substep(1:intermediate_timestep_count_max), &
[673]	649	weight_pres(1:intermediate_timestep_count_max) )
[709]	650	weight_substep = 1.0
	651	weight_pres = 1.0
	652	intermediate_timestep_count = 1 ! needed when simulated_time = 0.0
[673]	653
	654	!
[1]	655	!-- Initialize model variables
[147]	656	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[328]	657	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
[1]	658	!
	659	!-- First model run of a possible job queue.
	660	!-- Initial profiles of the variables must be computes.
	661	IF ( INDEX( initializing_actions, 'set_1d-model_profiles' ) /= 0 ) THEN
	662	!
	663	!-- Use solutions of the 1D model as initial profiles,
	664	!-- start 1D model
	665	CALL init_1d_model
	666	!
	667	!-- Transfer initial profiles to the arrays of the 3D model
[667]	668	DO i = nxlg, nxrg
	669	DO j = nysg, nyng
[1]	670	e(:,j,i) = e1d
	671	kh(:,j,i) = kh1d
	672	km(:,j,i) = km1d
	673	pt(:,j,i) = pt_init
	674	u(:,j,i) = u1d
	675	v(:,j,i) = v1d
	676	ENDDO
	677	ENDDO
	678
[75]	679	IF ( humidity .OR. passive_scalar ) THEN
[667]	680	DO i = nxlg, nxrg
	681	DO j = nysg, nyng
[1]	682	q(:,j,i) = q_init
	683	ENDDO
	684	ENDDO
[1115]	685	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	686	precipitation ) THEN
[1053]	687	DO i = nxlg, nxrg
	688	DO j = nysg, nyng
[1115]	689	qr(:,j,i) = 0.0
	690	nr(:,j,i) = 0.0
[1053]	691	ENDDO
	692	ENDDO
[1115]	693	!
	694	!-- Initialze nc_1d with default value
	695	nc_1d(:) = nc_const
	696
[1053]	697	ENDIF
[1]	698	ENDIF
	699
	700	IF ( .NOT. constant_diffusion ) THEN
[667]	701	DO i = nxlg, nxrg
	702	DO j = nysg, nyng
[1]	703	e(:,j,i) = e1d
	704	ENDDO
	705	ENDDO
	706	!
	707	!-- Store initial profiles for output purposes etc.
	708	hom(:,1,25,:) = SPREAD( l1d, 2, statistic_regions+1 )
	709
	710	IF ( prandtl_layer ) THEN
	711	rif = rif1d(nzb+1)
	712	ts = 0.0 ! could actually be computed more accurately in the
	713	! 1D model. Update when opportunity arises.
	714	us = us1d
	715	usws = usws1d
	716	vsws = vsws1d
	717	ELSE
	718	ts = 0.0 ! must be set, because used in
	719	rif = 0.0 ! flowste
	720	us = 0.0
	721	usws = 0.0
	722	vsws = 0.0
	723	ENDIF
	724
	725	ELSE
	726	e = 0.0 ! must be set, because used in
	727	rif = 0.0 ! flowste
	728	ts = 0.0
	729	us = 0.0
	730	usws = 0.0
	731	vsws = 0.0
	732	ENDIF
[102]	733	uswst = top_momentumflux_u
	734	vswst = top_momentumflux_v
[1]	735
	736	!
	737	!-- In every case qs = 0.0 (see also pt)
	738	!-- This could actually be computed more accurately in the 1D model.
	739	!-- Update when opportunity arises!
[1053]	740	IF ( humidity .OR. passive_scalar ) THEN
	741	qs = 0.0
[1115]	742	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	743	precipitation ) THEN
[1053]	744	qrs = 0.0
	745	nrs = 0.0
	746	ENDIF
	747	ENDIF
[1]	748
	749	!
	750	!-- inside buildings set velocities back to zero
	751	IF ( topography /= 'flat' ) THEN
	752	DO i = nxl-1, nxr+1
	753	DO j = nys-1, nyn+1
	754	u(nzb:nzb_u_inner(j,i),j,i) = 0.0
	755	v(nzb:nzb_v_inner(j,i),j,i) = 0.0
	756	ENDDO
	757	ENDDO
[667]	758
[1]	759	!
	760	!-- WARNING: The extra boundary conditions set after running the
	761	!-- ------- 1D model impose an error on the divergence one layer
	762	!-- below the topography; need to correct later
	763	!-- ATTENTION: Provisional correction for Piacsek & Williams
	764	!-- --------- advection scheme: keep u and v zero one layer below
	765	!-- the topography.
[667]	766	IF ( ibc_uv_b == 1 ) THEN
	767	!
[1]	768	!-- Neumann condition
	769	DO i = nxl-1, nxr+1
	770	DO j = nys-1, nyn+1
	771	IF ( nzb_u_inner(j,i) == 0 ) u(0,j,i) = u(1,j,i)
	772	IF ( nzb_v_inner(j,i) == 0 ) v(0,j,i) = v(1,j,i)
	773	ENDDO
	774	ENDDO
	775
	776	ENDIF
	777
	778	ENDIF
	779
	780	ELSEIF ( INDEX(initializing_actions, 'set_constant_profiles') /= 0 ) &
	781	THEN
	782	!
	783	!-- Use constructed initial profiles (velocity constant with height,
	784	!-- temperature profile with constant gradient)
[667]	785	DO i = nxlg, nxrg
	786	DO j = nysg, nyng
[1]	787	pt(:,j,i) = pt_init
	788	u(:,j,i) = u_init
	789	v(:,j,i) = v_init
	790	ENDDO
	791	ENDDO
[75]	792
[1]	793	!
[292]	794	!-- Set initial horizontal velocities at the lowest computational grid
	795	!-- levels to zero in order to avoid too small time steps caused by the
	796	!-- diffusion limit in the initial phase of a run (at k=1, dz/2 occurs
	797	!-- in the limiting formula!). The original values are stored to be later
	798	!-- used for volume flow control.
[667]	799	DO i = nxlg, nxrg
	800	DO j = nysg, nyng
[1]	801	u(nzb:nzb_u_inner(j,i)+1,j,i) = 0.0
	802	v(nzb:nzb_v_inner(j,i)+1,j,i) = 0.0
	803	ENDDO
	804	ENDDO
	805
[75]	806	IF ( humidity .OR. passive_scalar ) THEN
[667]	807	DO i = nxlg, nxrg
	808	DO j = nysg, nyng
[1]	809	q(:,j,i) = q_init
	810	ENDDO
	811	ENDDO
[1115]	812	IF ( cloud_physics .AND. icloud_scheme == 0 ) THEN
	813	!
