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source: palm/trunk/SOURCE/init_3d_model.f90 @ 2283

Last change on this file since 2283 was 2277, checked in by kanani, 7 years ago

code documentation and cleanup

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/palm/branches/forwind/SOURCE/init_3d_model.f90 1564-1913

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[1682]	1	!> @file init_3d_model.f90
[2000]	2	!------------------------------------------------------------------------------!
[1036]	3	! This file is part of PALM.
	4	!
[2000]	5	! PALM is free software: you can redistribute it and/or modify it under the
	6	! terms of the GNU General Public License as published by the Free Software
	7	! Foundation, either version 3 of the License, or (at your option) any later
	8	! version.
[1036]	9	!
	10	! PALM is distributed in the hope that it will be useful, but WITHOUT ANY
	11	! WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
	12	! A PARTICULAR PURPOSE. See the GNU General Public License for more details.
	13	!
	14	! You should have received a copy of the GNU General Public License along with
	15	! PALM. If not, see <http://www.gnu.org/licenses/>.
	16	!
[2101]	17	! Copyright 1997-2017 Leibniz Universitaet Hannover
[2000]	18	!------------------------------------------------------------------------------!
[1036]	19	!
[254]	20	! Current revisions:
[732]	21	! ------------------
[2233]	22	!
	23	!
	24	! Former revisions:
	25	! -----------------
	26	! $Id: init_3d_model.f90 2277 2017-06-12 10:47:51Z suehring $
[2277]	27	! Removed unused variable sums_up_fraction_l
	28	!
	29	! 2270 2017-06-09 12:18:47Z maronga
[2270]	30	! dots_num must be increased when LSM and/or radiation is used
	31	!
	32	! 2259 2017-06-08 09:09:11Z gronemeier
[2259]	33	! Implemented synthetic turbulence generator
	34	!
	35	! 2252 2017-06-07 09:35:37Z knoop
[2252]	36	! rho_air now depending on surface_pressure even in Boussinesq mode
	37	!
	38	! 2233 2017-05-30 18:08:54Z suehring
[2233]	39	!
	40	! 2232 2017-05-30 17:47:52Z suehring
[2232]	41	! Adjustments to new topography and surface concept:
	42	! - Modify passed parameters for disturb_field
	43	! - Topography representation via flags
	44	! - Remove unused arrays.
	45	! - Move initialization of surface-related quantities to surface_mod
[1961]	46	!
[2173]	47	! 2172 2017-03-08 15:55:25Z knoop
	48	! Bugfix: moved parallel random generator initialization into its module
	49	!
[2119]	50	! 2118 2017-01-17 16:38:49Z raasch
	51	! OpenACC directives removed
	52	!
[2038]	53	! 2037 2016-10-26 11:15:40Z knoop
	54	! Anelastic approximation implemented
	55	!
[2032]	56	! 2031 2016-10-21 15:11:58Z knoop
	57	! renamed variable rho to rho_ocean
	58	!
[2012]	59	! 2011 2016-09-19 17:29:57Z kanani
	60	! Flag urban_surface is now defined in module control_parameters.
	61	!
[2008]	62	! 2007 2016-08-24 15:47:17Z kanani
	63	! Added support for urban surface model,
	64	! adjusted location_message in case of plant_canopy
	65	!
[2001]	66	! 2000 2016-08-20 18:09:15Z knoop
	67	! Forced header and separation lines into 80 columns
	68	!
[1993]	69	! 1992 2016-08-12 15:14:59Z suehring
	70	! Initializaton of scalarflux at model top
	71	! Bugfixes in initialization of surface and top salinity flux, top scalar and
	72	! humidity fluxes
	73	!
[1961]	74	! 1960 2016-07-12 16:34:24Z suehring
[1960]	75	! Separate humidity and passive scalar
	76	! Increase dimension for mean_inflow_profiles
	77	! Remove inadvertent write-statement
	78	! Bugfix, large-scale forcing is still not implemented for passive scalars
[1919]	79	!
[1958]	80	! 1957 2016-07-07 10:43:48Z suehring
	81	! flight module added
	82	!
[1921]	83	! 1920 2016-05-30 10:50:15Z suehring
	84	! Initialize us with very small number to avoid segmentation fault during
	85	! calculation of Obukhov length
	86	!
[1919]	87	! 1918 2016-05-27 14:35:57Z raasch
	88	! intermediate_timestep_count is set 0 instead 1 for first call of pres,
	89	! bugfix: initialization of local sum arrays are moved to the beginning of the
	90	! routine because otherwise results from pres are overwritten
	91	!
[1917]	92	! 1914 2016-05-26 14:44:07Z witha
	93	! Added initialization of the wind turbine model
	94	!
[1879]	95	! 1878 2016-04-19 12:30:36Z hellstea
	96	! The zeroth element of weight_pres removed as unnecessary
	97	!
[1851]	98	! 1849 2016-04-08 11:33:18Z hoffmann
[1849]	99	! Adapted for modularization of microphysics.
	100	! precipitation_amount, precipitation_rate, prr moved to arrays_3d.
[1852]	101	! Initialization of nc_1d, nr_1d, pt_1d, qc_1d, qr_1d, q_1d moved to
[1849]	102	! microphysics_init.
	103	!
[1846]	104	! 1845 2016-04-08 08:29:13Z raasch
	105	! nzb_2d replaced by nzb_u\|v_inner
[1914]	106	!
[1834]	107	! 1833 2016-04-07 14:23:03Z raasch
	108	! initialization of spectra quantities moved to spectra_mod
	109	!
[1832]	110	! 1831 2016-04-07 13:15:51Z hoffmann
	111	! turbulence renamed collision_turbulence
	112	!
[1827]	113	! 1826 2016-04-07 12:01:39Z maronga
	114	! Renamed radiation calls.
	115	! Renamed canopy model calls.
	116	!
[1823]	117	! 1822 2016-04-07 07:49:42Z hoffmann
	118	! icloud_scheme replaced by microphysics_*
[1914]	119	!
[1818]	120	! 1817 2016-04-06 15:44:20Z maronga
	121	! Renamed lsm calls.
	122	!
[1816]	123	! 1815 2016-04-06 13:49:59Z raasch
	124	! zero-settings for velocities inside topography re-activated (was deactivated
	125	! in r1762)
	126	!
[1789]	127	! 1788 2016-03-10 11:01:04Z maronga
	128	! Added z0q.
	129	! Syntax layout improved.
	130	!
[1784]	131	! 1783 2016-03-06 18:36:17Z raasch
	132	! netcdf module name changed + related changes
	133	!
[1765]	134	! 1764 2016-02-28 12:45:19Z raasch
	135	! bugfix: increase size of volume_flow_area_l and volume_flow_initial_l by 1
	136	!
[1763]	137	! 1762 2016-02-25 12:31:13Z hellstea
	138	! Introduction of nested domain feature
	139	!
[1739]	140	! 1738 2015-12-18 13:56:05Z raasch
	141	! calculate mean surface level height for each statistic region
	142	!
[1735]	143	! 1734 2015-12-02 12:17:12Z raasch
	144	! no initial disturbances in case that the disturbance energy limit has been
	145	! set zero
	146	!
[1708]	147	! 1707 2015-11-02 15:24:52Z maronga
	148	! Bugfix: transfer of Richardson number from 1D model to Obukhov length caused
	149	! devision by zero in neutral stratification
	150	!
[1692]	151	! 1691 2015-10-26 16:17:44Z maronga
	152	! Call to init_surface_layer added. rif is replaced by ol and zeta.
	153	!
[1683]	154	! 1682 2015-10-07 23:56:08Z knoop
	155	! Code annotations made doxygen readable
	156	!
[1616]	157	! 1615 2015-07-08 18:49:19Z suehring
	158	! Enable turbulent inflow for passive_scalar and humidity
	159	!
[1586]	160	! 1585 2015-04-30 07:05:52Z maronga
	161	! Initialization of radiation code is now done after LSM initializtion
	162	!
[1576]	163	! 1575 2015-03-27 09:56:27Z raasch
	164	! adjustments for psolver-queries
	165	!
[1552]	166	! 1551 2015-03-03 14:18:16Z maronga
[1817]	167	! Allocation of land surface arrays is now done in the subroutine lsm_init_arrays,
[1552]	168	! which is part of land_surface_model.
	169	!
[1508]	170	! 1507 2014-12-10 12:14:18Z suehring
	171	! Bugfix: set horizontal velocity components to zero inside topography
	172	!
[1497]	173	! 1496 2014-12-02 17:25:50Z maronga
	174	! Added initialization of the land surface and radiation schemes
	175	!
[1485]	176	! 1484 2014-10-21 10:53:05Z kanani
[1484]	177	! Changes due to new module structure of the plant canopy model:
[1508]	178	! canopy-related initialization (e.g. lad and canopy_heat_flux) moved to new
	179	! subroutine init_plant_canopy within the module plant_canopy_model_mod,
	180	! call of subroutine init_plant_canopy added.
[1341]	181	!
[1432]	182	! 1431 2014-07-15 14:47:17Z suehring
	183	! var_d added, in order to normalize spectra.
	184	!
[1430]	185	! 1429 2014-07-15 12:53:45Z knoop
	186	! Ensemble run capability added to parallel random number generator
	187	!
[1412]	188	! 1411 2014-05-16 18:01:51Z suehring
	189	! Initial horizontal velocity profiles were not set to zero at the first vertical
	190	! grid level in case of non-cyclic lateral boundary conditions.
	191	!
[1407]	192	! 1406 2014-05-16 13:47:01Z raasch
	193	! bugfix: setting of initial velocities at k=1 to zero not in case of a
	194	! no-slip boundary condition for uv
	195	!
[1403]	196	! 1402 2014-05-09 14:25:13Z raasch
	197	! location messages modified
	198	!
[1401]	199	! 1400 2014-05-09 14:03:54Z knoop
	200	! Parallel random number generator added
	201	!
[1385]	202	! 1384 2014-05-02 14:31:06Z raasch
	203	! location messages added
	204	!
