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source: palm/trunk/SOURCE/init_3d_model.f90 @ 153

Last change on this file since 153 was 153, checked in by steinfeld, 17 years ago
Update for the plant canopy model
Property svn:keywords set to `Id`
File size: 48.4 KB

Line
1	#if defined( __ibmy_special )
2	@PROCESS NOOPTimize
3	#endif
4	SUBROUTINE init_3d_model
5
6	!------------------------------------------------------------------------------!
7	! Actual revisions:
8	! -----------------
9	! Further amendments to and modifications in the initialisation of the plant
10	! canopy model
11	! Allocation of hom_sum moved to parin, initialization of spectrum_x\|y directly
12	! after allocating theses arrays,
13	! read data for recycling added as new initialization option
14	!
15	! Former revisions:
16	! -----------------
17	! $Id: init_3d_model.f90 153 2008-03-19 09:41:30Z steinfeld $
18	!
19	! 138 2007-11-28 10:03:58Z letzel
20	! New counter ngp_2dh_s_inner.
21	! Allow new case bc_uv_t = 'dirichlet_0' for channel flow.
22	! Corrected calculation of initial volume flow for 'set_1d-model_profiles' and
23	! 'set_constant_profiles' in case of buildings in the reference cross-sections.
24	!
25	! 108 2007-08-24 15:10:38Z letzel
26	! Flux initialization in case of coupled runs, +momentum fluxes at top boundary,
27	! +arrays for phase speed c_u, c_v, c_w, indices for u\|v\|w_m_l\|r changed
28	! +qswst_remote in case of atmosphere model with humidity coupled to ocean
29	! Rayleigh damping for ocean, optionally calculate km and kh from initial
30	! TKE e_init
31	!
32	! 97 2007-06-21 08:23:15Z raasch
33	! Initialization of salinity, call of init_ocean
34	!
35	! 87 2007-05-22 15:46:47Z raasch
36	! var_hom and var_sum renamed pr_palm
37	!
38	! 75 2007-03-22 09:54:05Z raasch
39	! Arrays for radiation boundary conditions are allocated (u_m_l, u_m_r, etc.),
40	! bugfix for cases with the outflow damping layer extending over more than one
41	! subdomain, moisture renamed humidity,
42	! new initializing action "by_user" calls user_init_3d_model,
43	! precipitation_amount/rate, ts_value are allocated, +module netcdf_control,
44	! initial velocities at nzb+1 are regarded for volume
45	! flow control in case they have been set zero before (to avoid small timesteps)
46	! -uvmean_outflow, uxrp, vynp eliminated
47	!
48	! 19 2007-02-23 04:53:48Z raasch
49	! +handling of top fluxes
50	!
51	! RCS Log replace by Id keyword, revision history cleaned up
52	!
53	! Revision 1.49 2006/08/22 15:59:07 raasch
54	! No optimization of this file on the ibmy (Yonsei Univ.)
55	!
56	! Revision 1.1 1998/03/09 16:22:22 raasch
57	! Initial revision
58	!
59	!
60	! Description:
61	! ------------
62	! Allocation of arrays and initialization of the 3D model via
63	! a) pre-run the 1D model
64	! or
65	! b) pre-set constant linear profiles
66	! or
67	! c) read values of a previous run
68	!------------------------------------------------------------------------------!
69
70	USE arrays_3d
71	USE averaging
72	USE cloud_parameters
73	USE constants
74	USE control_parameters
75	USE cpulog
76	USE indices
77	USE interfaces
78	USE model_1d
79	USE netcdf_control
80	USE particle_attributes
81	USE pegrid
82	USE profil_parameter
83	USE random_function_mod
84	USE statistics
85
86	IMPLICIT NONE
87
88	INTEGER :: i, j, k, sr
89
90	INTEGER, DIMENSION(:), ALLOCATABLE :: ngp_2dh_l, ngp_3d_inner_l
91
92	INTEGER, DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_outer_l, &
93	ngp_2dh_s_inner_l
94
95	REAL :: a, b
96
97	REAL, DIMENSION(1:2) :: volume_flow_area_l, volume_flow_initial_l
98
99
100	!
101	!-- Allocate arrays
102	ALLOCATE( ngp_2dh(0:statistic_regions), ngp_2dh_l(0:statistic_regions), &
103	ngp_3d(0:statistic_regions), &
104	ngp_3d_inner(0:statistic_regions), &
105	ngp_3d_inner_l(0:statistic_regions), &
106	sums_divnew_l(0:statistic_regions), &
107	sums_divold_l(0:statistic_regions) )
108	ALLOCATE( rdf(nzb+1:nzt) )
109	ALLOCATE( ngp_2dh_outer(nzb:nzt+1,0:statistic_regions), &
110	ngp_2dh_outer_l(nzb:nzt+1,0:statistic_regions), &
111	ngp_2dh_s_inner(nzb:nzt+1,0:statistic_regions), &
112	ngp_2dh_s_inner_l(nzb:nzt+1,0:statistic_regions), &
113	rmask(nys-1:nyn+1,nxl-1:nxr+1,0:statistic_regions), &
114	sums(nzb:nzt+1,pr_palm+max_pr_user), &
115	sums_l(nzb:nzt+1,pr_palm+max_pr_user,0:threads_per_task-1), &
116	sums_l_l(nzb:nzt+1,0:statistic_regions,0:threads_per_task-1), &
117	sums_up_fraction_l(10,3,0:statistic_regions), &
118	sums_wsts_bc_l(nzb:nzt+1,0:statistic_regions), &
119	ts_value(var_ts,0:statistic_regions) )
120	ALLOCATE( km_damp_x(nxl-1:nxr+1), km_damp_y(nys-1:nyn+1) )
121
122	ALLOCATE( rif_1(nys-1:nyn+1,nxl-1:nxr+1), shf_1(nys-1:nyn+1,nxl-1:nxr+1), &
123	ts(nys-1:nyn+1,nxl-1:nxr+1), tswst_1(nys-1:nyn+1,nxl-1:nxr+1), &
124	us(nys-1:nyn+1,nxl-1:nxr+1), usws_1(nys-1:nyn+1,nxl-1:nxr+1), &
125	uswst_1(nys-1:nyn+1,nxl-1:nxr+1), &
126	vsws_1(nys-1:nyn+1,nxl-1:nxr+1), &
127	vswst_1(nys-1:nyn+1,nxl-1:nxr+1), z0(nys-1:nyn+1,nxl-1:nxr+1) )
128
129	IF ( timestep_scheme(1:5) /= 'runge' ) THEN
130	!
131	!-- Leapfrog scheme needs two timelevels of diffusion quantities
132	ALLOCATE( rif_2(nys-1:nyn+1,nxl-1:nxr+1), &
133	shf_2(nys-1:nyn+1,nxl-1:nxr+1), &
134	tswst_2(nys-1:nyn+1,nxl-1:nxr+1), &
135	usws_2(nys-1:nyn+1,nxl-1:nxr+1), &
136	uswst_2(nys-1:nyn+1,nxl-1:nxr+1), &
137	vswst_2(nys-1:nyn+1,nxl-1:nxr+1), &
138	vsws_2(nys-1:nyn+1,nxl-1:nxr+1) )
139	ENDIF
140
141	ALLOCATE( d(nzb+1:nzta,nys:nyna,nxl:nxra), &
142	e_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
143	e_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
144	e_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
145	kh_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
146	km_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
147	p(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
148	pt_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
149	pt_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
150	pt_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
151	tend(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
152	u_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
153	u_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
154	u_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
155	v_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
156	v_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
157	v_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
158	w_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
159	w_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
160	w_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
161
162	IF ( timestep_scheme(1:5) /= 'runge' ) THEN
163	ALLOCATE( kh_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
164	km_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
165	ENDIF
166
167	IF ( humidity .OR. passive_scalar ) THEN
168	!