	814	!-- Initialze nc_1d with default value
	815	nc_1d(:) = nc_const
	816
	817	IF ( precipitation ) THEN
	818	DO i = nxlg, nxrg
	819	DO j = nysg, nyng
	820	qr(:,j,i) = 0.0
	821	nr(:,j,i) = 0.0
	822	ENDDO
[1053]	823	ENDDO
[1115]	824	ENDIF
	825
[1053]	826	ENDIF
[1]	827	ENDIF
	828
[94]	829	IF ( ocean ) THEN
[667]	830	DO i = nxlg, nxrg
	831	DO j = nysg, nyng
[94]	832	sa(:,j,i) = sa_init
	833	ENDDO
	834	ENDDO
	835	ENDIF
[1]	836
	837	IF ( constant_diffusion ) THEN
	838	km = km_constant
	839	kh = km / prandtl_number
[108]	840	e = 0.0
	841	ELSEIF ( e_init > 0.0 ) THEN
	842	DO k = nzb+1, nzt
	843	km(k,:,:) = 0.1 * l_grid(k) * SQRT( e_init )
	844	ENDDO
	845	km(nzb,:,:) = km(nzb+1,:,:)
	846	km(nzt+1,:,:) = km(nzt,:,:)
	847	kh = km / prandtl_number
	848	e = e_init
[1]	849	ELSE
[108]	850	IF ( .NOT. ocean ) THEN
	851	kh = 0.01 ! there must exist an initial diffusion, because
	852	km = 0.01 ! otherwise no TKE would be produced by the
	853	! production terms, as long as not yet
	854	! e = (u/cm)*2 at k=nzb+1
	855	ELSE
	856	kh = 0.00001
	857	km = 0.00001
	858	ENDIF
	859	e = 0.0
[1]	860	ENDIF
[102]	861	rif = 0.0
	862	ts = 0.0
	863	us = 0.0
	864	usws = 0.0
	865	uswst = top_momentumflux_u
	866	vsws = 0.0
	867	vswst = top_momentumflux_v
[75]	868	IF ( humidity .OR. passive_scalar ) qs = 0.0
[1]	869
	870	!
	871	!-- Compute initial temperature field and other constants used in case
	872	!-- of a sloping surface
	873	IF ( sloping_surface ) CALL init_slope
	874
[46]	875	ELSEIF ( INDEX(initializing_actions, 'by_user') /= 0 ) &
	876	THEN
	877	!
	878	!-- Initialization will completely be done by the user
	879	CALL user_init_3d_model
	880
[1]	881	ENDIF
[667]	882	!
	883	!-- Bottom boundary
	884	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2 ) THEN
	885	u(nzb,:,:) = 0.0
	886	v(nzb,:,:) = 0.0
	887	ENDIF
[1]	888
	889	!
[151]	890	!-- Apply channel flow boundary condition
[132]	891	IF ( TRIM( bc_uv_t ) == 'dirichlet_0' ) THEN
	892	u(nzt+1,:,:) = 0.0
	893	v(nzt+1,:,:) = 0.0
	894	ENDIF
	895
	896	!
[1]	897	!-- Calculate virtual potential temperature
[75]	898	IF ( humidity ) vpt = pt * ( 1.0 + 0.61 * q )
[1]	899
	900	!
	901	!-- Store initial profiles for output purposes etc.
	902	hom(:,1,5,:) = SPREAD( u(:,nys,nxl), 2, statistic_regions+1 )
	903	hom(:,1,6,:) = SPREAD( v(:,nys,nxl), 2, statistic_regions+1 )
[667]	904	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2) THEN
	905	hom(nzb,1,5,:) = 0.0
	906	hom(nzb,1,6,:) = 0.0
[1]	907	ENDIF
	908	hom(:,1,7,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	909	hom(:,1,23,:) = SPREAD( km(:,nys,nxl), 2, statistic_regions+1 )
	910	hom(:,1,24,:) = SPREAD( kh(:,nys,nxl), 2, statistic_regions+1 )
	911
[97]	912	IF ( ocean ) THEN
	913	!
	914	!-- Store initial salinity profile
	915	hom(:,1,26,:) = SPREAD( sa(:,nys,nxl), 2, statistic_regions+1 )
	916	ENDIF
[1]	917
[75]	918	IF ( humidity ) THEN
[1]	919	!
	920	!-- Store initial profile of total water content, virtual potential
	921	!-- temperature
	922	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	923	hom(:,1,29,:) = SPREAD( vpt(:,nys,nxl), 2, statistic_regions+1 )
	924	IF ( cloud_physics .OR. cloud_droplets ) THEN
	925	!
	926	!-- Store initial profile of specific humidity and potential
	927	!-- temperature
	928	hom(:,1,27,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	929	hom(:,1,28,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	930	ENDIF
	931	ENDIF
	932
	933	IF ( passive_scalar ) THEN
	934	!
	935	!-- Store initial scalar profile
	936	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	937	ENDIF
	938
	939	!
[19]	940	!-- Initialize fluxes at bottom surface
[1]	941	IF ( use_surface_fluxes ) THEN
	942
	943	IF ( constant_heatflux ) THEN
	944	!
	945	!-- Heat flux is prescribed
	946	IF ( random_heatflux ) THEN
	947	CALL disturb_heatflux
	948	ELSE
	949	shf = surface_heatflux
	950	!
	951	!-- Over topography surface_heatflux is replaced by wall_heatflux(0)
	952	IF ( TRIM( topography ) /= 'flat' ) THEN
[667]	953	DO i = nxlg, nxrg
	954	DO j = nysg, nyng
[1]	955	IF ( nzb_s_inner(j,i) /= 0 ) THEN
	956	shf(j,i) = wall_heatflux(0)
	957	ENDIF
	958	ENDDO
	959	ENDDO
	960	ENDIF
	961	ENDIF
	962	ENDIF
	963
	964	!
	965	!-- Determine the near-surface water flux
[75]	966	IF ( humidity .OR. passive_scalar ) THEN
[1115]	967	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	968	precipitation ) THEN
	969	qrsws = 0.0
	970	nrsws = 0.0
[1053]	971	ENDIF
[1]	972	IF ( constant_waterflux ) THEN
	973	qsws = surface_waterflux
[407]	974	!
	975	!-- Over topography surface_waterflux is replaced by
	976	!-- wall_humidityflux(0)
	977	IF ( TRIM( topography ) /= 'flat' ) THEN
	978	wall_qflux = wall_humidityflux
[667]	979	DO i = nxlg, nxrg
	980	DO j = nysg, nyng
[407]	981	IF ( nzb_s_inner(j,i) /= 0 ) THEN
	982	qsws(j,i) = wall_qflux(0)
	983	ENDIF
	984	ENDDO
	985	ENDDO
	986	ENDIF
[1]	987	ENDIF
	988	ENDIF
	989
	990	ENDIF
	991
	992	!