[1362]	205	! 1361 2014-04-16 15:17:48Z hoffmann
	206	! tend_* removed
	207	! Bugfix: w_subs is not allocated anymore if it is already allocated
	208	!
[1360]	209	! 1359 2014-04-11 17:15:14Z hoffmann
	210	! module lpm_init_mod added to use statements, because lpm_init has become a
	211	! module
	212	!
[1354]	213	! 1353 2014-04-08 15:21:23Z heinze
	214	! REAL constants provided with KIND-attribute
	215	!
[1341]	216	! 1340 2014-03-25 19:45:13Z kanani
	217	! REAL constants defined as wp-kind
	218	!
[1323]	219	! 1322 2014-03-20 16:38:49Z raasch
	220	! REAL constants defined as wp-kind
	221	! module interfaces removed
	222	!
[1321]	223	! 1320 2014-03-20 08:40:49Z raasch
	224	! ONLY-attribute added to USE-statements,
	225	! kind-parameters added to all INTEGER and REAL declaration statements,
	226	! kinds are defined in new module kinds,
	227	! revision history before 2012 removed,
	228	! comment fields (!:) to be used for variable explanations added to
	229	! all variable declaration statements
	230	!
[1317]	231	! 1316 2014-03-17 07:44:59Z heinze
	232	! Bugfix: allocation of w_subs
	233	!
[1300]	234	! 1299 2014-03-06 13:15:21Z heinze
	235	! Allocate w_subs due to extension of large scale subsidence in combination
	236	! with large scale forcing data (LSF_DATA)
	237	!
[1242]	238	! 1241 2013-10-30 11:36:58Z heinze
	239	! Overwrite initial profiles in case of nudging
	240	! Inititialize shf and qsws in case of large_scale_forcing
	241	!
[1222]	242	! 1221 2013-09-10 08:59:13Z raasch
	243	! +rflags_s_inner in copyin statement, use copyin for most arrays instead of
	244	! copy
	245	!
[1213]	246	! 1212 2013-08-15 08:46:27Z raasch
	247	! array tri is allocated and included in data copy statement
	248	!
[1196]	249	! 1195 2013-07-01 12:27:57Z heinze
	250	! Bugfix: move allocation of ref_state to parin.f90 and read_var_list.f90
	251	!
[1182]	252	! 1179 2013-06-14 05:57:58Z raasch
	253	! allocate and set ref_state to be used in buoyancy terms
	254	!
[1172]	255	! 1171 2013-05-30 11:27:45Z raasch
	256	! diss array is allocated with full size if accelerator boards are used
	257	!
[1160]	258	! 1159 2013-05-21 11:58:22Z fricke
	259	! -bc_lr_dirneu, bc_lr_neudir, bc_ns_dirneu, bc_ns_neudir
	260	!
[1154]	261	! 1153 2013-05-10 14:33:08Z raasch
	262	! diss array is allocated with dummy elements even if it is not needed
[1171]	263	! (required by PGI 13.4 / CUDA 5.0)
[1154]	264	!
[1116]	265	! 1115 2013-03-26 18:16:16Z hoffmann
	266	! unused variables removed
	267	!
[1114]	268	! 1113 2013-03-10 02:48:14Z raasch
	269	! openACC directive modified
	270	!
[1112]	271	! 1111 2013-03-08 23:54:10Z raasch
	272	! openACC directives added for pres
	273	! array diss allocated only if required
	274	!
[1093]	275	! 1092 2013-02-02 11:24:22Z raasch
	276	! unused variables removed
	277	!
[1066]	278	! 1065 2012-11-22 17:42:36Z hoffmann
	279	! allocation of diss (dissipation rate) in case of turbulence = .TRUE. added
	280	!
[1054]	281	! 1053 2012-11-13 17:11:03Z hoffmann
[1053]	282	! allocation and initialisation of necessary data arrays for the two-moment
	283	! cloud physics scheme the two new prognostic equations (nr, qr):
	284	! +dr, lambda_r, mu_r, sed_, xr, s, sws, swst, , _p, t_m, _1, _2, _3,
	285	! +tend_*, prr
[979]	286	!
[1037]	287	! 1036 2012-10-22 13:43:42Z raasch
	288	! code put under GPL (PALM 3.9)
	289	!
[1033]	290	! 1032 2012-10-21 13:03:21Z letzel
	291	! save memory by not allocating pt_2 in case of neutral = .T.
	292	!
[1026]	293	! 1025 2012-10-07 16:04:41Z letzel
	294	! bugfix: swap indices of mask for ghost boundaries
	295	!
[1017]	296	! 1015 2012-09-27 09:23:24Z raasch
	297	! mask is set to zero for ghost boundaries
	298	!
[1011]	299	! 1010 2012-09-20 07:59:54Z raasch
	300	! cpp switch __nopointer added for pointer free version
	301	!
[1004]	302	! 1003 2012-09-14 14:35:53Z raasch
	303	! nxra,nyna, nzta replaced ny nxr, nyn, nzt
	304	!
[1002]	305	! 1001 2012-09-13 14:08:46Z raasch
	306	! all actions concerning leapfrog scheme removed
	307	!
[997]	308	! 996 2012-09-07 10:41:47Z raasch
	309	! little reformatting
	310	!
[979]	311	! 978 2012-08-09 08:28:32Z fricke
[978]	312	! outflow damping layer removed
	313	! roughness length for scalar quantites z0h added
	314	! damping zone for the potential temperatur in case of non-cyclic lateral
	315	! boundaries added
	316	! initialization of ptdf_x, ptdf_y
	317	! initialization of c_u_m, c_u_m_l, c_v_m, c_v_m_l, c_w_m, c_w_m_l
[708]	318	!
[850]	319	! 849 2012-03-15 10:35:09Z raasch
	320	! init_particles renamed lpm_init
	321	!
[826]	322	! 825 2012-02-19 03:03:44Z raasch
	323	! wang_collision_kernel renamed wang_kernel
	324	!
[1]	325	! Revision 1.1 1998/03/09 16:22:22 raasch
	326	! Initial revision
	327	!
	328	!
	329	! Description:
	330	! ------------
[1682]	331	!> Allocation of arrays and initialization of the 3D model via
	332	!> a) pre-run the 1D model
	333	!> or
	334	!> b) pre-set constant linear profiles
	335	!> or
	336	!> c) read values of a previous run
[1]	337	!------------------------------------------------------------------------------!
[1682]	338	SUBROUTINE init_3d_model
	339
[1]	340
[667]	341	USE advec_ws
[1320]	342
[1]	343	USE arrays_3d
[1849]	344
[2037]	345	USE cloud_parameters, &
	346	ONLY: cp, l_v, r_d
	347
[1320]	348	USE constants, &
	349	ONLY: pi
	350
[1]	351	USE control_parameters
[1320]	352
[1957]	353	USE flight_mod, &
	354	ONLY: flight_init
	355
[1320]	356	USE grid_variables, &
[2037]	357	ONLY: dx, dy, ddx2_mg, ddy2_mg
[1320]	358
[1]	359	USE indices
[1359]	360
[1429]	361	USE lpm_init_mod, &
[1359]	362	ONLY: lpm_init
[1320]	363
	364	USE kinds
[1496]	365
	366	USE land_surface_model_mod, &
[2232]	367	ONLY: lsm_init, lsm_init_arrays
[1496]	368
[1241]	369	USE ls_forcing_mod
[1849]	370
	371	USE microphysics_mod, &
	372	ONLY: collision_turbulence, microphysics_init
	373
[1320]	374	USE model_1d, &
	375	ONLY: e1d, kh1d, km1d, l1d, rif1d, u1d, us1d, usws1d, v1d, vsws1d
	376
[1783]	377	USE netcdf_interface, &
	378	ONLY: dots_max, dots_num
[1320]	379
	380	USE particle_attributes, &
	381	ONLY: particle_advection, use_sgs_for_particles, wang_kernel
	382
[1]	383	USE pegrid
[1320]	384
[1484]	385	USE plant_canopy_model_mod, &
[1826]	386	ONLY: pcm_init, plant_canopy
[1496]	387
	388	USE radiation_model_mod, &
[2270]	389	ONLY: radiation_init, radiation, radiation_scheme
[1484]	390
[1320]	391	USE random_function_mod
	392
[1400]	393	USE random_generator_parallel, &
[2172]	394	ONLY: init_parallel_random_generator
[1400]	395
[1320]	396	USE statistics, &
[1738]	397	ONLY: hom, hom_sum, mean_surface_level_height, pr_palm, rmask, &
[1833]	398	statistic_regions, sums, sums_divnew_l, sums_divold_l, sums_l, &
[2277]	399	sums_l_l, sums_wsts_bc_l, ts_value, &
[1833]	400	weight_pres, weight_substep
[2259]	401
	402	USE synthetic_turbulence_generator_mod, &
	403	ONLY: stg_init, use_synthetic_turbulence_generator
	404
[1691]	405	USE surface_layer_fluxes_mod, &
	406	ONLY: init_surface_layer_fluxes
[2232]	407
	408	USE surface_mod, &
	409	ONLY : init_surface_arrays, init_surfaces, surf_def_h, surf_lsm_h, &
	410	surf_usm_h
[1691]	411
[2007]	412	USE transpose_indices
[1]	413
[2007]	414	USE urban_surface_mod, &
[2011]	415	ONLY: usm_init_urban_surface
[2007]	416
[1914]	417	USE wind_turbine_model_mod, &
	418	ONLY: wtm_init, wtm_init_arrays, wind_turbine
	419
[1]	420	IMPLICIT NONE
	421
[1682]	422	INTEGER(iwp) :: i !<
	423	INTEGER(iwp) :: ind_array(1) !<
	424	INTEGER(iwp) :: j !<
	425	INTEGER(iwp) :: k !<
[2232]	426	INTEGER(iwp) :: k_surf !< surface level index
	427	INTEGER(iwp) :: m !< index of surface element in surface data type
	428	INTEGER(iwp) :: sr !< index of statistic region
[1]	429
[1682]	430	INTEGER(iwp), DIMENSION(:), ALLOCATABLE :: ngp_2dh_l !<
[1]	431
[1682]	432	INTEGER(iwp), DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_outer_l !<
	433	INTEGER(iwp), DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_s_inner_l !<
[1]	434
[2037]	435	REAL(wp) :: t_surface !< air temperature at the surface
	436
	437	REAL(wp), DIMENSION(:), ALLOCATABLE :: p_hydrostatic !< hydrostatic pressure
	438
	439	INTEGER(iwp) :: l !< loop variable
	440	INTEGER(iwp) :: nzt_l !< index of top PE boundary for multigrid level
	441	REAL(wp) :: dx_l !< grid spacing along x on different multigrid level
	442	REAL(wp) :: dy_l !< grid spacing along y on different multigrid level
	443
[1764]	444	REAL(wp), DIMENSION(1:3) :: volume_flow_area_l !<
	445	REAL(wp), DIMENSION(1:3) :: volume_flow_initial_l !<
[1]	446
[1738]	447	REAL(wp), DIMENSION(:), ALLOCATABLE :: mean_surface_level_height_l !<
[1682]	448	REAL(wp), DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_l !<
	449	REAL(wp), DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_tmp !<
[1]	450
[485]	451
[1402]	452	CALL location_message( 'allocating arrays', .FALSE. )
[1]	453	!