169	!-- 2D-humidity/scalar arrays
170	ALLOCATE ( qs(nys-1:nyn+1,nxl-1:nxr+1), &
171	qsws_1(nys-1:nyn+1,nxl-1:nxr+1), &
172	qswst_1(nys-1:nyn+1,nxl-1:nxr+1) )
173
174	IF ( timestep_scheme(1:5) /= 'runge' ) THEN
175	ALLOCATE( qsws_2(nys-1:nyn+1,nxl-1:nxr+1), &
176	qswst_2(nys-1:nyn+1,nxl-1:nxr+1) )
177	ENDIF
178	!
179	!-- 3D-humidity/scalar arrays
180	ALLOCATE( q_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
181	q_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
182	q_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
183
184	!
185	!-- 3D-arrays needed for humidity only
186	IF ( humidity ) THEN
187	ALLOCATE( vpt_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
188
189	IF ( timestep_scheme(1:5) /= 'runge' ) THEN
190	ALLOCATE( vpt_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
191	ENDIF
192
193	IF ( cloud_physics ) THEN
194	!
195	!-- Liquid water content
196	ALLOCATE ( ql_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
197	!
198	!-- Precipitation amount and rate (only needed if output is switched)
199	ALLOCATE( precipitation_amount(nys-1:nyn+1,nxl-1:nxr+1), &
200	precipitation_rate(nys-1:nyn+1,nxl-1:nxr+1) )
201	ENDIF
202
203	IF ( cloud_droplets ) THEN
204	!
205	!-- Liquid water content, change in liquid water content,
206	!-- real volume of particles (with weighting), volume of particles
207	ALLOCATE ( ql_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
208	ql_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
209	ql_v(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
210	ql_vp(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
211	ENDIF
212
213	ENDIF
214
215	ENDIF
216
217	IF ( ocean ) THEN
218	ALLOCATE( saswsb_1(nys-1:nyn+1,nxl-1:nxr+1), &
219	saswst_1(nys-1:nyn+1,nxl-1:nxr+1) )
220	ALLOCATE( rho_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
221	sa_1(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
222	sa_2(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
223	sa_3(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
224	rho => rho_1 ! routine calc_mean_profile requires density to be a
225	! pointer
226	IF ( humidity_remote ) THEN
227	ALLOCATE( qswst_remote(nys-1:nyn+1,nxl-1:nxr+1) )
228	qswst_remote = 0.0
229	ENDIF
230	ENDIF
231
232	!
233	!-- 3D-array for storing the dissipation, needed for calculating the sgs
234	!-- particle velocities
235	IF ( use_sgs_for_particles ) THEN
236	ALLOCATE ( diss(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
237	ENDIF
238
239	IF ( dt_dosp /= 9999999.9 ) THEN
240	ALLOCATE( spectrum_x( 1:nx/2, 1:10, 1:10 ), &
241	spectrum_y( 1:ny/2, 1:10, 1:10 ) )
242	spectrum_x = 0.0
243	spectrum_y = 0.0
244	ENDIF
245
246	!
247	!-- 3D-arrays for the leaf area density and the canopy drag coefficient
248	IF ( plant_canopy ) THEN
249	ALLOCATE ( lad_s(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
250	lad_u(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
251	lad_v(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
252	lad_w(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
253	cdc(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
254
255	IF ( passive_scalar ) THEN
256	ALLOCATE ( sls(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
257	sec(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
258	ENDIF
259
260	IF ( cthf /= 0.0 ) THEN
261	ALLOCATE ( lai(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1), &
262	canopy_heat_flux(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
263	ENDIF
264
265	ENDIF
266
267	!
268	!-- 4D-array for storing the Rif-values at vertical walls
269	IF ( topography /= 'flat' ) THEN
270	ALLOCATE( rif_wall(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1,1:4) )
271	rif_wall = 0.0
272	ENDIF
273
274	!
275	!-- Velocities at nzb+1 needed for volume flow control
276	IF ( conserve_volume_flow ) THEN
277	ALLOCATE( u_nzb_p1_for_vfc(nys:nyn), v_nzb_p1_for_vfc(nxl:nxr) )
278	u_nzb_p1_for_vfc = 0.0
279	v_nzb_p1_for_vfc = 0.0
280	ENDIF
281
282	!
283	!-- Arrays to store velocity data from t-dt and the phase speeds which
284	!-- are needed for radiation boundary conditions
285	IF ( outflow_l ) THEN
286	ALLOCATE( u_m_l(nzb:nzt+1,nys-1:nyn+1,1:2), &
287	v_m_l(nzb:nzt+1,nys-1:nyn+1,0:1), &
288	w_m_l(nzb:nzt+1,nys-1:nyn+1,0:1) )
289	ENDIF
290	IF ( outflow_r ) THEN
291	ALLOCATE( u_m_r(nzb:nzt+1,nys-1:nyn+1,nx-1:nx), &
292	v_m_r(nzb:nzt+1,nys-1:nyn+1,nx-1:nx), &
293	w_m_r(nzb:nzt+1,nys-1:nyn+1,nx-1:nx) )
294	ENDIF
295	IF ( outflow_l .OR. outflow_r ) THEN
296	ALLOCATE( c_u(nzb:nzt+1,nys-1:nyn+1), c_v(nzb:nzt+1,nys-1:nyn+1), &
297	c_w(nzb:nzt+1,nys-1:nyn+1) )
298	ENDIF
299	IF ( outflow_s ) THEN
300	ALLOCATE( u_m_s(nzb:nzt+1,0:1,nxl-1:nxr+1), &
301	v_m_s(nzb:nzt+1,1:2,nxl-1:nxr+1), &
302	w_m_s(nzb:nzt+1,0:1,nxl-1:nxr+1) )
303	ENDIF
304	IF ( outflow_n ) THEN
305	ALLOCATE( u_m_n(nzb:nzt+1,ny-1:ny,nxl-1:nxr+1), &
306	v_m_n(nzb:nzt+1,ny-1:ny,nxl-1:nxr+1), &
307	w_m_n(nzb:nzt+1,ny-1:ny,nxl-1:nxr+1) )
308	ENDIF
309	IF ( outflow_s .OR. outflow_n ) THEN
310	ALLOCATE( c_u(nzb:nzt+1,nxl-1:nxr+1), c_v(nzb:nzt+1,nxl-1:nxr+1), &
311	c_w(nzb:nzt+1,nxl-1:nxr+1) )
312	ENDIF
313
314	!
