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source: palm/trunk/SOURCE/init_3d_model.f90 @ 1117

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

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