[19]	993	!-- Initialize fluxes at top surface
[94]	994	!-- Currently, only the heatflux and salinity flux can be prescribed.
	995	!-- The latent flux is zero in this case!
[19]	996	IF ( use_top_fluxes ) THEN
	997
	998	IF ( constant_top_heatflux ) THEN
	999	!
	1000	!-- Heat flux is prescribed
	1001	tswst = top_heatflux
	1002
[1053]	1003	IF ( humidity .OR. passive_scalar ) THEN
	1004	qswst = 0.0
[1115]	1005	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1006	precipitation ) THEN
[1053]	1007	nrswst = 0.0
	1008	qrswst = 0.0
	1009	ENDIF
	1010	ENDIF
[94]	1011
	1012	IF ( ocean ) THEN
[95]	1013	saswsb = bottom_salinityflux
[94]	1014	saswst = top_salinityflux
	1015	ENDIF
[102]	1016	ENDIF
[19]	1017
[102]	1018	!
	1019	!-- Initialization in case of a coupled model run
	1020	IF ( coupling_mode == 'ocean_to_atmosphere' ) THEN
	1021	tswst = 0.0
	1022	ENDIF
	1023
[19]	1024	ENDIF
	1025
	1026	!
[1]	1027	!-- Initialize Prandtl layer quantities
	1028	IF ( prandtl_layer ) THEN
	1029
	1030	z0 = roughness_length
[978]	1031	z0h = z0h_factor * z0
[1]	1032
	1033	IF ( .NOT. constant_heatflux ) THEN
	1034	!
	1035	!-- Surface temperature is prescribed. Here the heat flux cannot be
	1036	!-- simply estimated, because therefore rif, u* and theta* would have
	1037	!-- to be computed by iteration. This is why the heat flux is assumed
	1038	!-- to be zero before the first time step. It approaches its correct
	1039	!-- value in the course of the first few time steps.
	1040	shf = 0.0
	1041	ENDIF
	1042
[75]	1043	IF ( humidity .OR. passive_scalar ) THEN
[1001]	1044	IF ( .NOT. constant_waterflux ) qsws = 0.0
[1115]	1045	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1046	precipitation ) THEN
	1047	qrsws = 0.0
	1048	nrsws = 0.0
[1053]	1049	ENDIF
[1]	1050	ENDIF
	1051
	1052	ENDIF
	1053
[1179]	1054	!
	1055	!-- Set the reference state to be used in the buoyancy terms (for ocean runs
	1056	!-- the reference state will be set (overwritten) in init_ocean)
	1057	IF ( use_single_reference_value ) THEN
	1058	IF ( .NOT. humidity ) THEN
	1059	ref_state(:) = pt_reference
	1060	ELSE
	1061	ref_state(:) = vpt_reference
	1062	ENDIF
	1063	ELSE
	1064	IF ( .NOT. humidity ) THEN
	1065	ref_state(:) = pt_init(:)
	1066	ELSE
	1067	ref_state(:) = vpt(:,nys,nxl)
	1068	ENDIF
	1069	ENDIF
[152]	1070
	1071	!
[707]	1072	!-- For the moment, vertical velocity is zero
	1073	w = 0.0
[1]	1074
	1075	!
	1076	!-- Initialize array sums (must be defined in first call of pres)
	1077	sums = 0.0
	1078
	1079	!
[707]	1080	!-- In case of iterative solvers, p must get an initial value
	1081	IF ( psolver == 'multigrid' .OR. psolver == 'sor' ) p = 0.0
	1082
	1083	!
[72]	1084	!-- Treating cloud physics, liquid water content and precipitation amount
	1085	!-- are zero at beginning of the simulation
	1086	IF ( cloud_physics ) THEN
	1087	ql = 0.0
	1088	IF ( precipitation ) precipitation_amount = 0.0
[1115]	1089	IF ( icloud_scheme == 0 ) THEN
	1090	qc = 0.0
	1091	nc_1d = nc_const
	1092	ENDIF
[72]	1093	ENDIF
[673]	1094	!
[1]	1095	!-- Impose vortex with vertical axis on the initial velocity profile
	1096	IF ( INDEX( initializing_actions, 'initialize_vortex' ) /= 0 ) THEN
	1097	CALL init_rankine
	1098	ENDIF
	1099
	1100	!
	1101	!-- Impose temperature anomaly (advection test only)
	1102	IF ( INDEX( initializing_actions, 'initialize_ptanom' ) /= 0 ) THEN
	1103	CALL init_pt_anomaly
	1104	ENDIF
	1105
	1106	!
	1107	!-- If required, change the surface temperature at the start of the 3D run
	1108	IF ( pt_surface_initial_change /= 0.0 ) THEN
	1109	pt(nzb,:,:) = pt(nzb,:,:) + pt_surface_initial_change
	1110	ENDIF
	1111
	1112	!
	1113	!-- If required, change the surface humidity/scalar at the start of the 3D
	1114	!-- run
[75]	1115	IF ( ( humidity .OR. passive_scalar ) .AND. &
[1]	1116	q_surface_initial_change /= 0.0 ) THEN
	1117	q(nzb,:,:) = q(nzb,:,:) + q_surface_initial_change
	1118	ENDIF
	1119	!
	1120	!-- Initialize the random number generator (from numerical recipes)
	1121	CALL random_function_ini
	1122
	1123	!
	1124	!-- Initialize old and new time levels.
[1001]	1125	te_m = 0.0; tpt_m = 0.0; tu_m = 0.0; tv_m = 0.0; tw_m = 0.0
[1]	1126	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
	1127
[75]	1128	IF ( humidity .OR. passive_scalar ) THEN
[1001]	1129	tq_m = 0.0
[1]	1130	q_p = q
[1115]	1131	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1132	precipitation ) THEN
[1053]	1133	tqr_m = 0.0
	1134	qr_p = qr
	1135	tnr_m = 0.0
	1136	nr_p = nr
	1137	ENDIF
[1]	1138	ENDIF
	1139
[94]	1140	IF ( ocean ) THEN
	1141	tsa_m = 0.0
	1142	sa_p = sa
	1143	ENDIF
[667]	1144
[94]	1145
[147]	1146	ELSEIF ( TRIM( initializing_actions ) == 'read_restart_data' .OR. &
[667]	1147	TRIM( initializing_actions ) == 'cyclic_fill' ) &
[1]	1148	THEN
	1149	!
[767]	1150	!-- When reading data for cyclic fill of 3D prerun data files, read
	1151	!-- some of the global variables from the restart file which are required
	1152	!-- for initializing the inflow
[328]	1153	IF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
[559]	1154
[759]	1155	DO i = 0, io_blocks-1
	1156	IF ( i == io_group ) THEN
	1157	CALL read_parts_of_var_list
	1158	CALL close_file( 13 )
	1159	ENDIF
	1160	#if defined( __parallel )
	1161	CALL MPI_BARRIER( comm2d, ierr )
	1162	#endif
	1163	ENDDO
[328]	1164
[767]	1165	ENDIF
	1166
[151]	1167	!