315	!-- Initial assignment of the pointers
316	IF ( timestep_scheme(1:5) /= 'runge' ) THEN
317
318	rif_m => rif_1; rif => rif_2
319	shf_m => shf_1; shf => shf_2
320	tswst_m => tswst_1; tswst => tswst_2
321	usws_m => usws_1; usws => usws_2
322	uswst_m => uswst_1; uswst => uswst_2
323	vsws_m => vsws_1; vsws => vsws_2
324	vswst_m => vswst_1; vswst => vswst_2
325	e_m => e_1; e => e_2; e_p => e_3; te_m => e_3
326	kh_m => kh_1; kh => kh_2
327	km_m => km_1; km => km_2
328	pt_m => pt_1; pt => pt_2; pt_p => pt_3; tpt_m => pt_3
329	u_m => u_1; u => u_2; u_p => u_3; tu_m => u_3
330	v_m => v_1; v => v_2; v_p => v_3; tv_m => v_3
331	w_m => w_1; w => w_2; w_p => w_3; tw_m => w_3
332
333	IF ( humidity .OR. passive_scalar ) THEN
334	qsws_m => qsws_1; qsws => qsws_2
335	qswst_m => qswst_1; qswst => qswst_2
336	q_m => q_1; q => q_2; q_p => q_3; tq_m => q_3
337	IF ( humidity ) vpt_m => vpt_1; vpt => vpt_2
338	IF ( cloud_physics ) ql => ql_1
339	IF ( cloud_droplets ) THEN
340	ql => ql_1
341	ql_c => ql_2
342	ENDIF
343	ENDIF
344
345	ELSE
346
347	rif => rif_1
348	shf => shf_1
349	tswst => tswst_1
350	usws => usws_1
351	uswst => uswst_1
352	vsws => vsws_1
353	vswst => vswst_1
354	e => e_1; e_p => e_2; te_m => e_3; e_m => e_3
355	kh => kh_1
356	km => km_1
357	pt => pt_1; pt_p => pt_2; tpt_m => pt_3; pt_m => pt_3
358	u => u_1; u_p => u_2; tu_m => u_3; u_m => u_3
359	v => v_1; v_p => v_2; tv_m => v_3; v_m => v_3
360	w => w_1; w_p => w_2; tw_m => w_3; w_m => w_3
361
362	IF ( humidity .OR. passive_scalar ) THEN
363	qsws => qsws_1
364	qswst => qswst_1
365	q => q_1; q_p => q_2; tq_m => q_3; q_m => q_3
366	IF ( humidity ) vpt => vpt_1
367	IF ( cloud_physics ) ql => ql_1
368	IF ( cloud_droplets ) THEN
369	ql => ql_1
370	ql_c => ql_2
371	ENDIF
372	ENDIF
373
374	IF ( ocean ) THEN
375	saswsb => saswsb_1
376	saswst => saswst_1
377	sa => sa_1; sa_p => sa_2; tsa_m => sa_3
378	ENDIF
379
380	ENDIF
381
382	!
383	!-- Initialize model variables
384	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
385	TRIM( initializing_actions ) /= 'read_data_for_recycling' ) THEN
386	!
387	!-- First model run of a possible job queue.
388	!-- Initial profiles of the variables must be computes.
389	IF ( INDEX( initializing_actions, 'set_1d-model_profiles' ) /= 0 ) THEN
390	!
391	!-- Use solutions of the 1D model as initial profiles,
392	!-- start 1D model
393	CALL init_1d_model
394	!
395	!-- Transfer initial profiles to the arrays of the 3D model
396	DO i = nxl-1, nxr+1
397	DO j = nys-1, nyn+1
398	e(:,j,i) = e1d
399	kh(:,j,i) = kh1d
400	km(:,j,i) = km1d
401	pt(:,j,i) = pt_init
402	u(:,j,i) = u1d
403	v(:,j,i) = v1d
404	ENDDO
405	ENDDO
406
407	IF ( humidity .OR. passive_scalar ) THEN
408	DO i = nxl-1, nxr+1
409	DO j = nys-1, nyn+1
410	q(:,j,i) = q_init
411	ENDDO
412	ENDDO
413	ENDIF
414
415	IF ( .NOT. constant_diffusion ) THEN
416	DO i = nxl-1, nxr+1
417	DO j = nys-1, nyn+1
418	e(:,j,i) = e1d
419	ENDDO
420	ENDDO
421	!
422	!-- Store initial profiles for output purposes etc.
423	hom(:,1,25,:) = SPREAD( l1d, 2, statistic_regions+1 )
424
425	IF ( prandtl_layer ) THEN
426	rif = rif1d(nzb+1)
427	ts = 0.0 ! could actually be computed more accurately in the
428	! 1D model. Update when opportunity arises.
429	us = us1d
430	usws = usws1d
431	vsws = vsws1d
432	ELSE
433	ts = 0.0 ! must be set, because used in
434	rif = 0.0 ! flowste
435	us = 0.0
436	usws = 0.0
437	vsws = 0.0
438	ENDIF
439
440	ELSE
441	e = 0.0 ! must be set, because used in
442	rif = 0.0 ! flowste
443	ts = 0.0
444	us = 0.0
445	usws = 0.0
446	vsws = 0.0
447	ENDIF
448	uswst = top_momentumflux_u
449	vswst = top_momentumflux_v
450
451	!
452	!-- In every case qs = 0.0 (see also pt)
453	!-- This could actually be computed more accurately in the 1D model.
454	!-- Update when opportunity arises!
455	IF ( humidity .OR. passive_scalar ) qs = 0.0
456
457	!
458	!-- inside buildings set velocities back to zero
459	IF ( topography /= 'flat' ) THEN
460	DO i = nxl-1, nxr+1
461	DO j = nys-1, nyn+1
462	u(nzb:nzb_u_inner(j,i),j,i) = 0.0
463	v(nzb:nzb_v_inner(j,i),j,i) = 0.0
464	ENDDO
465	ENDDO
466	IF ( conserve_volume_flow ) THEN
467	IF ( nxr == nx ) THEN
468	DO j = nys, nyn
469	DO k = nzb + 1, nzb_u_inner(j,nx)
470	u_nzb_p1_for_vfc(j) = u1d(k) * dzu(k)
471	ENDDO
472	ENDDO
473	ENDIF
474	IF ( nyn == ny ) THEN
475	DO i = nxl, nxr
476	DO k = nzb + 1, nzb_v_inner(ny,i)
477	v_nzb_p1_for_vfc(i) = v1d(k) * dzu(k)
478	ENDDO
479	ENDDO
480	ENDIF
481	ENDIF
482	!
483	!-- WARNING: The extra boundary conditions set after running the
484	!-- ------- 1D model impose an error on the divergence one layer
485	!-- below the topography; need to correct later
486	!-- ATTENTION: Provisional correction for Piacsek & Williams
487	!-- --------- advection scheme: keep u and v zero one layer below
488	!-- the topography.
489	IF ( ibc_uv_b == 0 ) THEN
490	!
491	!-- Satisfying the Dirichlet condition with an extra layer below
492	!-- the surface where the u and v component change their sign.
493	DO i = nxl-1, nxr+1
494	DO j = nys-1, nyn+1
495	IF ( nzb_u_inner(j,i) == 0 ) u(0,j,i) = -u(1,j,i)
496	IF ( nzb_v_inner(j,i) == 0 ) v(0,j,i) = -v(1,j,i)
497	ENDDO
498	ENDDO
499
500	ELSE
501	!
