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source: palm/trunk/SOURCE/init_3d_model.f90 @ 1060

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

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