[767]	1168	!-- Read binary data from restart file
	1169	DO i = 0, io_blocks-1
	1170	IF ( i == io_group ) THEN
	1171	CALL read_3d_binary
	1172	ENDIF
	1173	#if defined( __parallel )
	1174	CALL MPI_BARRIER( comm2d, ierr )
	1175	#endif
	1176	ENDDO
	1177
[328]	1178	!
[767]	1179	!-- Initialization of the turbulence recycling method
	1180	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
	1181	turbulent_inflow ) THEN
	1182	!
	1183	!-- First store the profiles to be used at the inflow.
	1184	!-- These profiles are the (temporally) and horizontally averaged vertical
	1185	!-- profiles from the prerun. Alternatively, prescribed profiles
	1186	!-- for u,v-components can be used.
	1187	ALLOCATE( mean_inflow_profiles(nzb:nzt+1,5) )
[151]	1188
[767]	1189	IF ( use_prescribed_profile_data ) THEN
	1190	mean_inflow_profiles(:,1) = u_init ! u
	1191	mean_inflow_profiles(:,2) = v_init ! v
	1192	ELSE
[328]	1193	mean_inflow_profiles(:,1) = hom_sum(:,1,0) ! u
	1194	mean_inflow_profiles(:,2) = hom_sum(:,2,0) ! v
[767]	1195	ENDIF
	1196	mean_inflow_profiles(:,4) = hom_sum(:,4,0) ! pt
	1197	mean_inflow_profiles(:,5) = hom_sum(:,8,0) ! e
[151]	1198
	1199	!
[767]	1200	!-- If necessary, adjust the horizontal flow field to the prescribed
	1201	!-- profiles
	1202	IF ( use_prescribed_profile_data ) THEN
	1203	DO i = nxlg, nxrg
[667]	1204	DO j = nysg, nyng
[328]	1205	DO k = nzb, nzt+1
[767]	1206	u(k,j,i) = u(k,j,i) - hom_sum(k,1,0) + u_init(k)
	1207	v(k,j,i) = v(k,j,i) - hom_sum(k,2,0) + v_init(k)
[328]	1208	ENDDO
[151]	1209	ENDDO
[767]	1210	ENDDO
	1211	ENDIF
[151]	1212
	1213	!
[767]	1214	!-- Use these mean profiles at the inflow (provided that Dirichlet
	1215	!-- conditions are used)
	1216	IF ( inflow_l ) THEN
	1217	DO j = nysg, nyng
	1218	DO k = nzb, nzt+1
	1219	u(k,j,nxlg:-1) = mean_inflow_profiles(k,1)
	1220	v(k,j,nxlg:-1) = mean_inflow_profiles(k,2)
	1221	w(k,j,nxlg:-1) = 0.0
	1222	pt(k,j,nxlg:-1) = mean_inflow_profiles(k,4)
	1223	e(k,j,nxlg:-1) = mean_inflow_profiles(k,5)
	1224	ENDDO
	1225	ENDDO
	1226	ENDIF
	1227
[151]	1228	!
[767]	1229	!-- Calculate the damping factors to be used at the inflow. For a
	1230	!-- turbulent inflow the turbulent fluctuations have to be limited
	1231	!-- vertically because otherwise the turbulent inflow layer will grow
	1232	!-- in time.
	1233	IF ( inflow_damping_height == 9999999.9 ) THEN
	1234	!
	1235	!-- Default: use the inversion height calculated by the prerun; if
	1236	!-- this is zero, inflow_damping_height must be explicitly
	1237	!-- specified.
	1238	IF ( hom_sum(nzb+6,pr_palm,0) /= 0.0 ) THEN
	1239	inflow_damping_height = hom_sum(nzb+6,pr_palm,0)
	1240	ELSE
	1241	WRITE( message_string, * ) 'inflow_damping_height must be ',&
	1242	'explicitly specified because&the inversion height ', &
	1243	'calculated by the prerun is zero.'
	1244	CALL message( 'init_3d_model', 'PA0318', 1, 2, 0, 6, 0 )
[292]	1245	ENDIF
[151]	1246
[767]	1247	ENDIF
	1248
	1249	IF ( inflow_damping_width == 9999999.9 ) THEN
[151]	1250	!
[767]	1251	!-- Default for the transition range: one tenth of the undamped
	1252	!-- layer
	1253	inflow_damping_width = 0.1 * inflow_damping_height
[151]	1254
[767]	1255	ENDIF
[151]	1256
[767]	1257	ALLOCATE( inflow_damping_factor(nzb:nzt+1) )
[151]	1258
[767]	1259	DO k = nzb, nzt+1
[151]	1260
[767]	1261	IF ( zu(k) <= inflow_damping_height ) THEN
	1262	inflow_damping_factor(k) = 1.0
[996]	1263	ELSEIF ( zu(k) <= ( inflow_damping_height + inflow_damping_width ) ) THEN
	1264	inflow_damping_factor(k) = 1.0 - &
	1265	( zu(k) - inflow_damping_height ) / &
	1266	inflow_damping_width
[767]	1267	ELSE
	1268	inflow_damping_factor(k) = 0.0
	1269	ENDIF
[151]	1270
[767]	1271	ENDDO
[151]	1272
[147]	1273	ENDIF
	1274
[152]	1275	!
[359]	1276	!-- Inside buildings set velocities and TKE back to zero
	1277	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
	1278	topography /= 'flat' ) THEN
	1279	!
	1280	!-- Inside buildings set velocities and TKE back to zero.
	1281	!-- Other scalars (pt, q, s, km, kh, p, sa, ...) are ignored at present,
	1282	!-- maybe revise later.
[1001]	1283	DO i = nxlg, nxrg
	1284	DO j = nysg, nyng
	1285	u (nzb:nzb_u_inner(j,i),j,i) = 0.0
	1286	v (nzb:nzb_v_inner(j,i),j,i) = 0.0
	1287	w (nzb:nzb_w_inner(j,i),j,i) = 0.0
	1288	e (nzb:nzb_w_inner(j,i),j,i) = 0.0
	1289	tu_m(nzb:nzb_u_inner(j,i),j,i) = 0.0
	1290	tv_m(nzb:nzb_v_inner(j,i),j,i) = 0.0
	1291	tw_m(nzb:nzb_w_inner(j,i),j,i) = 0.0
	1292	te_m(nzb:nzb_w_inner(j,i),j,i) = 0.0
	1293	tpt_m(nzb:nzb_w_inner(j,i),j,i) = 0.0
[359]	1294	ENDDO
[1001]	1295	ENDDO
[359]	1296
	1297	ENDIF
	1298
	1299	!