502	!-- Neumann condition
503	DO i = nxl-1, nxr+1
504	DO j = nys-1, nyn+1
505	IF ( nzb_u_inner(j,i) == 0 ) u(0,j,i) = u(1,j,i)
506	IF ( nzb_v_inner(j,i) == 0 ) v(0,j,i) = v(1,j,i)
507	ENDDO
508	ENDDO
509
510	ENDIF
511
512	ENDIF
513
514	ELSEIF ( INDEX(initializing_actions, 'set_constant_profiles') /= 0 ) &
515	THEN
516	!
517	!-- Use constructed initial profiles (velocity constant with height,
518	!-- temperature profile with constant gradient)
519	DO i = nxl-1, nxr+1
520	DO j = nys-1, nyn+1
521	pt(:,j,i) = pt_init
522	u(:,j,i) = u_init
523	v(:,j,i) = v_init
524	ENDDO
525	ENDDO
526
527	!
528	!-- Set initial horizontal velocities at the lowest computational grid levels
529	!-- to zero in order to avoid too small time steps caused by the diffusion
530	!-- limit in the initial phase of a run (at k=1, dz/2 occurs in the
531	!-- limiting formula!). The original values are stored to be later used for
532	!-- volume flow control.
533	DO i = nxl-1, nxr+1
534	DO j = nys-1, nyn+1
535	u(nzb:nzb_u_inner(j,i)+1,j,i) = 0.0
536	v(nzb:nzb_v_inner(j,i)+1,j,i) = 0.0
537	ENDDO
538	ENDDO
539	IF ( conserve_volume_flow ) THEN
540	IF ( nxr == nx ) THEN
541	DO j = nys, nyn
542	DO k = nzb + 1, nzb_u_inner(j,nx) + 1
543	u_nzb_p1_for_vfc(j) = u_init(k) * dzu(k)
544	ENDDO
545	ENDDO
546	ENDIF
547	IF ( nyn == ny ) THEN
548	DO i = nxl, nxr
549	DO k = nzb + 1, nzb_v_inner(ny,i) + 1
550	v_nzb_p1_for_vfc(i) = v_init(k) * dzu(k)
551	ENDDO
552	ENDDO
553	ENDIF
554	ENDIF
555
556	IF ( humidity .OR. passive_scalar ) THEN
557	DO i = nxl-1, nxr+1
558	DO j = nys-1, nyn+1
559	q(:,j,i) = q_init
560	ENDDO
561	ENDDO
562	ENDIF
563
564	IF ( ocean ) THEN
565	DO i = nxl-1, nxr+1
566	DO j = nys-1, nyn+1
567	sa(:,j,i) = sa_init
568	ENDDO
569	ENDDO
570	ENDIF
571
572	IF ( constant_diffusion ) THEN
573	km = km_constant
574	kh = km / prandtl_number
575	e = 0.0
576	ELSEIF ( e_init > 0.0 ) THEN
577	DO k = nzb+1, nzt
578	km(k,:,:) = 0.1 * l_grid(k) * SQRT( e_init )
579	ENDDO
580	km(nzb,:,:) = km(nzb+1,:,:)
581	km(nzt+1,:,:) = km(nzt,:,:)
582	kh = km / prandtl_number
583	e = e_init
584	ELSE
585	IF ( .NOT. ocean ) THEN
586	kh = 0.01 ! there must exist an initial diffusion, because
587	km = 0.01 ! otherwise no TKE would be produced by the
588	! production terms, as long as not yet
589	! e = (u/cm)*2 at k=nzb+1
590	ELSE
591	kh = 0.00001
592	km = 0.00001
593	ENDIF
594	e = 0.0
595	ENDIF
596	rif = 0.0
597	ts = 0.0
598	us = 0.0
599	usws = 0.0
600	uswst = top_momentumflux_u
601	vsws = 0.0
602	vswst = top_momentumflux_v
603	IF ( humidity .OR. passive_scalar ) qs = 0.0
604
605	!
606	!-- Compute initial temperature field and other constants used in case
607	!-- of a sloping surface
608	IF ( sloping_surface ) CALL init_slope
609
610	ELSEIF ( INDEX(initializing_actions, 'by_user') /= 0 ) &
611	THEN
612	!
613	!-- Initialization will completely be done by the user
614	CALL user_init_3d_model
615
616	ENDIF
617
618	!
619	!-- Apply channel flow boundary condition
620	IF ( TRIM( bc_uv_t ) == 'dirichlet_0' ) THEN
621
622	u(nzt+1,:,:) = 0.0
623	v(nzt+1,:,:) = 0.0
624
625	!-- For the Dirichlet condition to be correctly applied at the top, set
626	!-- ug and vg to zero there
627	ug(nzt+1) = 0.0
628	vg(nzt+1) = 0.0
629
630	ENDIF
631
632	!
633	!-- Calculate virtual potential temperature
634	IF ( humidity ) vpt = pt * ( 1.0 + 0.61 * q )
635
636	!
637	!-- Store initial profiles for output purposes etc.
638	hom(:,1,5,:) = SPREAD( u(:,nys,nxl), 2, statistic_regions+1 )
639	hom(:,1,6,:) = SPREAD( v(:,nys,nxl), 2, statistic_regions+1 )
640	IF ( ibc_uv_b == 0 ) THEN
641	hom(nzb,1,5,:) = -hom(nzb+1,1,5,:) ! due to satisfying the Dirichlet
642	hom(nzb,1,6,:) = -hom(nzb+1,1,6,:) ! condition with an extra layer
643	! below the surface where the u and v component change their sign
644	ENDIF
645	hom(:,1,7,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
646	hom(:,1,23,:) = SPREAD( km(:,nys,nxl), 2, statistic_regions+1 )
647	hom(:,1,24,:) = SPREAD( kh(:,nys,nxl), 2, statistic_regions+1 )
648
649	IF ( ocean ) THEN
650	!
651	!-- Store initial salinity profile
652	hom(:,1,26,:) = SPREAD( sa(:,nys,nxl), 2, statistic_regions+1 )
653	ENDIF
654
655	IF ( humidity ) THEN
656	!
657	!-- Store initial profile of total water content, virtual potential
658	!-- temperature
659	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
660	hom(:,1,29,:) = SPREAD( vpt(:,nys,nxl), 2, statistic_regions+1 )
661	IF ( cloud_physics .OR. cloud_droplets ) THEN
662	!
663	!-- Store initial profile of specific humidity and potential
664	!-- temperature
665	hom(:,1,27,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
666	hom(:,1,28,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
667	ENDIF
668	ENDIF
669
670	IF ( passive_scalar ) THEN
671	!
672	!-- Store initial scalar profile
673	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
674	ENDIF
675
676	!
677	!-- Initialize fluxes at bottom surface
678	IF ( use_surface_fluxes ) THEN
679
680	IF ( constant_heatflux ) THEN
681	!
682	!-- Heat flux is prescribed
683	IF ( random_heatflux ) THEN
684	CALL disturb_heatflux
685	ELSE
686	shf = surface_heatflux
687	!