	454	!-- Allocate arrays
[1788]	455	ALLOCATE( mean_surface_level_height(0:statistic_regions), &
	456	mean_surface_level_height_l(0:statistic_regions), &
	457	ngp_2dh(0:statistic_regions), ngp_2dh_l(0:statistic_regions), &
	458	ngp_3d(0:statistic_regions), &
	459	ngp_3d_inner(0:statistic_regions), &
	460	ngp_3d_inner_l(0:statistic_regions), &
	461	ngp_3d_inner_tmp(0:statistic_regions), &
	462	sums_divnew_l(0:statistic_regions), &
[1]	463	sums_divold_l(0:statistic_regions) )
[1195]	464	ALLOCATE( dp_smooth_factor(nzb:nzt), rdf(nzb+1:nzt), rdf_sc(nzb+1:nzt) )
[1788]	465	ALLOCATE( ngp_2dh_outer(nzb:nzt+1,0:statistic_regions), &
	466	ngp_2dh_outer_l(nzb:nzt+1,0:statistic_regions), &
	467	ngp_2dh_s_inner(nzb:nzt+1,0:statistic_regions), &
	468	ngp_2dh_s_inner_l(nzb:nzt+1,0:statistic_regions), &
	469	rmask(nysg:nyng,nxlg:nxrg,0:statistic_regions), &
	470	sums(nzb:nzt+1,pr_palm+max_pr_user), &
	471	sums_l(nzb:nzt+1,pr_palm+max_pr_user,0:threads_per_task-1), &
	472	sums_l_l(nzb:nzt+1,0:statistic_regions,0:threads_per_task-1), &
	473	sums_wsts_bc_l(nzb:nzt+1,0:statistic_regions), &
[394]	474	ts_value(dots_max,0:statistic_regions) )
[978]	475	ALLOCATE( ptdf_x(nxlg:nxrg), ptdf_y(nysg:nyng) )
[1]	476
[1788]	477	ALLOCATE( d(nzb+1:nzt,nys:nyn,nxl:nxr), &
	478	kh(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	479	km(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	480	p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	481	tend(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	482
	483	#if defined( __nopointer )
[1788]	484	ALLOCATE( e(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	485	e_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	486	pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	487	pt_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	488	u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	489	u_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	490	v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	491	v_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	492	w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	493	w_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	494	te_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	495	tpt_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	496	tu_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	497	tv_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	498	tw_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	499	#else
[1788]	500	ALLOCATE( e_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	501	e_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	502	e_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	503	pt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	504	pt_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	505	u_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	506	u_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	507	u_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	508	v_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	509	v_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	510	v_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	511	w_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	512	w_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	513	w_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1788]	514	IF ( .NOT. neutral ) THEN
[1032]	515	ALLOCATE( pt_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	516	ENDIF
[1010]	517	#endif
	518
[673]	519	!
[707]	520	!-- Following array is required for perturbation pressure within the iterative
	521	!-- pressure solvers. For the multistep schemes (Runge-Kutta), array p holds
	522	!-- the weighted average of the substeps and cannot be used in the Poisson
	523	!-- solver.
	524	IF ( psolver == 'sor' ) THEN
	525	ALLOCATE( p_loc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1575]	526	ELSEIF ( psolver(1:9) == 'multigrid' ) THEN
[707]	527	!
	528	!-- For performance reasons, multigrid is using one ghost layer only
	529	ALLOCATE( p_loc(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
[673]	530	ENDIF
[1]	531
[1111]	532	!
	533	!-- Array for storing constant coeffficients of the tridiagonal solver
	534	IF ( psolver == 'poisfft' ) THEN
[1212]	535	ALLOCATE( tri(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1,2) )
[1111]	536	ALLOCATE( tric(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1) )
	537	ENDIF
	538
[1960]	539	IF ( humidity ) THEN
[1]	540	!
[1960]	541	!-- 3D-humidity
[1010]	542	#if defined( __nopointer )
[1788]	543	ALLOCATE( q(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	544	q_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	545	tq_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	546	#else
[1788]	547	ALLOCATE( q_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	548	q_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	549	q_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	550	#endif
[1]	551
	552	!
[1960]	553	!-- 3D-arrays needed for humidity
[75]	554	IF ( humidity ) THEN
[1010]	555	#if defined( __nopointer )
	556	ALLOCATE( vpt(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	557	#else
[667]	558	ALLOCATE( vpt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	559	#endif
[1]	560
[1788]	561	IF ( cloud_physics ) THEN
[1053]	562
[1]	563	!
	564	!-- Liquid water content
[1010]	565	#if defined( __nopointer )
	566	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	567	#else
[667]	568	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	569	#endif
[72]	570	!
	571	!-- Precipitation amount and rate (only needed if output is switched)
[1788]	572	ALLOCATE( precipitation_amount(nysg:nyng,nxlg:nxrg), &
[667]	573	precipitation_rate(nysg:nyng,nxlg:nxrg) )
[1053]	574
	575	!
[1822]	576	!-- 3D-cloud water content
[1053]	577	#if defined( __nopointer )
[1822]	578	ALLOCATE( qc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	579	#else
[1822]	580	ALLOCATE( qc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	581	#endif
[1822]	582	!
	583	!-- 3d-precipitation rate
	584	ALLOCATE( prr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	585
[1822]	586	IF ( microphysics_seifert ) THEN
[1053]	587	!
[1822]	588	!-- 3D-rain water content, rain drop concentration arrays
[1115]	589	#if defined( __nopointer )
[1822]	590	ALLOCATE( nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	591	nr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	592	qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	593	qr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	594	tnr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	595	tqr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	596	#else
[1822]	597	ALLOCATE( nr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	598	nr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	599	nr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	600	qr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	601	qr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	602	qr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	603	#endif
[1822]	604	ENDIF
[1053]	605
[1]	606	ENDIF
	607
	608	IF ( cloud_droplets ) THEN
	609	!
[1010]	610	!-- Liquid water content, change in liquid water content
	611	#if defined( __nopointer )
[1788]	612	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	613	ql_c(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	614	#else
[1788]	615	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	616	ql_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	617	#endif
	618	!
	619	!-- Real volume of particles (with weighting), volume of particles
[1788]	620	ALLOCATE ( ql_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	621	ql_vp(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	622	ENDIF
	623
	624	ENDIF
	625
	626	ENDIF
[1960]	627
	628
	629	IF ( passive_scalar ) THEN
[1]	630
[1960]	631	!
	632	!-- 3D scalar arrays
	633	#if defined( __nopointer )
	634	ALLOCATE( s(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	635	s_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	636	ts_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	637	#else
	638	ALLOCATE( s_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	639	s_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	640	s_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	641	#endif
	642	ENDIF
	643
[94]	644	IF ( ocean ) THEN
[1010]	645	#if defined( __nopointer )
[1788]	646	ALLOCATE( prho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[2031]	647	rho_ocean(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1788]	648	sa(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	649	sa_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	650	tsa_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	651	#else
[1788]	652	ALLOCATE( prho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	653	rho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	654	sa_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	655	sa_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	656	sa_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[388]	657	prho => prho_1
[2031]	658	rho_ocean => rho_1 ! routines calc_mean_profile and diffusion_e require
[388]	659	! density to be apointer
[1010]	660	#endif
[94]	661	ENDIF
	662
[1]	663	!
[2037]	664	!-- Allocation of anelastic and Boussinesq approximation specific arrays
	665	ALLOCATE( p_hydrostatic(nzb:nzt+1) )
	666	ALLOCATE( rho_air(nzb:nzt+1) )
	667	ALLOCATE( rho_air_zw(nzb:nzt+1) )
	668	ALLOCATE( drho_air(nzb:nzt+1) )
	669	ALLOCATE( drho_air_zw(nzb:nzt+1) )
	670
	671	!
	672	!-- Density profile calculation for anelastic approximation
[2252]	673	t_surface = pt_surface * ( surface_pressure / 1000.0_wp )**( r_d / cp )
[2037]	674	IF ( TRIM( approximation ) == 'anelastic' ) THEN
	675	DO k = nzb, nzt+1
	676	p_hydrostatic(k) = surface_pressure * 100.0_wp * &
	677	( 1 - ( g * zu(k) ) / ( cp * t_surface ) &
	678	)**( cp / r_d )
	679	rho_air(k) = ( p_hydrostatic(k) * &
	680	( 100000.0_wp / p_hydrostatic(k) &
	681	)**( r_d / cp ) &
	682	) / ( r_d * pt_init(k) )
	683	ENDDO
	684	DO k = nzb, nzt
	685	rho_air_zw(k) = 0.5_wp * ( rho_air(k) + rho_air(k+1) )
	686	ENDDO
	687	rho_air_zw(nzt+1) = rho_air_zw(nzt) &
	688	+ 2.0_wp * ( rho_air(nzt+1) - rho_air_zw(nzt) )
	689	ELSE
[2252]	690	DO k = nzb, nzt+1
	691	p_hydrostatic(k) = surface_pressure * 100.0_wp * &
	692	( 1 - ( g * zu(nzb) ) / ( cp * t_surface ) &
	693	)**( cp / r_d )
	694	rho_air(k) = ( p_hydrostatic(k) * &
	695	( 100000.0_wp / p_hydrostatic(k) &
	696	)**( r_d / cp ) &
	697	) / ( r_d * pt_init(nzb) )
	698	ENDDO
	699	DO k = nzb, nzt
	700	rho_air_zw(k) = 0.5_wp * ( rho_air(k) + rho_air(k+1) )
	701	ENDDO
	702	rho_air_zw(nzt+1) = rho_air_zw(nzt) &
	703	+ 2.0_wp * ( rho_air(nzt+1) - rho_air_zw(nzt) )
[2037]	704	ENDIF
	705
	706	!-- compute the inverse density array in order to avoid expencive divisions
	707	drho_air = 1.0_wp / rho_air
	708	drho_air_zw = 1.0_wp / rho_air_zw
	709
	710	!