[1]	1300	!-- Calculate initial temperature field and other constants used in case
	1301	!-- of a sloping surface
	1302	IF ( sloping_surface ) CALL init_slope
	1303
	1304	!
	1305	!-- Initialize new time levels (only done in order to set boundary values
	1306	!-- including ghost points)
	1307	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
[1053]	1308	IF ( humidity .OR. passive_scalar ) THEN
	1309	q_p = q
[1115]	1310	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1311	precipitation ) THEN
[1053]	1312	qr_p = qr
	1313	nr_p = nr
	1314	ENDIF
	1315	ENDIF
[94]	1316	IF ( ocean ) sa_p = sa
[1]	1317
[181]	1318	!
	1319	!-- Allthough tendency arrays are set in prognostic_equations, they have
	1320	!-- have to be predefined here because they are used (but multiplied with 0)
	1321	!-- there before they are set.
[1001]	1322	te_m = 0.0; tpt_m = 0.0; tu_m = 0.0; tv_m = 0.0; tw_m = 0.0
[1053]	1323	IF ( humidity .OR. passive_scalar ) THEN
	1324	tq_m = 0.0
[1115]	1325	IF ( cloud_physics .AND. icloud_scheme == 0 .AND. &
	1326	precipitation ) THEN
[1053]	1327	tqr_m = 0.0
	1328	tnr_m = 0.0
	1329	ENDIF
	1330	ENDIF
[1001]	1331	IF ( ocean ) tsa_m = 0.0
[181]	1332
[1]	1333	ELSE
	1334	!
	1335	!-- Actually this part of the programm should not be reached
[254]	1336	message_string = 'unknown initializing problem'
	1337	CALL message( 'init_3d_model', 'PA0193', 1, 2, 0, 6, 0 )
[1]	1338	ENDIF
	1339
[151]	1340
	1341	IF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
[1]	1342	!
[151]	1343	!-- Initialize old timelevels needed for radiation boundary conditions
	1344	IF ( outflow_l ) THEN
	1345	u_m_l(:,:,:) = u(:,:,1:2)
	1346	v_m_l(:,:,:) = v(:,:,0:1)
	1347	w_m_l(:,:,:) = w(:,:,0:1)
	1348	ENDIF
	1349	IF ( outflow_r ) THEN
	1350	u_m_r(:,:,:) = u(:,:,nx-1:nx)
	1351	v_m_r(:,:,:) = v(:,:,nx-1:nx)
	1352	w_m_r(:,:,:) = w(:,:,nx-1:nx)
	1353	ENDIF
	1354	IF ( outflow_s ) THEN
	1355	u_m_s(:,:,:) = u(:,0:1,:)
	1356	v_m_s(:,:,:) = v(:,1:2,:)
	1357	w_m_s(:,:,:) = w(:,0:1,:)
	1358	ENDIF
	1359	IF ( outflow_n ) THEN
	1360	u_m_n(:,:,:) = u(:,ny-1:ny,:)
	1361	v_m_n(:,:,:) = v(:,ny-1:ny,:)
	1362	w_m_n(:,:,:) = w(:,ny-1:ny,:)
	1363	ENDIF
[667]	1364
[151]	1365	ENDIF
[680]	1366
[667]	1367	!
	1368	!-- Calculate the initial volume flow at the right and north boundary
[709]	1369	IF ( conserve_volume_flow ) THEN
[151]	1370
[767]	1371	IF ( use_prescribed_profile_data ) THEN
[667]	1372
[732]	1373	volume_flow_initial_l = 0.0
	1374	volume_flow_area_l = 0.0
	1375
[667]	1376	IF ( nxr == nx ) THEN
	1377	DO j = nys, nyn
[709]	1378	DO k = nzb_2d(j,nx)+1, nzt
[667]	1379	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[767]	1380	u_init(k) * dzw(k)
	1381	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1382	ENDDO
	1383	ENDDO
	1384	ENDIF
	1385
	1386	IF ( nyn == ny ) THEN
	1387	DO i = nxl, nxr
	1388	DO k = nzb_2d(ny,i)+1, nzt
	1389	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1390	v_init(k) * dzw(k)
	1391	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1392	ENDDO
	1393	ENDDO
	1394	ENDIF
	1395
	1396	#if defined( __parallel )
	1397	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1398	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1399	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1400	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1401
	1402	#else
	1403	volume_flow_initial = volume_flow_initial_l
	1404	volume_flow_area = volume_flow_area_l
	1405	#endif
	1406
	1407	ELSEIF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
	1408
	1409	volume_flow_initial_l = 0.0
	1410	volume_flow_area_l = 0.0
	1411
	1412	IF ( nxr == nx ) THEN
	1413	DO j = nys, nyn
	1414	DO k = nzb_2d(j,nx)+1, nzt
	1415	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[667]	1416	hom_sum(k,1,0) * dzw(k)
	1417	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1418	ENDDO
	1419	ENDDO
	1420	ENDIF
	1421
	1422	IF ( nyn == ny ) THEN
	1423	DO i = nxl, nxr
[709]	1424	DO k = nzb_2d(ny,i)+1, nzt
[667]	1425	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[709]	1426	hom_sum(k,2,0) * dzw(k)
[667]	1427	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1428	ENDDO
	1429	ENDDO
	1430	ENDIF
	1431
[732]	1432	#if defined( __parallel )
	1433	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1434	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1435	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1436	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1437
	1438	#else
	1439	volume_flow_initial = volume_flow_initial_l
	1440	volume_flow_area = volume_flow_area_l
	1441	#endif
	1442
[667]	1443	ELSEIF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
	1444
[732]	1445	volume_flow_initial_l = 0.0
	1446	volume_flow_area_l = 0.0
	1447
[667]	1448	IF ( nxr == nx ) THEN
	1449	DO j = nys, nyn
[709]	1450	DO k = nzb_2d(j,nx)+1, nzt
[667]	1451	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[709]	1452	u(k,j,nx) * dzw(k)
[667]	1453	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k)
	1454	ENDDO
	1455	ENDDO
	1456	ENDIF
	1457
	1458	IF ( nyn == ny ) THEN
	1459	DO i = nxl, nxr
[709]	1460	DO k = nzb_2d(ny,i)+1, nzt
[667]	1461	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1462	v(k,ny,i) * dzw(k)
	1463	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k)
	1464	ENDDO
	1465	ENDDO
	1466	ENDIF
	1467
	1468	#if defined( __parallel )
[732]	1469	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1470	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1471	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1472	2, MPI_REAL, MPI_SUM, comm2d, ierr )
[667]	1473
	1474	#else
[732]	1475	volume_flow_initial = volume_flow_initial_l
	1476	volume_flow_area = volume_flow_area_l
[667]	1477	#endif
	1478
[732]	1479	ENDIF
	1480
[151]	1481	!