688	!-- Over topography surface_heatflux is replaced by wall_heatflux(0)
689	IF ( TRIM( topography ) /= 'flat' ) THEN
690	DO i = nxl-1, nxr+1
691	DO j = nys-1, nyn+1
692	IF ( nzb_s_inner(j,i) /= 0 ) THEN
693	shf(j,i) = wall_heatflux(0)
694	ENDIF
695	ENDDO
696	ENDDO
697	ENDIF
698	ENDIF
699	IF ( ASSOCIATED( shf_m ) ) shf_m = shf
700	ENDIF
701
702	!
703	!-- Determine the near-surface water flux
704	IF ( humidity .OR. passive_scalar ) THEN
705	IF ( constant_waterflux ) THEN
706	qsws = surface_waterflux
707	IF ( ASSOCIATED( qsws_m ) ) qsws_m = qsws
708	ENDIF
709	ENDIF
710
711	ENDIF
712
713	!
714	!-- Initialize fluxes at top surface
715	!-- Currently, only the heatflux and salinity flux can be prescribed.
716	!-- The latent flux is zero in this case!
717	IF ( use_top_fluxes ) THEN
718
719	IF ( constant_top_heatflux ) THEN
720	!
721	!-- Heat flux is prescribed
722	tswst = top_heatflux
723	IF ( ASSOCIATED( tswst_m ) ) tswst_m = tswst
724
725	IF ( humidity .OR. passive_scalar ) THEN
726	qswst = 0.0
727	IF ( ASSOCIATED( qswst_m ) ) qswst_m = qswst
728	ENDIF
729
730	IF ( ocean ) THEN
731	saswsb = bottom_salinityflux
732	saswst = top_salinityflux
733	ENDIF
734	ENDIF
735
736	!
737	!-- Initialization in case of a coupled model run
738	IF ( coupling_mode == 'ocean_to_atmosphere' ) THEN
739	tswst = 0.0
740	IF ( ASSOCIATED( tswst_m ) ) tswst_m = tswst
741	ENDIF
742
743	ENDIF
744
745	!
746	!-- Initialize Prandtl layer quantities
747	IF ( prandtl_layer ) THEN
748
749	z0 = roughness_length
750
751	IF ( .NOT. constant_heatflux ) THEN
752	!
753	!-- Surface temperature is prescribed. Here the heat flux cannot be
754	!-- simply estimated, because therefore rif, u* and theta* would have
755	!-- to be computed by iteration. This is why the heat flux is assumed
756	!-- to be zero before the first time step. It approaches its correct
757	!-- value in the course of the first few time steps.
758	shf = 0.0
759	IF ( ASSOCIATED( shf_m ) ) shf_m = 0.0
760	ENDIF
761
762	IF ( humidity .OR. passive_scalar ) THEN
763	IF ( .NOT. constant_waterflux ) THEN
764	qsws = 0.0
765	IF ( ASSOCIATED( qsws_m ) ) qsws_m = 0.0
766	ENDIF
767	ENDIF
768
769	ENDIF
770
771	!
772	!-- Calculate the initial volume flow at the right and north boundary
773	IF ( conserve_volume_flow ) THEN
774
775	volume_flow_initial_l = 0.0
776	volume_flow_area_l = 0.0
777
778	IF ( nxr == nx ) THEN
779	DO j = nys, nyn
780	DO k = nzb_2d(j,nx) + 1, nzt
781	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
782	u(k,j,nx) * dzu(k)
783	volume_flow_area_l(1) = volume_flow_area_l(1) + dzu(k)
784	ENDDO
785	!
786	!-- Correction if velocity at nzb+1 has been set zero further above
787	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
788	u_nzb_p1_for_vfc(j)
789	ENDDO
790	ENDIF
791
792	IF ( nyn == ny ) THEN
793	DO i = nxl, nxr
794	DO k = nzb_2d(ny,i) + 1, nzt
795	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
796	v(k,ny,i) * dzu(k)
797	volume_flow_area_l(2) = volume_flow_area_l(2) + dzu(k)
798	ENDDO
799	!
800	!-- Correction if velocity at nzb+1 has been set zero further above
801	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
802	v_nzb_p1_for_vfc(i)
803	ENDDO
804	ENDIF
805
806	#if defined( __parallel )
807	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
808	2, MPI_REAL, MPI_SUM, comm2d, ierr )
809	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
810	2, MPI_REAL, MPI_SUM, comm2d, ierr )
811	#else
812	volume_flow_initial = volume_flow_initial_l
813	volume_flow_area = volume_flow_area_l
814	#endif
815	ENDIF
816
817	!
818	!-- For the moment, perturbation pressure and vertical velocity are zero
819	p = 0.0; w = 0.0
820
821	!
822	!-- Initialize array sums (must be defined in first call of pres)
823	sums = 0.0
824
825	!
826	!-- Treating cloud physics, liquid water content and precipitation amount
827	!-- are zero at beginning of the simulation
828	IF ( cloud_physics ) THEN
829	ql = 0.0
830	IF ( precipitation ) precipitation_amount = 0.0
831	ENDIF
832
833	!
834	!-- Impose vortex with vertical axis on the initial velocity profile
835	IF ( INDEX( initializing_actions, 'initialize_vortex' ) /= 0 ) THEN
836	CALL init_rankine
837	ENDIF
838
839	!
840	!-- Impose temperature anomaly (advection test only)
841	IF ( INDEX( initializing_actions, 'initialize_ptanom' ) /= 0 ) THEN
842	CALL init_pt_anomaly
843	ENDIF
844
845	!
846	!-- If required, change the surface temperature at the start of the 3D run
847	IF ( pt_surface_initial_change /= 0.0 ) THEN
848	pt(nzb,:,:) = pt(nzb,:,:) + pt_surface_initial_change
849	ENDIF
850
851	!
852	!-- If required, change the surface humidity/scalar at the start of the 3D
853	!-- run
854	IF ( ( humidity .OR. passive_scalar ) .AND. &
855	q_surface_initial_change /= 0.0 ) THEN
856	q(nzb,:,:) = q(nzb,:,:) + q_surface_initial_change
857	ENDIF
858
859	!
860	!-- Initialize the random number generator (from numerical recipes)
861	CALL random_function_ini
862
863	!
864	!-- Impose random perturbation on the horizontal velocity field and then
865	!-- remove the divergences from the velocity field
866	IF ( create_disturbances ) THEN
867	CALL disturb_field( nzb_u_inner, tend, u )
868	CALL disturb_field( nzb_v_inner, tend, v )
869	n_sor = nsor_ini
870	CALL pres
871	n_sor = nsor
872	ENDIF
873
874	!
875	!-- Once again set the perturbation pressure explicitly to zero in order to
876	!-- assure that it does not generate any divergences in the first time step.
877	!-- At t=0 the velocity field is free of divergence (as constructed above).
878	!-- Divergences being created during a time step are not yet known and thus
879	!-- cannot be corrected during the time step yet.
880	p = 0.0
881
882	!
883	!-- Initialize old and new time levels.