	711	!-- Allocation of flux conversion arrays
	712	ALLOCATE( heatflux_input_conversion(nzb:nzt+1) )
	713	ALLOCATE( waterflux_input_conversion(nzb:nzt+1) )
	714	ALLOCATE( momentumflux_input_conversion(nzb:nzt+1) )
	715	ALLOCATE( heatflux_output_conversion(nzb:nzt+1) )
	716	ALLOCATE( waterflux_output_conversion(nzb:nzt+1) )
	717	ALLOCATE( momentumflux_output_conversion(nzb:nzt+1) )
	718
	719	!
	720	!-- calculate flux conversion factors according to approximation and in-/output mode
	721	DO k = nzb, nzt+1
	722
	723	IF ( TRIM( flux_input_mode ) == 'kinematic' ) THEN
	724	heatflux_input_conversion(k) = rho_air_zw(k)
	725	waterflux_input_conversion(k) = rho_air_zw(k)
	726	momentumflux_input_conversion(k) = rho_air_zw(k)
	727	ELSEIF ( TRIM( flux_input_mode ) == 'dynamic' ) THEN
	728	heatflux_input_conversion(k) = 1.0_wp / cp
	729	waterflux_input_conversion(k) = 1.0_wp / l_v
	730	momentumflux_input_conversion(k) = 1.0_wp
	731	ENDIF
	732
	733	IF ( TRIM( flux_output_mode ) == 'kinematic' ) THEN
	734	heatflux_output_conversion(k) = drho_air_zw(k)
	735	waterflux_output_conversion(k) = drho_air_zw(k)
	736	momentumflux_output_conversion(k) = drho_air_zw(k)
	737	ELSEIF ( TRIM( flux_output_mode ) == 'dynamic' ) THEN
	738	heatflux_output_conversion(k) = cp
	739	waterflux_output_conversion(k) = l_v
	740	momentumflux_output_conversion(k) = 1.0_wp
	741	ENDIF
	742
	743	IF ( .NOT. humidity ) THEN
	744	waterflux_input_conversion(k) = 1.0_wp
	745	waterflux_output_conversion(k) = 1.0_wp
	746	ENDIF
	747
	748	ENDDO
	749
	750	!
	751	!-- In case of multigrid method, compute grid lengths and grid factors for the
	752	!-- grid levels with respective density on each grid
	753	IF ( psolver(1:9) == 'multigrid' ) THEN
	754
	755	ALLOCATE( ddx2_mg(maximum_grid_level) )
	756	ALLOCATE( ddy2_mg(maximum_grid_level) )
	757	ALLOCATE( dzu_mg(nzb+1:nzt+1,maximum_grid_level) )
	758	ALLOCATE( dzw_mg(nzb+1:nzt+1,maximum_grid_level) )
	759	ALLOCATE( f1_mg(nzb+1:nzt,maximum_grid_level) )
	760	ALLOCATE( f2_mg(nzb+1:nzt,maximum_grid_level) )
	761	ALLOCATE( f3_mg(nzb+1:nzt,maximum_grid_level) )
	762	ALLOCATE( rho_air_mg(nzb:nzt+1,maximum_grid_level) )
	763	ALLOCATE( rho_air_zw_mg(nzb:nzt+1,maximum_grid_level) )
	764
	765	dzu_mg(:,maximum_grid_level) = dzu
	766	rho_air_mg(:,maximum_grid_level) = rho_air
	767	!
	768	!-- Next line to ensure an equally spaced grid.
	769	dzu_mg(1,maximum_grid_level) = dzu(2)
	770	rho_air_mg(nzb,maximum_grid_level) = rho_air(nzb) + &
	771	(rho_air(nzb) - rho_air(nzb+1))
	772
	773	dzw_mg(:,maximum_grid_level) = dzw
	774	rho_air_zw_mg(:,maximum_grid_level) = rho_air_zw
	775	nzt_l = nzt
	776	DO l = maximum_grid_level-1, 1, -1
	777	dzu_mg(nzb+1,l) = 2.0_wp * dzu_mg(nzb+1,l+1)
	778	dzw_mg(nzb+1,l) = 2.0_wp * dzw_mg(nzb+1,l+1)
	779	rho_air_mg(nzb,l) = rho_air_mg(nzb,l+1) + (rho_air_mg(nzb,l+1) - rho_air_mg(nzb+1,l+1))
	780	rho_air_zw_mg(nzb,l) = rho_air_zw_mg(nzb,l+1) + (rho_air_zw_mg(nzb,l+1) - rho_air_zw_mg(nzb+1,l+1))
	781	rho_air_mg(nzb+1,l) = rho_air_mg(nzb+1,l+1)
	782	rho_air_zw_mg(nzb+1,l) = rho_air_zw_mg(nzb+1,l+1)
	783	nzt_l = nzt_l / 2
	784	DO k = 2, nzt_l+1
	785	dzu_mg(k,l) = dzu_mg(2k-2,l+1) + dzu_mg(2k-1,l+1)
	786	dzw_mg(k,l) = dzw_mg(2k-2,l+1) + dzw_mg(2k-1,l+1)
	787	rho_air_mg(k,l) = rho_air_mg(2*k-1,l+1)
	788	rho_air_zw_mg(k,l) = rho_air_zw_mg(2*k-1,l+1)
	789	ENDDO
	790	ENDDO
	791
	792	nzt_l = nzt
	793	dx_l = dx
	794	dy_l = dy
	795	DO l = maximum_grid_level, 1, -1
	796	ddx2_mg(l) = 1.0_wp / dx_l**2
	797	ddy2_mg(l) = 1.0_wp / dy_l**2
	798	DO k = nzb+1, nzt_l
	799	f2_mg(k,l) = rho_air_zw_mg(k,l) / ( dzu_mg(k+1,l) * dzw_mg(k,l) )
	800	f3_mg(k,l) = rho_air_zw_mg(k-1,l) / ( dzu_mg(k,l) * dzw_mg(k,l) )
	801	f1_mg(k,l) = 2.0_wp * ( ddx2_mg(l) + ddy2_mg(l) ) &
	802	* rho_air_mg(k,l) + f2_mg(k,l) + f3_mg(k,l)
	803	ENDDO
	804	nzt_l = nzt_l / 2
	805	dx_l = dx_l * 2.0_wp
	806	dy_l = dy_l * 2.0_wp
	807	ENDDO
	808
	809	ENDIF
	810
	811	!
[1]	812	!-- 3D-array for storing the dissipation, needed for calculating the sgs
	813	!-- particle velocities
[2118]	814	IF ( use_sgs_for_particles .OR. wang_kernel .OR. collision_turbulence )&
	815	THEN
[1153]	816	ALLOCATE( diss(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	817	ENDIF
	818
	819	!
[1299]	820	!-- 1D-array for large scale subsidence velocity
[1361]	821	IF ( .NOT. ALLOCATED( w_subs ) ) THEN
	822	ALLOCATE ( w_subs(nzb:nzt+1) )
	823	w_subs = 0.0_wp
	824	ENDIF
[1299]	825
	826	!
[106]	827	!-- Arrays to store velocity data from t-dt and the phase speeds which
	828	!-- are needed for radiation boundary conditions
[73]	829	IF ( outflow_l ) THEN
[1788]	830	ALLOCATE( u_m_l(nzb:nzt+1,nysg:nyng,1:2), &
	831	v_m_l(nzb:nzt+1,nysg:nyng,0:1), &
[667]	832	w_m_l(nzb:nzt+1,nysg:nyng,0:1) )
[73]	833	ENDIF
	834	IF ( outflow_r ) THEN
[1788]	835	ALLOCATE( u_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	836	v_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
[667]	837	w_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx) )
[73]	838	ENDIF
[106]	839	IF ( outflow_l .OR. outflow_r ) THEN
[1788]	840	ALLOCATE( c_u(nzb:nzt+1,nysg:nyng), c_v(nzb:nzt+1,nysg:nyng), &
[667]	841	c_w(nzb:nzt+1,nysg:nyng) )
[106]	842	ENDIF
[73]	843	IF ( outflow_s ) THEN
[1788]	844	ALLOCATE( u_m_s(nzb:nzt+1,0:1,nxlg:nxrg), &
	845	v_m_s(nzb:nzt+1,1:2,nxlg:nxrg), &
[667]	846	w_m_s(nzb:nzt+1,0:1,nxlg:nxrg) )
[73]	847	ENDIF
	848	IF ( outflow_n ) THEN
[1788]	849	ALLOCATE( u_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	850	v_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
[667]	851	w_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg) )
[73]	852	ENDIF
[106]	853	IF ( outflow_s .OR. outflow_n ) THEN
[1788]	854	ALLOCATE( c_u(nzb:nzt+1,nxlg:nxrg), c_v(nzb:nzt+1,nxlg:nxrg), &
[667]	855	c_w(nzb:nzt+1,nxlg:nxrg) )
[106]	856	ENDIF
[996]	857	IF ( outflow_l .OR. outflow_r .OR. outflow_s .OR. outflow_n ) THEN
[978]	858	ALLOCATE( c_u_m_l(nzb:nzt+1), c_v_m_l(nzb:nzt+1), c_w_m_l(nzb:nzt+1) )
	859	ALLOCATE( c_u_m(nzb:nzt+1), c_v_m(nzb:nzt+1), c_w_m(nzb:nzt+1) )
	860	ENDIF
[73]	861
[978]	862
[1010]	863	#if ! defined( __nopointer )
[73]	864	!