[709]	1482	!-- In case of 'bulk_velocity' mode, volume_flow_initial is calculated
	1483	!-- from u\|v_bulk instead
[680]	1484	IF ( TRIM( conserve_volume_flow_mode ) == 'bulk_velocity' ) THEN
	1485	volume_flow_initial(1) = u_bulk * volume_flow_area(1)
	1486	volume_flow_initial(2) = v_bulk * volume_flow_area(2)
	1487	ENDIF
[667]	1488
[680]	1489	ENDIF
	1490
[787]	1491	!
	1492	!-- Initialize quantities for special advections schemes
	1493	CALL init_advec
[680]	1494
[667]	1495	!
[680]	1496	!-- Impose random perturbation on the horizontal velocity field and then
	1497	!-- remove the divergences from the velocity field at the initial stage
	1498	IF ( create_disturbances .AND. &
	1499	TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
	1500	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1501
	1502	CALL disturb_field( nzb_u_inner, tend, u )
	1503	CALL disturb_field( nzb_v_inner, tend, v )
	1504	n_sor = nsor_ini
[1221]	1505	!$acc data copyin( d, ddzu, ddzw, nzb_s_inner, nzb_u_inner ) &
	1506	!$acc copyin( nzb_v_inner, nzb_w_inner, p, rflags_s_inner, tend ) &
	1507	!$acc copyin( weight_pres, weight_substep ) &
	1508	!$acc copy( tri, tric, u, v, w )
[680]	1509	CALL pres
[1111]	1510	!$acc end data
[680]	1511	n_sor = nsor
	1512	ENDIF
	1513
	1514	!
[138]	1515	!-- Initialization of the leaf area density
[709]	1516	IF ( plant_canopy ) THEN
[138]	1517
	1518	SELECT CASE ( TRIM( canopy_mode ) )
	1519
	1520	CASE( 'block' )
	1521
[667]	1522	DO i = nxlg, nxrg
	1523	DO j = nysg, nyng
[138]	1524	lad_s(:,j,i) = lad(:)
	1525	cdc(:,j,i) = drag_coefficient
[709]	1526	IF ( passive_scalar ) THEN
[153]	1527	sls(:,j,i) = leaf_surface_concentration
	1528	sec(:,j,i) = scalar_exchange_coefficient
	1529	ENDIF
[138]	1530	ENDDO
	1531	ENDDO
	1532
	1533	CASE DEFAULT
	1534
	1535	!
	1536	!-- The DEFAULT case is reached either if the parameter
	1537	!-- canopy mode contains a wrong character string or if the
	1538	!-- user has coded a special case in the user interface.
	1539	!-- There, the subroutine user_init_plant_canopy checks
	1540	!-- which of these two conditions applies.
	1541	CALL user_init_plant_canopy
	1542
	1543	END SELECT
	1544
[667]	1545	CALL exchange_horiz( lad_s, nbgp )
	1546	CALL exchange_horiz( cdc, nbgp )
[138]	1547
[709]	1548	IF ( passive_scalar ) THEN
[667]	1549	CALL exchange_horiz( sls, nbgp )
	1550	CALL exchange_horiz( sec, nbgp )
[153]	1551	ENDIF
	1552
	1553	!
	1554	!-- Sharp boundaries of the plant canopy in horizontal directions
	1555	!-- In vertical direction the interpolation is retained, as the leaf
	1556	!-- area density is initialised by prescribing a vertical profile
	1557	!-- consisting of piecewise linear segments. The upper boundary
	1558	!-- of the plant canopy is now defined by lad_w(pch_index,:,:) = 0.0.
	1559
[138]	1560	DO i = nxl, nxr
	1561	DO j = nys, nyn
	1562	DO k = nzb, nzt+1
[709]	1563	IF ( lad_s(k,j,i) > 0.0 ) THEN
[153]	1564	lad_u(k,j,i) = lad_s(k,j,i)
	1565	lad_u(k,j,i+1) = lad_s(k,j,i)
	1566	lad_v(k,j,i) = lad_s(k,j,i)
	1567	lad_v(k,j+1,i) = lad_s(k,j,i)
	1568	ENDIF
[138]	1569	ENDDO
	1570	DO k = nzb, nzt
	1571	lad_w(k,j,i) = 0.5 * ( lad_s(k+1,j,i) + lad_s(k,j,i) )
	1572	ENDDO
	1573	ENDDO
	1574	ENDDO
	1575
[153]	1576	lad_w(pch_index,:,:) = 0.0
	1577	lad_w(nzt+1,:,:) = lad_w(nzt,:,:)
[138]	1578
[667]	1579	CALL exchange_horiz( lad_u, nbgp )
	1580	CALL exchange_horiz( lad_v, nbgp )
	1581	CALL exchange_horiz( lad_w, nbgp )
[153]	1582
	1583	!
	1584	!-- Initialisation of the canopy heat source distribution
[709]	1585	IF ( cthf /= 0.0 ) THEN
[153]	1586	!
	1587	!-- Piecewise evaluation of the leaf area index by
	1588	!-- integration of the leaf area density
	1589	lai(:,:,:) = 0.0
[667]	1590	DO i = nxlg, nxrg
	1591	DO j = nysg, nyng
[153]	1592	DO k = pch_index-1, 0, -1
	1593	lai(k,j,i) = lai(k+1,j,i) + &
	1594	( 0.5 * ( lad_w(k+1,j,i) + &
	1595	lad_s(k+1,j,i) ) * &
	1596	( zw(k+1) - zu(k+1) ) ) + &
	1597	( 0.5 * ( lad_w(k,j,i) + &
	1598	lad_s(k+1,j,i) ) * &
	1599	( zu(k+1) - zw(k) ) )
	1600	ENDDO
	1601	ENDDO
	1602	ENDDO
	1603
	1604	!
	1605	!-- Evaluation of the upward kinematic vertical heat flux within the
	1606	!-- canopy
[667]	1607	DO i = nxlg, nxrg
	1608	DO j = nysg, nyng
[153]	1609	DO k = 0, pch_index
	1610	canopy_heat_flux(k,j,i) = cthf * &
	1611	exp( -0.6 * lai(k,j,i) )
	1612	ENDDO
	1613	ENDDO
	1614	ENDDO
	1615
	1616	!
	1617	!-- The near surface heat flux is derived from the heat flux
	1618	!-- distribution within the canopy
	1619	shf(:,:) = canopy_heat_flux(0,:,:)
	1620
	1621	ENDIF
	1622
[138]	1623	ENDIF
	1624
	1625	!
[1]	1626	!-- If required, initialize dvrp-software
	1627	IF ( dt_dvrp /= 9999999.9 ) CALL init_dvrp
	1628
[96]	1629	IF ( ocean ) THEN
[1]	1630	!