884	IF ( timestep_scheme(1:5) /= 'runge' ) THEN
885	e_m = e; pt_m = pt; u_m = u; v_m = v; w_m = w; kh_m = kh; km_m = km
886	ELSE
887	te_m = 0.0; tpt_m = 0.0; tu_m = 0.0; tv_m = 0.0; tw_m = 0.0
888	ENDIF
889	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
890
891	IF ( humidity .OR. passive_scalar ) THEN
892	IF ( ASSOCIATED( q_m ) ) q_m = q
893	IF ( timestep_scheme(1:5) == 'runge' ) tq_m = 0.0
894	q_p = q
895	IF ( humidity .AND. ASSOCIATED( vpt_m ) ) vpt_m = vpt
896	ENDIF
897
898	IF ( ocean ) THEN
899	tsa_m = 0.0
900	sa_p = sa
901	ENDIF
902
903
904	ELSEIF ( TRIM( initializing_actions ) == 'read_restart_data' .OR. &
905	TRIM( initializing_actions ) == 'read_data_for_recycling' ) &
906	THEN
907	!
908	!-- When reading data for initializing the recycling method, first read
909	!-- some of the global variables from restart file
910	IF ( TRIM( initializing_actions ) == 'read_data_for_recycling' ) THEN
911
912	WRITE (9,*) 'before read_parts_of_var_list'
913	CALL local_flush( 9 )
914	CALL read_parts_of_var_list
915	WRITE (9,*) 'after read_parts_of_var_list'
916	CALL local_flush( 9 )
917	CALL close_file( 13 )
918	!
919	!-- Store temporally and horizontally averaged vertical profiles to be
920	!-- used as mean inflow profiles
921	ALLOCATE( mean_inflow_profiles(nzb:nzt+1,5) )
922
923	mean_inflow_profiles(:,1) = hom_sum(:,1,0) ! u
924	mean_inflow_profiles(:,2) = hom_sum(:,2,0) ! v
925	mean_inflow_profiles(:,4) = hom_sum(:,4,0) ! pt
926	mean_inflow_profiles(:,5) = hom_sum(:,8,0) ! e
927
928	!
929	!-- Use these mean profiles for the inflow (provided that Dirichlet
930	!-- conditions are used)
931	IF ( inflow_l ) THEN
932	DO j = nys-1, nyn+1
933	DO k = nzb, nzt+1
934	u(k,j,-1) = mean_inflow_profiles(k,1)
935	v(k,j,-1) = mean_inflow_profiles(k,2)
936	w(k,j,-1) = 0.0
937	pt(k,j,-1) = mean_inflow_profiles(k,4)
938	e(k,j,-1) = mean_inflow_profiles(k,5)
939	ENDDO
940	ENDDO
941	ENDIF
942
943	!
944	!-- Calculate the damping factors to be used at the inflow. For a
945	!-- turbulent inflow the turbulent fluctuations have to be limited
946	!-- vertically because otherwise the turbulent inflow layer will grow
947	!-- in time.
948	IF ( inflow_damping_height == 9999999.9 ) THEN
949	!
950	!-- Default: use the inversion height calculated by the prerun
951	inflow_damping_height = hom_sum(nzb+6,pr_palm,0)
952
953	ENDIF
954
955	IF ( inflow_damping_width == 9999999.9 ) THEN
956	!
957	!-- Default for the transition range: one tenth of the undamped layer
958	inflow_damping_width = 0.1 * inflow_damping_height
959
960	ENDIF
961
962	ALLOCATE( inflow_damping_factor(nzb:nzt+1) )
963
964	DO k = nzb, nzt+1
965
966	IF ( zu(k) <= inflow_damping_height ) THEN
967	inflow_damping_factor(k) = 1.0
968	ELSEIF ( zu(k) <= inflow_damping_height + inflow_damping_width ) &
969	THEN
970	inflow_damping_factor(k) = 1.0 - &
971	( zu(k) - inflow_damping_height ) / &
972	inflow_damping_width
973	ELSE
974	inflow_damping_factor(k) = 0.0
975	ENDIF
976
977	ENDDO
978
979	ENDIF
980
981	!
982	!-- Calculate the initial volume flow at the right and north boundary
983	IF ( conserve_volume_flow ) THEN
984
985	volume_flow_initial_l = 0.0
986	volume_flow_area_l = 0.0
987
988	IF ( nxr == nx ) THEN
989	DO j = nys, nyn
990	DO k = nzb_2d(j,nx) + 1, nzt
991	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
992	u(k,j,nx) * dzu(k)
993	volume_flow_area_l(1) = volume_flow_area_l(1) + dzu(k)
994	ENDDO
995	!
996	!-- Correction if velocity at nzb+1 has been set zero further above
997	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
998	u_nzb_p1_for_vfc(j)
999	ENDDO
1000	ENDIF
1001
1002	IF ( nyn == ny ) THEN
1003	DO i = nxl, nxr
1004	DO k = nzb_2d(ny,i) + 1, nzt
1005	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
1006	v(k,ny,i) * dzu(k)
1007	volume_flow_area_l(2) = volume_flow_area_l(2) + dzu(k)
1008	ENDDO
1009	!
1010	!-- Correction if velocity at nzb+1 has been set zero further above
1011	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
1012	v_nzb_p1_for_vfc(i)
1013	ENDDO
1014	ENDIF
1015
1016	#if defined( __parallel )
1017	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
1018	2, MPI_REAL, MPI_SUM, comm2d, ierr )
1019	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
1020	2, MPI_REAL, MPI_SUM, comm2d, ierr )
1021	#else
1022	volume_flow_initial = volume_flow_initial_l
1023	volume_flow_area = volume_flow_area_l
1024	#endif
1025	ENDIF
1026
1027
1028	!
1029	!-- Read binary data from restart file
1030	WRITE (9,*) 'before read_3d_binary'
1031	CALL local_flush( 9 )
1032	CALL read_3d_binary
1033	WRITE (9,*) 'after read_3d_binary'
1034	CALL local_flush( 9 )
1035
1036	!
1037	!-- Calculate initial temperature field and other constants used in case
1038	!-- of a sloping surface
1039	IF ( sloping_surface ) CALL init_slope
1040
1041	!
1042	!-- Initialize new time levels (only done in order to set boundary values
1043	!-- including ghost points)
1044	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
1045	IF ( humidity .OR. passive_scalar ) q_p = q
1046	IF ( ocean ) sa_p = sa
1047
1048	ELSE
1049	!
1050	!-- Actually this part of the programm should not be reached
1051	IF ( myid == 0 ) PRINT*,'+++ init_3d_model: unknown initializing ', &
1052	'problem'
1053	CALL local_stop
1054	ENDIF
1055
1056
1057	IF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
1058	!
1059	!-- Initialize old timelevels needed for radiation boundary conditions
1060	IF ( outflow_l ) THEN
1061	u_m_l(:,:,:) = u(:,:,1:2)
1062	v_m_l(:,:,:) = v(:,:,0:1)
1063	w_m_l(:,:,:) = w(:,:,0:1)
1064	ENDIF
1065	IF ( outflow_r ) THEN
1066	u_m_r(:,:,:) = u(:,:,nx-1:nx)
1067	v_m_r(:,:,:) = v(:,:,nx-1:nx)
1068	w_m_r(:,:,:) = w(:,:,nx-1:nx)
1069	ENDIF
1070	IF ( outflow_s ) THEN
1071	u_m_s(:,:,:) = u(:,0:1,:)
1072	v_m_s(:,:,:) = v(:,1:2,:)
1073	w_m_s(:,:,:) = w(:,0:1,:)
1074	ENDIF
1075	IF ( outflow_n ) THEN
1076	u_m_n(:,:,:) = u(:,ny-1:ny,:)
1077	v_m_n(:,:,:) = v(:,ny-1:ny,:)
1078	w_m_n(:,:,:) = w(:,ny-1:ny,:)
1079	ENDIF
1080
1081	ENDIF
1082
1083	!