[1]	865	!-- Initial assignment of the pointers
[1001]	866	e => e_1; e_p => e_2; te_m => e_3
[1032]	867	IF ( .NOT. neutral ) THEN
	868	pt => pt_1; pt_p => pt_2; tpt_m => pt_3
	869	ELSE
	870	pt => pt_1; pt_p => pt_1; tpt_m => pt_3
	871	ENDIF
[1001]	872	u => u_1; u_p => u_2; tu_m => u_3
	873	v => v_1; v_p => v_2; tv_m => v_3
	874	w => w_1; w_p => w_2; tw_m => w_3
[1]	875
[1960]	876	IF ( humidity ) THEN
[1001]	877	q => q_1; q_p => q_2; tq_m => q_3
[1053]	878	IF ( humidity ) THEN
	879	vpt => vpt_1
	880	IF ( cloud_physics ) THEN
	881	ql => ql_1
[1822]	882	qc => qc_1
	883	IF ( microphysics_seifert ) THEN
	884	qr => qr_1; qr_p => qr_2; tqr_m => qr_3
	885	nr => nr_1; nr_p => nr_2; tnr_m => nr_3
[1053]	886	ENDIF
	887	ENDIF
	888	ENDIF
[1001]	889	IF ( cloud_droplets ) THEN
	890	ql => ql_1
	891	ql_c => ql_2
[1]	892	ENDIF
[1001]	893	ENDIF
[1960]	894
	895	IF ( passive_scalar ) THEN
	896	s => s_1; s_p => s_2; ts_m => s_3
	897	ENDIF
[1]	898
[1001]	899	IF ( ocean ) THEN
	900	sa => sa_1; sa_p => sa_2; tsa_m => sa_3
	901	ENDIF
[1010]	902	#endif
[1]	903	!
[2232]	904	!-- Initialize wall arrays
	905	CALL init_surface_arrays
	906	!
[1551]	907	!-- Allocate land surface model arrays
	908	IF ( land_surface ) THEN
[1817]	909	CALL lsm_init_arrays
[1551]	910	ENDIF
	911
	912	!
[1914]	913	!-- Allocate wind turbine model arrays
	914	IF ( wind_turbine ) THEN
	915	CALL wtm_init_arrays
	916	ENDIF
[1957]	917
	918	!
	919	!-- Initialize virtual flight measurements
	920	IF ( virtual_flight ) THEN
	921	CALL flight_init
	922	ENDIF
[1914]	923
	924	!
[709]	925	!-- Allocate arrays containing the RK coefficient for calculation of
	926	!-- perturbation pressure and turbulent fluxes. At this point values are
	927	!-- set for pressure calculation during initialization (where no timestep
	928	!-- is done). Further below the values needed within the timestep scheme
	929	!-- will be set.
[1788]	930	ALLOCATE( weight_substep(1:intermediate_timestep_count_max), &
[1878]	931	weight_pres(1:intermediate_timestep_count_max) )
[1340]	932	weight_substep = 1.0_wp
	933	weight_pres = 1.0_wp
[1918]	934	intermediate_timestep_count = 0 ! needed when simulated_time = 0.0
[673]	935
[1402]	936	CALL location_message( 'finished', .TRUE. )
[1918]	937
[673]	938	!
[1918]	939	!-- Initialize local summation arrays for routine flow_statistics.
	940	!-- This is necessary because they may not yet have been initialized when they
	941	!-- are called from flow_statistics (or - depending on the chosen model run -
	942	!-- are never initialized)
	943	sums_divnew_l = 0.0_wp
	944	sums_divold_l = 0.0_wp
	945	sums_l_l = 0.0_wp
	946	sums_wsts_bc_l = 0.0_wp
	947
	948	!
[1]	949	!-- Initialize model variables
[1788]	950	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[328]	951	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
[1]	952	!
	953	!-- First model run of a possible job queue.
	954	!-- Initial profiles of the variables must be computes.
	955	IF ( INDEX( initializing_actions, 'set_1d-model_profiles' ) /= 0 ) THEN
[1384]	956
[1402]	957	CALL location_message( 'initializing with 1D model profiles', .FALSE. )
[1]	958	!
	959	!-- Use solutions of the 1D model as initial profiles,
	960	!-- start 1D model
	961	CALL init_1d_model
	962	!
	963	!-- Transfer initial profiles to the arrays of the 3D model
[667]	964	DO i = nxlg, nxrg
	965	DO j = nysg, nyng
[1]	966	e(:,j,i) = e1d
	967	kh(:,j,i) = kh1d
	968	km(:,j,i) = km1d
	969	pt(:,j,i) = pt_init
	970	u(:,j,i) = u1d
	971	v(:,j,i) = v1d
	972	ENDDO
	973	ENDDO
	974
[1960]	975	IF ( humidity ) THEN
[667]	976	DO i = nxlg, nxrg
	977	DO j = nysg, nyng
[1]	978	q(:,j,i) = q_init
	979	ENDDO
	980	ENDDO
[1822]	981	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1053]	982	DO i = nxlg, nxrg
	983	DO j = nysg, nyng
[1340]	984	qr(:,j,i) = 0.0_wp
	985	nr(:,j,i) = 0.0_wp
[1053]	986	ENDDO
	987	ENDDO
[1115]	988
[1053]	989	ENDIF
[1]	990	ENDIF
[1960]	991	IF ( passive_scalar ) THEN
	992	DO i = nxlg, nxrg
	993	DO j = nysg, nyng
	994	s(:,j,i) = s_init
	995	ENDDO
	996	ENDDO
	997	ENDIF
[1]	998
	999	IF ( .NOT. constant_diffusion ) THEN
[667]	1000	DO i = nxlg, nxrg
	1001	DO j = nysg, nyng
[1]	1002	e(:,j,i) = e1d
	1003	ENDDO
	1004	ENDDO
	1005	!
	1006	!-- Store initial profiles for output purposes etc.
	1007	hom(:,1,25,:) = SPREAD( l1d, 2, statistic_regions+1 )
	1008
	1009	ELSE
[1340]	1010	e = 0.0_wp ! must be set, because used in
[1]	1011	ENDIF
	1012	!
[1762]	1013	!-- Inside buildings set velocities back to zero
[1]	1014	IF ( topography /= 'flat' ) THEN
[1762]	1015	DO i = nxlg, nxrg
	1016	DO j = nysg, nyng
[2232]	1017	DO k = nzb, nzt
	1018	u(k,j,i) = MERGE( u(k,j,i), 0.0_wp, &
	1019	BTEST( wall_flags_0(k,j,i), 1 ) )
	1020	v(k,j,i) = MERGE( v(k,j,i), 0.0_wp, &
	1021	BTEST( wall_flags_0(k,j,i), 2 ) )
	1022	ENDDO
[1]	1023	ENDDO
	1024	ENDDO
[667]	1025
[1]	1026	!
	1027	!-- WARNING: The extra boundary conditions set after running the
	1028	!-- ------- 1D model impose an error on the divergence one layer
	1029	!-- below the topography; need to correct later
	1030	!-- ATTENTION: Provisional correction for Piacsek & Williams
	1031	!-- --------- advection scheme: keep u and v zero one layer below
	1032	!-- the topography.
[667]	1033	IF ( ibc_uv_b == 1 ) THEN
	1034	!
[1]	1035	!-- Neumann condition
	1036	DO i = nxl-1, nxr+1
	1037	DO j = nys-1, nyn+1
[2232]	1038	u(nzb,j,i) = u(nzb+1,j,i)
	1039	v(nzb,j,i) = v(nzb+1,j,i)
[1]	1040	ENDDO
	1041	ENDDO
	1042
	1043	ENDIF
	1044
	1045	ENDIF
	1046
[1402]	1047	CALL location_message( 'finished', .TRUE. )
[1384]	1048
[1788]	1049	ELSEIF ( INDEX(initializing_actions, 'set_constant_profiles') /= 0 ) &
[1]	1050	THEN
[1241]	1051
[1402]	1052	CALL location_message( 'initializing with constant profiles', .FALSE. )
[1]	1053	!
[1241]	1054	!-- Overwrite initial profiles in case of nudging
[1788]	1055	IF ( nudging ) THEN
[1241]	1056	pt_init = ptnudge(:,1)
	1057	u_init = unudge(:,1)
	1058	v_init = vnudge(:,1)
[1960]	1059	IF ( humidity ) THEN ! is passive_scalar correct???
[1241]	1060	q_init = qnudge(:,1)
	1061	ENDIF
	1062
[1788]	1063	WRITE( message_string, * ) 'Initial profiles of u, v and ', &
[1241]	1064	'scalars from NUDGING_DATA are used.'
	1065	CALL message( 'init_3d_model', 'PA0370', 0, 0, 0, 6, 0 )
	1066	ENDIF
	1067
	1068	!
[2259]	1069	!-- Overwrite initial profiles in case of synthetic turbulence generator
	1070	IF( use_synthetic_turbulence_generator ) THEN
	1071	CALL stg_init
	1072	ENDIF
	1073
	1074	!
[1]	1075	!-- Use constructed initial profiles (velocity constant with height,
	1076	!-- temperature profile with constant gradient)
[667]	1077	DO i = nxlg, nxrg
	1078	DO j = nysg, nyng
[1]	1079	pt(:,j,i) = pt_init
	1080	u(:,j,i) = u_init
	1081	v(:,j,i) = v_init
	1082	ENDDO
	1083	ENDDO
[75]	1084
[1]	1085	!
[292]	1086	!-- Set initial horizontal velocities at the lowest computational grid
	1087	!-- levels to zero in order to avoid too small time steps caused by the
	1088	!-- diffusion limit in the initial phase of a run (at k=1, dz/2 occurs
[1815]	1089	!-- in the limiting formula!).