[96]	1631	!-- Initialize quantities needed for the ocean model
	1632	CALL init_ocean
[388]	1633
[96]	1634	ELSE
	1635	!
	1636	!-- Initialize quantities for handling cloud physics
[849]	1637	!-- This routine must be called before lpm_init, because
[96]	1638	!-- otherwise, array pt_d_t, needed in data_output_dvrp (called by
[849]	1639	!-- lpm_init) is not defined.
[96]	1640	CALL init_cloud_physics
	1641	ENDIF
[1]	1642
	1643	!
	1644	!-- If required, initialize particles
[849]	1645	IF ( particle_advection ) CALL lpm_init
[1]	1646
	1647	!
[673]	1648	!-- Initialize the ws-scheme.
	1649	IF ( ws_scheme_sca .OR. ws_scheme_mom ) CALL ws_init
[1]	1650
	1651	!
[709]	1652	!-- Setting weighting factors for calculation of perturbation pressure
	1653	!-- and turbulent quantities from the RK substeps
	1654	IF ( TRIM(timestep_scheme) == 'runge-kutta-3' ) THEN ! for RK3-method
	1655
[713]	1656	weight_substep(1) = 1./6.
	1657	weight_substep(2) = 3./10.
	1658	weight_substep(3) = 8./15.
[709]	1659
[713]	1660	weight_pres(1) = 1./3.
	1661	weight_pres(2) = 5./12.
	1662	weight_pres(3) = 1./4.
[709]	1663
	1664	ELSEIF ( TRIM(timestep_scheme) == 'runge-kutta-2' ) THEN ! for RK2-method
	1665
[713]	1666	weight_substep(1) = 1./2.
	1667	weight_substep(2) = 1./2.
[673]	1668
[713]	1669	weight_pres(1) = 1./2.
	1670	weight_pres(2) = 1./2.
[709]	1671
[1001]	1672	ELSE ! for Euler-method
[709]	1673
[673]	1674	weight_substep(1) = 1.0
[709]	1675	weight_pres(1) = 1.0
	1676
[673]	1677	ENDIF
	1678
	1679	!
[1]	1680	!-- Initialize Rayleigh damping factors
[785]	1681	rdf = 0.0
	1682	rdf_sc = 0.0
[1]	1683	IF ( rayleigh_damping_factor /= 0.0 ) THEN
[108]	1684	IF ( .NOT. ocean ) THEN
	1685	DO k = nzb+1, nzt
	1686	IF ( zu(k) >= rayleigh_damping_height ) THEN
	1687	rdf(k) = rayleigh_damping_factor * &
[1]	1688	( SIN( pi * 0.5 * ( zu(k) - rayleigh_damping_height ) &
	1689	/ ( zu(nzt) - rayleigh_damping_height ) )&
	1690	)**2
[108]	1691	ENDIF
	1692	ENDDO
	1693	ELSE
	1694	DO k = nzt, nzb+1, -1
	1695	IF ( zu(k) <= rayleigh_damping_height ) THEN
	1696	rdf(k) = rayleigh_damping_factor * &
	1697	( SIN( pi * 0.5 * ( rayleigh_damping_height - zu(k) ) &
	1698	/ ( rayleigh_damping_height - zu(nzb+1)))&
	1699	)**2
	1700	ENDIF
	1701	ENDDO
	1702	ENDIF
[1]	1703	ENDIF
[785]	1704	IF ( scalar_rayleigh_damping ) rdf_sc = rdf
[1]	1705
	1706	!
[240]	1707	!-- Initialize the starting level and the vertical smoothing factor used for
	1708	!-- the external pressure gradient
	1709	dp_smooth_factor = 1.0
	1710	IF ( dp_external ) THEN
	1711	!
	1712	!-- Set the starting level dp_level_ind_b only if it has not been set before
	1713	!-- (e.g. in init_grid).
	1714	IF ( dp_level_ind_b == 0 ) THEN
	1715	ind_array = MINLOC( ABS( dp_level_b - zu ) )
	1716	dp_level_ind_b = ind_array(1) - 1 + nzb
	1717	! MINLOC uses lower array bound 1
	1718	ENDIF
	1719	IF ( dp_smooth ) THEN
	1720	dp_smooth_factor(:dp_level_ind_b) = 0.0
	1721	DO k = dp_level_ind_b+1, nzt
	1722	dp_smooth_factor(k) = 0.5 * ( 1.0 + SIN( pi * &
	1723	( REAL( k - dp_level_ind_b ) / &
	1724	REAL( nzt - dp_level_ind_b ) - 0.5 ) ) )
	1725	ENDDO
	1726	ENDIF
	1727	ENDIF
	1728
	1729	!
[978]	1730	!-- Initialize damping zone for the potential temperature in case of
	1731	!-- non-cyclic lateral boundaries. The damping zone has the maximum value
	1732	!-- at the inflow boundary and decreases to zero at pt_damping_width.
	1733	ptdf_x = 0.0
	1734	ptdf_y = 0.0
[1159]	1735	IF ( bc_lr_dirrad ) THEN
[996]	1736	DO i = nxl, nxr
[978]	1737	IF ( ( i * dx ) < pt_damping_width ) THEN
	1738	ptdf_x(i) = pt_damping_factor * ( SIN( pi * 0.5 * &
	1739	REAL( pt_damping_width - i * dx ) / ( &
	1740	REAL( pt_damping_width ) ) ) )**2
[73]	1741	ENDIF
	1742	ENDDO
[1159]	1743	ELSEIF ( bc_lr_raddir ) THEN
[996]	1744	DO i = nxl, nxr
[978]	1745	IF ( ( i * dx ) > ( nx * dx - pt_damping_width ) ) THEN
[996]	1746	ptdf_x(i) = pt_damping_factor * &
	1747	SIN( pi * 0.5 * ( ( i - nx ) * dx + pt_damping_width ) / &
	1748	REAL( pt_damping_width ) )**2
[73]	1749	ENDIF
[978]	1750	ENDDO
[1159]	1751	ELSEIF ( bc_ns_dirrad ) THEN
[996]	1752	DO j = nys, nyn
[978]	1753	IF ( ( j * dy ) > ( ny * dy - pt_damping_width ) ) THEN
[996]	1754	ptdf_y(j) = pt_damping_factor * &
	1755	SIN( pi * 0.5 * ( ( j - ny ) * dy + pt_damping_width ) / &
	1756	REAL( pt_damping_width ) )**2
[1]	1757	ENDIF
[978]	1758	ENDDO
[1159]	1759	ELSEIF ( bc_ns_raddir ) THEN
[996]	1760	DO j = nys, nyn
[978]	1761	IF ( ( j * dy ) < pt_damping_width ) THEN
[996]	1762	ptdf_y(j) = pt_damping_factor * &
	1763	SIN( pi * 0.5 * ( pt_damping_width - j * dy ) / &
	1764	REAL( pt_damping_width ) )**2
[1]	1765	ENDIF
[73]	1766	ENDDO
[1]	1767	ENDIF
	1768
	1769	!