1084	!-- Initialization of the leaf area density
1085	IF ( plant_canopy ) THEN
1086
1087	SELECT CASE ( TRIM( canopy_mode ) )
1088
1089	CASE( 'block' )
1090
1091	DO i = nxl-1, nxr+1
1092	DO j = nys-1, nyn+1
1093	lad_s(:,j,i) = lad(:)
1094	cdc(:,j,i) = drag_coefficient
1095	IF ( passive_scalar ) THEN
1096	sls(:,j,i) = leaf_surface_concentration
1097	sec(:,j,i) = scalar_exchange_coefficient
1098	ENDIF
1099	ENDDO
1100	ENDDO
1101
1102	CASE DEFAULT
1103
1104	!
1105	!-- The DEFAULT case is reached either if the parameter
1106	!-- canopy mode contains a wrong character string or if the
1107	!-- user has coded a special case in the user interface.
1108	!-- There, the subroutine user_init_plant_canopy checks
1109	!-- which of these two conditions applies.
1110	CALL user_init_plant_canopy
1111
1112	END SELECT
1113
1114	CALL exchange_horiz( lad_s )
1115	CALL exchange_horiz( cdc )
1116
1117	IF ( passive_scalar ) THEN
1118	CALL exchange_horiz( sls )
1119	CALL exchange_horiz( sec )
1120	ENDIF
1121
1122	!
1123	!-- Sharp boundaries of the plant canopy in horizontal directions
1124	!-- In vertical direction the interpolation is retained, as the leaf
1125	!-- area density is initialised by prescribing a vertical profile
1126	!-- consisting of piecewise linear segments. The upper boundary
1127	!-- of the plant canopy is now defined by lad_w(pch_index,:,:) = 0.0.
1128
1129	DO i = nxl, nxr
1130	DO j = nys, nyn
1131	DO k = nzb, nzt+1
1132	IF ( lad_s(k,j,i) > 0.0 ) THEN
1133	lad_u(k,j,i) = lad_s(k,j,i)
1134	lad_u(k,j,i+1) = lad_s(k,j,i)
1135	lad_v(k,j,i) = lad_s(k,j,i)
1136	lad_v(k,j+1,i) = lad_s(k,j,i)
1137	ENDIF
1138	ENDDO
1139	DO k = nzb, nzt
1140	lad_w(k,j,i) = 0.5 * ( lad_s(k+1,j,i) + lad_s(k,j,i) )
1141	ENDDO
1142	ENDDO
1143	ENDDO
1144
1145	lad_w(pch_index,:,:) = 0.0
1146	lad_w(nzt+1,:,:) = lad_w(nzt,:,:)
1147
1148	CALL exchange_horiz( lad_u )
1149	CALL exchange_horiz( lad_v )
1150	CALL exchange_horiz( lad_w )
1151
1152	!
1153	!-- Initialisation of the canopy heat source distribution
1154	IF ( cthf /= 0.0 ) THEN
1155	!
1156	!-- Piecewise evaluation of the leaf area index by
1157	!-- integration of the leaf area density
1158	lai(:,:,:) = 0.0
1159	DO i = nxl-1, nxr+1
1160	DO j = nys-1, nyn+1
1161	DO k = pch_index-1, 0, -1
1162	lai(k,j,i) = lai(k+1,j,i) + &
1163	( 0.5 * ( lad_w(k+1,j,i) + &
1164	lad_s(k+1,j,i) ) * &
1165	( zw(k+1) - zu(k+1) ) ) + &
1166	( 0.5 * ( lad_w(k,j,i) + &
1167	lad_s(k+1,j,i) ) * &
1168	( zu(k+1) - zw(k) ) )
1169	ENDDO
1170	ENDDO
1171	ENDDO
1172
1173	!
1174	!-- Evaluation of the upward kinematic vertical heat flux within the
1175	!-- canopy
1176	DO i = nxl-1, nxr+1
1177	DO j = nys-1, nyn+1
1178	DO k = 0, pch_index
1179	canopy_heat_flux(k,j,i) = cthf * &
1180	exp( -0.6 * lai(k,j,i) )
1181	ENDDO
1182	ENDDO
1183	ENDDO
1184
1185	!
1186	!-- The near surface heat flux is derived from the heat flux
1187	!-- distribution within the canopy
1188	shf(:,:) = canopy_heat_flux(0,:,:)
1189
1190	IF ( ASSOCIATED( shf_m ) ) shf_m = shf
1191
1192	ENDIF
1193
1194	ENDIF
1195
1196	!
1197	!-- If required, initialize dvrp-software
1198	IF ( dt_dvrp /= 9999999.9 ) CALL init_dvrp
1199
1200	IF ( ocean ) THEN
1201	!
1202	!-- Initialize quantities needed for the ocean model
1203	CALL init_ocean
1204	ELSE
1205	!
1206	!-- Initialize quantities for handling cloud physics
1207	!-- This routine must be called before init_particles, because
1208	!-- otherwise, array pt_d_t, needed in data_output_dvrp (called by
1209	!-- init_particles) is not defined.
1210	CALL init_cloud_physics
1211	ENDIF
1212
1213	!
1214	!-- If required, initialize particles
1215	IF ( particle_advection ) CALL init_particles
1216
1217	!
1218	!-- Initialize quantities for special advections schemes
1219	CALL init_advec
1220
1221	!
1222	!-- Initialize Rayleigh damping factors
1223	rdf = 0.0
1224	IF ( rayleigh_damping_factor /= 0.0 ) THEN
1225	IF ( .NOT. ocean ) THEN
1226	DO k = nzb+1, nzt
1227	IF ( zu(k) >= rayleigh_damping_height ) THEN
1228	rdf(k) = rayleigh_damping_factor * &
1229	( SIN( pi * 0.5 * ( zu(k) - rayleigh_damping_height ) &
1230	/ ( zu(nzt) - rayleigh_damping_height ) )&
1231	)**2
1232	ENDIF
1233	ENDDO
1234	ELSE
1235	DO k = nzt, nzb+1, -1
1236	IF ( zu(k) <= rayleigh_damping_height ) THEN
1237	rdf(k) = rayleigh_damping_factor * &
1238	( SIN( pi * 0.5 * ( rayleigh_damping_height - zu(k) ) &
1239	/ ( rayleigh_damping_height - zu(nzb+1)))&
1240	)**2
1241	ENDIF
1242	ENDDO
1243	ENDIF
1244	ENDIF
1245
1246	!