	1090	IF ( ibc_uv_b /= 1 ) THEN
	1091	DO i = nxlg, nxrg
	1092	DO j = nysg, nyng
[2232]	1093	DO k = nzb, nzt
	1094	u(k,j,i) = MERGE( u(k,j,i), 0.0_wp, &
	1095	BTEST( wall_flags_0(k,j,i), 20 ) )
	1096	v(k,j,i) = MERGE( v(k,j,i), 0.0_wp, &
	1097	BTEST( wall_flags_0(k,j,i), 21 ) )
	1098	ENDDO
[1815]	1099	ENDDO
	1100	ENDDO
	1101	ENDIF
[1]	1102
[1960]	1103	IF ( humidity ) THEN
[667]	1104	DO i = nxlg, nxrg
	1105	DO j = nysg, nyng
[1]	1106	q(:,j,i) = q_init
	1107	ENDDO
	1108	ENDDO
[1822]	1109	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1115]	1110
[1822]	1111	DO i = nxlg, nxrg
	1112	DO j = nysg, nyng
	1113	qr(:,j,i) = 0.0_wp
	1114	nr(:,j,i) = 0.0_wp
[1053]	1115	ENDDO
[1822]	1116	ENDDO
[1115]	1117
[1053]	1118	ENDIF
[1]	1119	ENDIF
[1960]	1120
	1121	IF ( passive_scalar ) THEN
	1122	DO i = nxlg, nxrg
	1123	DO j = nysg, nyng
	1124	s(:,j,i) = s_init
	1125	ENDDO
	1126	ENDDO
	1127	ENDIF
[1]	1128
[94]	1129	IF ( ocean ) THEN
[667]	1130	DO i = nxlg, nxrg
	1131	DO j = nysg, nyng
[94]	1132	sa(:,j,i) = sa_init
	1133	ENDDO
	1134	ENDDO
	1135	ENDIF
[1]	1136
	1137	IF ( constant_diffusion ) THEN
	1138	km = km_constant
	1139	kh = km / prandtl_number
[1340]	1140	e = 0.0_wp
	1141	ELSEIF ( e_init > 0.0_wp ) THEN
[108]	1142	DO k = nzb+1, nzt
[1340]	1143	km(k,:,:) = 0.1_wp * l_grid(k) * SQRT( e_init )
[108]	1144	ENDDO
	1145	km(nzb,:,:) = km(nzb+1,:,:)
	1146	km(nzt+1,:,:) = km(nzt,:,:)
	1147	kh = km / prandtl_number
	1148	e = e_init
[1]	1149	ELSE
[108]	1150	IF ( .NOT. ocean ) THEN
[1340]	1151	kh = 0.01_wp ! there must exist an initial diffusion, because
	1152	km = 0.01_wp ! otherwise no TKE would be produced by the
[108]	1153	! production terms, as long as not yet
	1154	! e = (u/cm)*2 at k=nzb+1
	1155	ELSE
[1340]	1156	kh = 0.00001_wp
	1157	km = 0.00001_wp
[108]	1158	ENDIF
[1340]	1159	e = 0.0_wp
[1]	1160	ENDIF
[1920]	1161	!
[1]	1162	!-- Compute initial temperature field and other constants used in case
	1163	!-- of a sloping surface
	1164	IF ( sloping_surface ) CALL init_slope
	1165
[1402]	1166	CALL location_message( 'finished', .TRUE. )
[1384]	1167
[1788]	1168	ELSEIF ( INDEX(initializing_actions, 'by_user') /= 0 ) &
[46]	1169	THEN
[1384]	1170
[1402]	1171	CALL location_message( 'initializing by user', .FALSE. )
[46]	1172	!
	1173	!-- Initialization will completely be done by the user
	1174	CALL user_init_3d_model
	1175
[1402]	1176	CALL location_message( 'finished', .TRUE. )
[1384]	1177
[1]	1178	ENDIF
[1384]	1179
[1402]	1180	CALL location_message( 'initializing statistics, boundary conditions, etc.', &
	1181	.FALSE. )
[1384]	1182
[667]	1183	!
	1184	!-- Bottom boundary
	1185	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2 ) THEN
[1340]	1186	u(nzb,:,:) = 0.0_wp
	1187	v(nzb,:,:) = 0.0_wp
[667]	1188	ENDIF
[1]	1189
	1190	!
[151]	1191	!-- Apply channel flow boundary condition
[132]	1192	IF ( TRIM( bc_uv_t ) == 'dirichlet_0' ) THEN
[1340]	1193	u(nzt+1,:,:) = 0.0_wp
	1194	v(nzt+1,:,:) = 0.0_wp
[132]	1195	ENDIF
	1196
	1197	!
[1]	1198	!-- Calculate virtual potential temperature
[1960]	1199	IF ( humidity ) vpt = pt * ( 1.0_wp + 0.61_wp * q )
[1]	1200
	1201	!
	1202	!-- Store initial profiles for output purposes etc.
	1203	hom(:,1,5,:) = SPREAD( u(:,nys,nxl), 2, statistic_regions+1 )
	1204	hom(:,1,6,:) = SPREAD( v(:,nys,nxl), 2, statistic_regions+1 )
[667]	1205	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2) THEN
[1340]	1206	hom(nzb,1,5,:) = 0.0_wp
	1207	hom(nzb,1,6,:) = 0.0_wp
[1]	1208	ENDIF
	1209	hom(:,1,7,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	1210	hom(:,1,23,:) = SPREAD( km(:,nys,nxl), 2, statistic_regions+1 )
	1211	hom(:,1,24,:) = SPREAD( kh(:,nys,nxl), 2, statistic_regions+1 )
	1212
[97]	1213	IF ( ocean ) THEN
	1214	!
	1215	!-- Store initial salinity profile
	1216	hom(:,1,26,:) = SPREAD( sa(:,nys,nxl), 2, statistic_regions+1 )
	1217	ENDIF
[1]	1218
[75]	1219	IF ( humidity ) THEN
[1]	1220	!
	1221	!-- Store initial profile of total water content, virtual potential
	1222	!-- temperature
	1223	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	1224	hom(:,1,29,:) = SPREAD( vpt(:,nys,nxl), 2, statistic_regions+1 )
	1225	IF ( cloud_physics .OR. cloud_droplets ) THEN
	1226	!
	1227	!-- Store initial profile of specific humidity and potential
	1228	!-- temperature
	1229	hom(:,1,27,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	1230	hom(:,1,28,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	1231	ENDIF
	1232	ENDIF
	1233
	1234	IF ( passive_scalar ) THEN
	1235	!
	1236	!-- Store initial scalar profile
[1960]	1237	hom(:,1,115,:) = SPREAD( s(:,nys,nxl), 2, statistic_regions+1 )
[1]	1238	ENDIF
	1239
	1240	!
[1400]	1241	!-- Initialize the random number generators (from numerical recipes)
	1242	CALL random_function_ini
[1429]	1243
[1400]	1244	IF ( random_generator == 'random-parallel' ) THEN
[2172]	1245	CALL init_parallel_random_generator(nx, ny, nys, nyn, nxl, nxr)
[1400]	1246	ENDIF
	1247	!
[1179]	1248	!-- Set the reference state to be used in the buoyancy terms (for ocean runs
	1249	!-- the reference state will be set (overwritten) in init_ocean)
	1250	IF ( use_single_reference_value ) THEN
[1788]	1251	IF ( .NOT. humidity ) THEN
[1179]	1252	ref_state(:) = pt_reference
	1253	ELSE
	1254	ref_state(:) = vpt_reference
	1255	ENDIF
	1256	ELSE
[1788]	1257	IF ( .NOT. humidity ) THEN
[1179]	1258	ref_state(:) = pt_init(:)
	1259	ELSE
	1260	ref_state(:) = vpt(:,nys,nxl)
	1261	ENDIF
	1262	ENDIF
[152]	1263
	1264	!
[707]	1265	!-- For the moment, vertical velocity is zero
[1340]	1266	w = 0.0_wp
[1]	1267
	1268	!
	1269	!-- Initialize array sums (must be defined in first call of pres)
[1340]	1270	sums = 0.0_wp
[1]	1271
	1272	!
[707]	1273	!-- In case of iterative solvers, p must get an initial value
[1575]	1274	IF ( psolver(1:9) == 'multigrid' .OR. psolver == 'sor' ) p = 0.0_wp
[707]	1275
	1276	!
[72]	1277	!-- Treating cloud physics, liquid water content and precipitation amount
	1278	!-- are zero at beginning of the simulation
	1279	IF ( cloud_physics ) THEN
[1340]	1280	ql = 0.0_wp
[1822]	1281	qc = 0.0_wp
	1282
	1283	precipitation_amount = 0.0_wp
[72]	1284	ENDIF
[673]	1285	!
[1]	1286	!-- Impose vortex with vertical axis on the initial velocity profile
	1287	IF ( INDEX( initializing_actions, 'initialize_vortex' ) /= 0 ) THEN
	1288	CALL init_rankine
	1289	ENDIF
	1290
	1291	!
	1292	!-- Impose temperature anomaly (advection test only)
	1293	IF ( INDEX( initializing_actions, 'initialize_ptanom' ) /= 0 ) THEN
	1294	CALL init_pt_anomaly
	1295	ENDIF
	1296
	1297	!
	1298	!-- If required, change the surface temperature at the start of the 3D run
[1340]	1299	IF ( pt_surface_initial_change /= 0.0_wp ) THEN
[1]	1300	pt(nzb,:,:) = pt(nzb,:,:) + pt_surface_initial_change
	1301	ENDIF
	1302
	1303	!
	1304	!-- If required, change the surface humidity/scalar at the start of the 3D
	1305	!-- run
[1960]	1306	IF ( humidity .AND. q_surface_initial_change /= 0.0_wp ) &
[1]	1307	q(nzb,:,:) = q(nzb,:,:) + q_surface_initial_change
[1960]	1308
	1309	IF ( passive_scalar .AND. s_surface_initial_change /= 0.0_wp ) &
	1310	s(nzb,:,:) = s(nzb,:,:) + s_surface_initial_change
	1311
[1]	1312
	1313	!
	1314	!-- Initialize old and new time levels.