[709]	1770	!-- Initialize local summation arrays for routine flow_statistics.
	1771	!-- This is necessary because they may not yet have been initialized when they
	1772	!-- are called from flow_statistics (or - depending on the chosen model run -
	1773	!-- are never initialized)
[1]	1774	sums_divnew_l = 0.0
	1775	sums_divold_l = 0.0
	1776	sums_l_l = 0.0
	1777	sums_up_fraction_l = 0.0
	1778	sums_wsts_bc_l = 0.0
	1779
	1780	!
	1781	!-- Pre-set masks for regional statistics. Default is the total model domain.
[1015]	1782	!-- Ghost points are excluded because counting values at the ghost boundaries
	1783	!-- would bias the statistics
[1]	1784	rmask = 1.0
[1025]	1785	rmask(:,nxlg:nxl-1,:) = 0.0; rmask(:,nxr+1:nxrg,:) = 0.0
	1786	rmask(nysg:nys-1,:,:) = 0.0; rmask(nyn+1:nyng,:,:) = 0.0
[1]	1787
	1788	!
[51]	1789	!-- User-defined initializing actions. Check afterwards, if maximum number
[709]	1790	!-- of allowed timeseries is exceeded
[1]	1791	CALL user_init
	1792
[51]	1793	IF ( dots_num > dots_max ) THEN
[254]	1794	WRITE( message_string, * ) 'number of time series quantities exceeds', &
[274]	1795	' its maximum of dots_max = ', dots_max, &
[254]	1796	' &Please increase dots_max in modules.f90.'
	1797	CALL message( 'init_3d_model', 'PA0194', 1, 2, 0, 6, 0 )
[51]	1798	ENDIF
	1799
[1]	1800	!
	1801	!-- Input binary data file is not needed anymore. This line must be placed
	1802	!-- after call of user_init!
	1803	CALL close_file( 13 )
	1804
	1805	!
	1806	!-- Compute total sum of active mask grid points
	1807	!-- ngp_2dh: number of grid points of a horizontal cross section through the
	1808	!-- total domain
	1809	!-- ngp_3d: number of grid points of the total domain
[132]	1810	ngp_2dh_outer_l = 0
	1811	ngp_2dh_outer = 0
	1812	ngp_2dh_s_inner_l = 0
	1813	ngp_2dh_s_inner = 0
	1814	ngp_2dh_l = 0
	1815	ngp_2dh = 0
[485]	1816	ngp_3d_inner_l = 0.0
[132]	1817	ngp_3d_inner = 0
	1818	ngp_3d = 0
	1819	ngp_sums = ( nz + 2 ) * ( pr_palm + max_pr_user )
[1]	1820
	1821	DO sr = 0, statistic_regions
	1822	DO i = nxl, nxr
	1823	DO j = nys, nyn
	1824	IF ( rmask(j,i,sr) == 1.0 ) THEN
	1825	!
	1826	!-- All xy-grid points
	1827	ngp_2dh_l(sr) = ngp_2dh_l(sr) + 1
	1828	!
	1829	!-- xy-grid points above topography
	1830	DO k = nzb_s_outer(j,i), nz + 1
	1831	ngp_2dh_outer_l(k,sr) = ngp_2dh_outer_l(k,sr) + 1
	1832	ENDDO
[132]	1833	DO k = nzb_s_inner(j,i), nz + 1
	1834	ngp_2dh_s_inner_l(k,sr) = ngp_2dh_s_inner_l(k,sr) + 1
	1835	ENDDO
[1]	1836	!
	1837	!-- All grid points of the total domain above topography
	1838	ngp_3d_inner_l(sr) = ngp_3d_inner_l(sr) + &
	1839	( nz - nzb_s_inner(j,i) + 2 )
	1840	ENDIF
	1841	ENDDO
	1842	ENDDO
	1843	ENDDO
	1844
	1845	sr = statistic_regions + 1
	1846	#if defined( __parallel )
[622]	1847	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1848	CALL MPI_ALLREDUCE( ngp_2dh_l(0), ngp_2dh(0), sr, MPI_INTEGER, MPI_SUM, &
[1]	1849	comm2d, ierr )
[622]	1850	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1851	CALL MPI_ALLREDUCE( ngp_2dh_outer_l(0,0), ngp_2dh_outer(0,0), (nz+2)*sr, &
[1]	1852	MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	1853	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1854	CALL MPI_ALLREDUCE( ngp_2dh_s_inner_l(0,0), ngp_2dh_s_inner(0,0), &
[132]	1855	(nz+2)*sr, MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	1856	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[485]	1857	CALL MPI_ALLREDUCE( ngp_3d_inner_l(0), ngp_3d_inner_tmp(0), sr, MPI_REAL, &
[1]	1858	MPI_SUM, comm2d, ierr )
[485]	1859	ngp_3d_inner = INT( ngp_3d_inner_tmp, KIND = SELECTED_INT_KIND( 18 ) )
[1]	1860	#else
[132]	1861	ngp_2dh = ngp_2dh_l
	1862	ngp_2dh_outer = ngp_2dh_outer_l
	1863	ngp_2dh_s_inner = ngp_2dh_s_inner_l
[485]	1864	ngp_3d_inner = INT( ngp_3d_inner_l, KIND = SELECTED_INT_KIND( 18 ) )
[1]	1865	#endif
	1866
[560]	1867	ngp_3d = INT ( ngp_2dh, KIND = SELECTED_INT_KIND( 18 ) ) * &
	1868	INT ( (nz + 2 ), KIND = SELECTED_INT_KIND( 18 ) )
[1]	1869
	1870	!
	1871	!-- Set a lower limit of 1 in order to avoid zero divisions in flow_statistics,
	1872	!-- buoyancy, etc. A zero value will occur for cases where all grid points of
	1873	!-- the respective subdomain lie below the surface topography
[667]	1874	ngp_2dh_outer = MAX( 1, ngp_2dh_outer(:,:) )
[631]	1875	ngp_3d_inner = MAX( INT(1, KIND = SELECTED_INT_KIND( 18 )), &
	1876	ngp_3d_inner(:) )
[667]	1877	ngp_2dh_s_inner = MAX( 1, ngp_2dh_s_inner(:,:) )
[1]	1878
[485]	1879	DEALLOCATE( ngp_2dh_l, ngp_2dh_outer_l, ngp_3d_inner_l, ngp_3d_inner_tmp )
[1]	1880
	1881
	1882	END SUBROUTINE init_3d_model

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