1247	!-- Initialize diffusivities used within the outflow damping layer in case of
1248	!-- non-cyclic lateral boundaries. A linear increase is assumed over the first
1249	!-- half of the width of the damping layer
1250	IF ( bc_lr == 'dirichlet/radiation' ) THEN
1251
1252	DO i = nxl-1, nxr+1
1253	IF ( i >= nx - outflow_damping_width ) THEN
1254	km_damp_x(i) = km_damp_max * MIN( 1.0, &
1255	( i - ( nx - outflow_damping_width ) ) / &
1256	REAL( outflow_damping_width/2 ) &
1257	)
1258	ELSE
1259	km_damp_x(i) = 0.0
1260	ENDIF
1261	ENDDO
1262
1263	ELSEIF ( bc_lr == 'radiation/dirichlet' ) THEN
1264
1265	DO i = nxl-1, nxr+1
1266	IF ( i <= outflow_damping_width ) THEN
1267	km_damp_x(i) = km_damp_max * MIN( 1.0, &
1268	( outflow_damping_width - i ) / &
1269	REAL( outflow_damping_width/2 ) &
1270	)
1271	ELSE
1272	km_damp_x(i) = 0.0
1273	ENDIF
1274	ENDDO
1275
1276	ENDIF
1277
1278	IF ( bc_ns == 'dirichlet/radiation' ) THEN
1279
1280	DO j = nys-1, nyn+1
1281	IF ( j >= ny - outflow_damping_width ) THEN
1282	km_damp_y(j) = km_damp_max * MIN( 1.0, &
1283	( j - ( ny - outflow_damping_width ) ) / &
1284	REAL( outflow_damping_width/2 ) &
1285	)
1286	ELSE
1287	km_damp_y(j) = 0.0
1288	ENDIF
1289	ENDDO
1290
1291	ELSEIF ( bc_ns == 'radiation/dirichlet' ) THEN
1292
1293	DO j = nys-1, nyn+1
1294	IF ( j <= outflow_damping_width ) THEN
1295	km_damp_y(j) = km_damp_max * MIN( 1.0, &
1296	( outflow_damping_width - j ) / &
1297	REAL( outflow_damping_width/2 ) &
1298	)
1299	ELSE
1300	km_damp_y(j) = 0.0
1301	ENDIF
1302	ENDDO
1303
1304	ENDIF
1305
1306	!
1307	!-- Initialize local summation arrays for UP flow_statistics. This is necessary
1308	!-- because they may not yet have been initialized when they are called from
1309	!-- flow_statistics (or - depending on the chosen model run - are never
1310	!-- initialized)
1311	sums_divnew_l = 0.0
1312	sums_divold_l = 0.0
1313	sums_l_l = 0.0
1314	sums_up_fraction_l = 0.0
1315	sums_wsts_bc_l = 0.0
1316
1317	!
1318	!-- Pre-set masks for regional statistics. Default is the total model domain.
1319	rmask = 1.0
1320
1321	!
1322	!-- User-defined initializing actions. Check afterwards, if maximum number
1323	!-- of allowed timeseries is not exceeded
1324	CALL user_init
1325
1326	IF ( dots_num > dots_max ) THEN
1327	IF ( myid == 0 ) THEN
1328	PRINT*, '+++ user_init: number of time series quantities exceeds', &
1329	' its maximum of dots_max = ', dots_max
1330	PRINT*, ' Please increase dots_max in modules.f90.'
1331	ENDIF
1332	CALL local_stop
1333	ENDIF
1334
1335	!
1336	!-- Input binary data file is not needed anymore. This line must be placed
1337	!-- after call of user_init!
1338	CALL close_file( 13 )
1339
1340	!
1341	!-- Compute total sum of active mask grid points
1342	!-- ngp_2dh: number of grid points of a horizontal cross section through the
1343	!-- total domain
1344	!-- ngp_3d: number of grid points of the total domain
1345	ngp_2dh_outer_l = 0
1346	ngp_2dh_outer = 0
1347	ngp_2dh_s_inner_l = 0
1348	ngp_2dh_s_inner = 0
1349	ngp_2dh_l = 0
1350	ngp_2dh = 0
1351	ngp_3d_inner_l = 0
1352	ngp_3d_inner = 0
1353	ngp_3d = 0
1354	ngp_sums = ( nz + 2 ) * ( pr_palm + max_pr_user )
1355
1356	DO sr = 0, statistic_regions
1357	DO i = nxl, nxr
1358	DO j = nys, nyn
1359	IF ( rmask(j,i,sr) == 1.0 ) THEN
1360	!
1361	!-- All xy-grid points
1362	ngp_2dh_l(sr) = ngp_2dh_l(sr) + 1
1363	!
1364	!-- xy-grid points above topography
1365	DO k = nzb_s_outer(j,i), nz + 1
1366	ngp_2dh_outer_l(k,sr) = ngp_2dh_outer_l(k,sr) + 1
1367	ENDDO
1368	DO k = nzb_s_inner(j,i), nz + 1
1369	ngp_2dh_s_inner_l(k,sr) = ngp_2dh_s_inner_l(k,sr) + 1
1370	ENDDO
1371	!
1372	!-- All grid points of the total domain above topography
1373	ngp_3d_inner_l(sr) = ngp_3d_inner_l(sr) + &
1374	( nz - nzb_s_inner(j,i) + 2 )
1375	ENDIF
1376	ENDDO
1377	ENDDO
1378	ENDDO
1379
1380	sr = statistic_regions + 1
1381	#if defined( __parallel )
1382	CALL MPI_ALLREDUCE( ngp_2dh_l(0), ngp_2dh(0), sr, MPI_INTEGER, MPI_SUM, &
1383	comm2d, ierr )
1384	CALL MPI_ALLREDUCE( ngp_2dh_outer_l(0,0), ngp_2dh_outer(0,0), (nz+2)*sr, &
1385	MPI_INTEGER, MPI_SUM, comm2d, ierr )
1386	CALL MPI_ALLREDUCE( ngp_2dh_s_inner_l(0,0), ngp_2dh_s_inner(0,0), &
1387	(nz+2)*sr, MPI_INTEGER, MPI_SUM, comm2d, ierr )
1388	CALL MPI_ALLREDUCE( ngp_3d_inner_l(0), ngp_3d_inner(0), sr, MPI_INTEGER, &
1389	MPI_SUM, comm2d, ierr )
1390	#else
1391	ngp_2dh = ngp_2dh_l
1392	ngp_2dh_outer = ngp_2dh_outer_l
1393	ngp_2dh_s_inner = ngp_2dh_s_inner_l
1394	ngp_3d_inner = ngp_3d_inner_l
1395	#endif
1396
1397	ngp_3d = ngp_2dh * ( nz + 2 )
1398
1399	!
1400	!-- Set a lower limit of 1 in order to avoid zero divisions in flow_statistics,
1401	!-- buoyancy, etc. A zero value will occur for cases where all grid points of
1402	!-- the respective subdomain lie below the surface topography
1403	ngp_2dh_outer = MAX( 1, ngp_2dh_outer(:,:) )
1404	ngp_3d_inner = MAX( 1, ngp_3d_inner(:) )
1405
1406	DEALLOCATE( ngp_2dh_l, ngp_2dh_outer_l, ngp_3d_inner_l )
1407
1408
1409	END SUBROUTINE init_3d_model

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