[1340]	1315	te_m = 0.0_wp; tpt_m = 0.0_wp; tu_m = 0.0_wp; tv_m = 0.0_wp; tw_m = 0.0_wp
[1]	1316	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
	1317
[1960]	1318	IF ( humidity ) THEN
[1340]	1319	tq_m = 0.0_wp
[1]	1320	q_p = q
[1822]	1321	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1322	tqr_m = 0.0_wp
[1822]	1323	qr_p = qr
[1340]	1324	tnr_m = 0.0_wp
[1822]	1325	nr_p = nr
[1053]	1326	ENDIF
[1]	1327	ENDIF
[1960]	1328
	1329	IF ( passive_scalar ) THEN
	1330	ts_m = 0.0_wp
	1331	s_p = s
	1332	ENDIF
[1]	1333
[94]	1334	IF ( ocean ) THEN
[1340]	1335	tsa_m = 0.0_wp
[94]	1336	sa_p = sa
	1337	ENDIF
[667]	1338
[1402]	1339	CALL location_message( 'finished', .TRUE. )
[94]	1340
[1788]	1341	ELSEIF ( TRIM( initializing_actions ) == 'read_restart_data' .OR. &
[2232]	1342	TRIM( initializing_actions ) == 'cyclic_fill' ) &
[1]	1343	THEN
[1384]	1344
[1402]	1345	CALL location_message( 'initializing in case of restart / cyclic_fill', &
	1346	.FALSE. )
[1]	1347	!
[2232]	1348	!-- Initialize surface elements and its attributes, e.g. heat- and
	1349	!-- momentumfluxes, roughness, scaling parameters. As number of surface
	1350	!-- elements might be different between runs, e.g. in case of cyclic fill,
	1351	!-- and not all surface elements are read, surface elements need to be
	1352	!-- initialized before.
	1353	CALL init_surfaces
	1354	!
[767]	1355	!-- When reading data for cyclic fill of 3D prerun data files, read
	1356	!-- some of the global variables from the restart file which are required
	1357	!-- for initializing the inflow
[328]	1358	IF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
[559]	1359
[759]	1360	DO i = 0, io_blocks-1
	1361	IF ( i == io_group ) THEN
	1362	CALL read_parts_of_var_list
	1363	CALL close_file( 13 )
	1364	ENDIF
	1365	#if defined( __parallel )
	1366	CALL MPI_BARRIER( comm2d, ierr )
	1367	#endif
	1368	ENDDO
[328]	1369
[767]	1370	ENDIF
	1371
[151]	1372	!
[767]	1373	!-- Read binary data from restart file
	1374	DO i = 0, io_blocks-1
	1375	IF ( i == io_group ) THEN
	1376	CALL read_3d_binary
	1377	ENDIF
	1378	#if defined( __parallel )
	1379	CALL MPI_BARRIER( comm2d, ierr )
	1380	#endif
	1381	ENDDO
	1382
[328]	1383	!
[767]	1384	!-- Initialization of the turbulence recycling method
[1788]	1385	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
[767]	1386	turbulent_inflow ) THEN
	1387	!
	1388	!-- First store the profiles to be used at the inflow.
	1389	!-- These profiles are the (temporally) and horizontally averaged vertical
	1390	!-- profiles from the prerun. Alternatively, prescribed profiles
	1391	!-- for u,v-components can be used.
[1960]	1392	ALLOCATE( mean_inflow_profiles(nzb:nzt+1,7) )
[151]	1393
[767]	1394	IF ( use_prescribed_profile_data ) THEN
	1395	mean_inflow_profiles(:,1) = u_init ! u
	1396	mean_inflow_profiles(:,2) = v_init ! v
	1397	ELSE
[328]	1398	mean_inflow_profiles(:,1) = hom_sum(:,1,0) ! u
	1399	mean_inflow_profiles(:,2) = hom_sum(:,2,0) ! v
[767]	1400	ENDIF
	1401	mean_inflow_profiles(:,4) = hom_sum(:,4,0) ! pt
	1402	mean_inflow_profiles(:,5) = hom_sum(:,8,0) ! e
[1960]	1403	IF ( humidity ) &
	1404	mean_inflow_profiles(:,6) = hom_sum(:,41,0) ! q
	1405	IF ( passive_scalar ) &
	1406	mean_inflow_profiles(:,7) = hom_sum(:,115,0) ! s
[151]	1407
	1408	!
[767]	1409	!-- If necessary, adjust the horizontal flow field to the prescribed
	1410	!-- profiles
	1411	IF ( use_prescribed_profile_data ) THEN
	1412	DO i = nxlg, nxrg
[667]	1413	DO j = nysg, nyng
[328]	1414	DO k = nzb, nzt+1
[767]	1415	u(k,j,i) = u(k,j,i) - hom_sum(k,1,0) + u_init(k)
	1416	v(k,j,i) = v(k,j,i) - hom_sum(k,2,0) + v_init(k)
[328]	1417	ENDDO
[151]	1418	ENDDO
[767]	1419	ENDDO
	1420	ENDIF
[151]	1421
	1422	!
[767]	1423	!-- Use these mean profiles at the inflow (provided that Dirichlet
	1424	!-- conditions are used)
	1425	IF ( inflow_l ) THEN
	1426	DO j = nysg, nyng
	1427	DO k = nzb, nzt+1
	1428	u(k,j,nxlg:-1) = mean_inflow_profiles(k,1)
	1429	v(k,j,nxlg:-1) = mean_inflow_profiles(k,2)
[1340]	1430	w(k,j,nxlg:-1) = 0.0_wp
[767]	1431	pt(k,j,nxlg:-1) = mean_inflow_profiles(k,4)
	1432	e(k,j,nxlg:-1) = mean_inflow_profiles(k,5)
[1960]	1433	IF ( humidity ) &
[1615]	1434	q(k,j,nxlg:-1) = mean_inflow_profiles(k,6)
[1960]	1435	IF ( passive_scalar ) &
	1436	s(k,j,nxlg:-1) = mean_inflow_profiles(k,7)
[767]	1437	ENDDO
	1438	ENDDO
	1439	ENDIF
	1440
[151]	1441	!
[767]	1442	!-- Calculate the damping factors to be used at the inflow. For a
	1443	!-- turbulent inflow the turbulent fluctuations have to be limited
	1444	!-- vertically because otherwise the turbulent inflow layer will grow
	1445	!-- in time.
[1340]	1446	IF ( inflow_damping_height == 9999999.9_wp ) THEN
[767]	1447	!
	1448	!-- Default: use the inversion height calculated by the prerun; if
	1449	!-- this is zero, inflow_damping_height must be explicitly
	1450	!-- specified.
[1340]	1451	IF ( hom_sum(nzb+6,pr_palm,0) /= 0.0_wp ) THEN
[767]	1452	inflow_damping_height = hom_sum(nzb+6,pr_palm,0)
	1453	ELSE
[1788]	1454	WRITE( message_string, * ) 'inflow_damping_height must be ', &
	1455	'explicitly specified because&the inversion height ', &
[767]	1456	'calculated by the prerun is zero.'
	1457	CALL message( 'init_3d_model', 'PA0318', 1, 2, 0, 6, 0 )
[292]	1458	ENDIF
[151]	1459
[767]	1460	ENDIF
	1461
[1340]	1462	IF ( inflow_damping_width == 9999999.9_wp ) THEN
[151]	1463	!
[767]	1464	!-- Default for the transition range: one tenth of the undamped
	1465	!-- layer
[1340]	1466	inflow_damping_width = 0.1_wp * inflow_damping_height
[151]	1467
[767]	1468	ENDIF
[151]	1469
[767]	1470	ALLOCATE( inflow_damping_factor(nzb:nzt+1) )
[151]	1471
[767]	1472	DO k = nzb, nzt+1
[151]	1473
[767]	1474	IF ( zu(k) <= inflow_damping_height ) THEN
[1340]	1475	inflow_damping_factor(k) = 1.0_wp
[996]	1476	ELSEIF ( zu(k) <= ( inflow_damping_height + inflow_damping_width ) ) THEN
[1340]	1477	inflow_damping_factor(k) = 1.0_wp - &
[996]	1478	( zu(k) - inflow_damping_height ) / &
	1479	inflow_damping_width
[767]	1480	ELSE
[1340]	1481	inflow_damping_factor(k) = 0.0_wp
[767]	1482	ENDIF
[151]	1483
[767]	1484	ENDDO
[151]	1485
[147]	1486	ENDIF
	1487
[152]	1488	!
[359]	1489	!-- Inside buildings set velocities and TKE back to zero
[1788]	1490	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
[359]	1491	topography /= 'flat' ) THEN
	1492	!
	1493	!-- Inside buildings set velocities and TKE back to zero.
	1494	!-- Other scalars (pt, q, s, km, kh, p, sa, ...) are ignored at present,
	1495	!-- maybe revise later.
[1001]	1496	DO i = nxlg, nxrg
	1497	DO j = nysg, nyng
[2232]	1498	DO k = nzb, nzt
	1499	u(k,j,i) = MERGE( u(k,j,i), 0.0_wp, &
	1500	BTEST( wall_flags_0(k,j,i), 1 ) )
	1501	v(k,j,i) = MERGE( v(k,j,i), 0.0_wp, &
	1502	BTEST( wall_flags_0(k,j,i), 2 ) )
	1503	w(k,j,i) = MERGE( w(k,j,i), 0.0_wp, &
	1504	BTEST( wall_flags_0(k,j,i), 3 ) )
	1505	e(k,j,i) = MERGE( e(k,j,i), 0.0_wp, &
	1506	BTEST( wall_flags_0(k,j,i), 0 ) )
	1507	tu_m(k,j,i) = MERGE( tu_m(k,j,i), 0.0_wp, &
	1508	BTEST( wall_flags_0(k,j,i), 1 ) )
	1509	tv_m(k,j,i) = MERGE( tv_m(k,j,i), 0.0_wp, &
	1510	BTEST( wall_flags_0(k,j,i), 2 ) )
	1511	tw_m(k,j,i) = MERGE( tw_m(k,j,i), 0.0_wp, &
	1512	BTEST( wall_flags_0(k,j,i), 3 ) )
	1513	te_m(k,j,i) = MERGE( te_m(k,j,i), 0.0_wp, &
	1514	BTEST( wall_flags_0(k,j,i), 0 ) )
	1515	tpt_m(k,j,i) = MERGE( tpt_m(k,j,i), 0.0_wp, &
	1516	BTEST( wall_flags_0(k,j,i), 0 ) )
	1517	ENDDO
[359]	1518	ENDDO
[1001]	1519	ENDDO
[359]	1520
	1521	ENDIF
	1522
	1523	!
[1]	1524	!-- Calculate initial temperature field and other constants used in case
	1525	!-- of a sloping surface
	1526	IF ( sloping_surface ) CALL init_slope
	1527
	1528	!
	1529	!-- Initialize new time levels (only done in order to set boundary values
	1530	!-- including ghost points)
	1531	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
[1960]	1532	IF ( humidity ) THEN
[1053]	1533	q_p = q
[1822]	1534	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1053]	1535	qr_p = qr
	1536	nr_p = nr
	1537	ENDIF
	1538	ENDIF
[1960]	1539	IF ( passive_scalar ) s_p = s
	1540	IF ( ocean ) sa_p = sa
[1]	1541
[181]	1542	!
	1543	!-- Allthough tendency arrays are set in prognostic_equations, they have
	1544	!-- have to be predefined here because they are used (but multiplied with 0)
	1545	!-- there before they are set.
[1340]	1546	te_m = 0.0_wp; tpt_m = 0.0_wp; tu_m = 0.0_wp; tv_m = 0.0_wp; tw_m = 0.0_wp
[1960]	1547	IF ( humidity ) THEN
[1340]	1548	tq_m = 0.0_wp
[1822]	1549	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1550	tqr_m = 0.0_wp
	1551	tnr_m = 0.0_wp
[1053]	1552	ENDIF
	1553	ENDIF
[1960]	1554	IF ( passive_scalar ) ts_m = 0.0_wp
	1555	IF ( ocean ) tsa_m = 0.0_wp
[2259]	1556	!
	1557	!-- Initialize synthetic turbulence generator in case of restart.
	1558	IF ( TRIM( initializing_actions ) == 'read_restart_data' .AND. &
	1559	use_synthetic_turbulence_generator ) CALL stg_init
[181]	1560
[1402]	1561	CALL location_message( 'finished', .TRUE. )
[1384]	1562
[1]	1563	ELSE
	1564	!
	1565	!-- Actually this part of the programm should not be reached
[254]	1566	message_string = 'unknown initializing problem'
	1567	CALL message( 'init_3d_model', 'PA0193', 1, 2, 0, 6, 0 )
[1]	1568	ENDIF
	1569
[151]	1570
	1571	IF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
[1]	1572	!
[151]	1573	!-- Initialize old timelevels needed for radiation boundary conditions
	1574	IF ( outflow_l ) THEN
	1575	u_m_l(:,:,:) = u(:,:,1:2)
	1576	v_m_l(:,:,:) = v(:,:,0:1)
	1577	w_m_l(:,:,:) = w(:,:,0:1)
	1578	ENDIF
	1579	IF ( outflow_r ) THEN
	1580	u_m_r(:,:,:) = u(:,:,nx-1:nx)
	1581	v_m_r(:,:,:) = v(:,:,nx-1:nx)
	1582	w_m_r(:,:,:) = w(:,:,nx-1:nx)
	1583	ENDIF
	1584	IF ( outflow_s ) THEN
	1585	u_m_s(:,:,:) = u(:,0:1,:)
	1586	v_m_s(:,:,:) = v(:,1:2,:)
	1587	w_m_s(:,:,:) = w(:,0:1,:)
	1588	ENDIF
	1589	IF ( outflow_n ) THEN
	1590	u_m_n(:,:,:) = u(:,ny-1:ny,:)
	1591	v_m_n(:,:,:) = v(:,ny-1:ny,:)
	1592	w_m_n(:,:,:) = w(:,ny-1:ny,:)
	1593	ENDIF
[667]	1594
[151]	1595	ENDIF
[680]	1596
[667]	1597	!
	1598	!-- Calculate the initial volume flow at the right and north boundary
[709]	1599	IF ( conserve_volume_flow ) THEN
[151]	1600
[767]	1601	IF ( use_prescribed_profile_data ) THEN
[667]	1602
[1340]	1603	volume_flow_initial_l = 0.0_wp
	1604	volume_flow_area_l = 0.0_wp
[732]	1605
[667]	1606	IF ( nxr == nx ) THEN
	1607	DO j = nys, nyn
[2232]	1608	DO k = nzb+1, nzt
[1788]	1609	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[2232]	1610	u_init(k) * dzw(k) &
	1611	* MERGE( 1.0_wp, 0.0_wp, &
	1612	BTEST( wall_flags_0(k,j,nxr), 1 )&
	1613	)
	1614
	1615	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k) &
	1616	* MERGE( 1.0_wp, 0.0_wp, &
	1617	BTEST( wall_flags_0(k,j,nxr), 1 )&
	1618	)
[767]	1619	ENDDO
	1620	ENDDO
	1621	ENDIF
	1622
	1623	IF ( nyn == ny ) THEN
	1624	DO i = nxl, nxr
[2232]	1625	DO k = nzb+1, nzt
	1626	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1627	v_init(k) * dzw(k) &
	1628	* MERGE( 1.0_wp, 0.0_wp, &
	1629	BTEST( wall_flags_0(k,nyn,i), 2 )&
	1630	)
	1631	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k) &
	1632	* MERGE( 1.0_wp, 0.0_wp, &
	1633	BTEST( wall_flags_0(k,nyn,i), 2 )&
	1634	)
[767]	1635	ENDDO
	1636	ENDDO
	1637	ENDIF
	1638
	1639	#if defined( __parallel )
	1640	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1641	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1642	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1643	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1644
	1645	#else
	1646	volume_flow_initial = volume_flow_initial_l
	1647	volume_flow_area = volume_flow_area_l
	1648	#endif
	1649
	1650	ELSEIF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
	1651
[1340]	1652	volume_flow_initial_l = 0.0_wp
	1653	volume_flow_area_l = 0.0_wp
[767]	1654
	1655	IF ( nxr == nx ) THEN
	1656	DO j = nys, nyn
[2232]	1657	DO k = nzb+1, nzt
[1788]	1658	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[2232]	1659	hom_sum(k,1,0) * dzw(k) &
	1660	* MERGE( 1.0_wp, 0.0_wp, &
	1661	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1662	)
	1663	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k) &
	1664	* MERGE( 1.0_wp, 0.0_wp, &
	1665	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1666	)
[667]	1667	ENDDO
	1668	ENDDO
	1669	ENDIF
	1670
	1671	IF ( nyn == ny ) THEN
	1672	DO i = nxl, nxr
[2232]	1673	DO k = nzb+1, nzt
[1788]	1674	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[2232]	1675	hom_sum(k,2,0) * dzw(k) &
	1676	* MERGE( 1.0_wp, 0.0_wp, &
	1677	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1678	)
	1679	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k) &
	1680	* MERGE( 1.0_wp, 0.0_wp, &
	1681	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1682	)
[667]	1683	ENDDO
	1684	ENDDO
	1685	ENDIF
	1686
[732]	1687	#if defined( __parallel )
	1688	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1689	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1690	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1691	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1692
	1693	#else
	1694	volume_flow_initial = volume_flow_initial_l
	1695	volume_flow_area = volume_flow_area_l
	1696	#endif
	1697
[667]	1698	ELSEIF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
	1699
[1340]	1700	volume_flow_initial_l = 0.0_wp
	1701	volume_flow_area_l = 0.0_wp
[732]	1702
[667]	1703	IF ( nxr == nx ) THEN
	1704	DO j = nys, nyn
[2232]	1705	DO k = nzb+1, nzt
	1706	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
	1707	u(k,j,nx) * dzw(k) &
	1708	* MERGE( 1.0_wp, 0.0_wp, &
	1709	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1710	)
	1711	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k) &
	1712	* MERGE( 1.0_wp, 0.0_wp, &
	1713	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1714	)
[667]	1715	ENDDO
	1716	ENDDO
	1717	ENDIF
	1718
	1719	IF ( nyn == ny ) THEN
	1720	DO i = nxl, nxr
[2232]	1721	DO k = nzb+1, nzt
[1788]	1722	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[2232]	1723	v(k,ny,i) * dzw(k) &
	1724	* MERGE( 1.0_wp, 0.0_wp, &
	1725	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1726	)
	1727	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k) &
	1728	* MERGE( 1.0_wp, 0.0_wp, &
	1729	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1730	)
[667]	1731	ENDDO
	1732	ENDDO
	1733	ENDIF
	1734
	1735	#if defined( __parallel )
[732]	1736	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1737	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1738	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1739	2, MPI_REAL, MPI_SUM, comm2d, ierr )
[667]	1740
	1741	#else
[732]	1742	volume_flow_initial = volume_flow_initial_l
	1743	volume_flow_area = volume_flow_area_l
[667]	1744	#endif
	1745
[732]	1746	ENDIF
	1747
[151]	1748	!
[709]	1749	!-- In case of 'bulk_velocity' mode, volume_flow_initial is calculated
	1750	!-- from u\|v_bulk instead
[680]	1751	IF ( TRIM( conserve_volume_flow_mode ) == 'bulk_velocity' ) THEN
	1752	volume_flow_initial(1) = u_bulk * volume_flow_area(1)
	1753	volume_flow_initial(2) = v_bulk * volume_flow_area(2)
	1754	ENDIF
[667]	1755
[680]	1756	ENDIF
[2232]	1757	!
	1758	!-- Initialize surface elements and its attributes, e.g. heat- and
	1759	!-- momentumfluxes, roughness, scaling parameters.
	1760	!-- This is already done in case of restart data.
	1761	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
	1762	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1763	CALL init_surfaces
	1764	!
	1765	!-- Finally, if random_heatflux is set, disturb shf at horizontal
	1766	!-- surfaces. Actually, this should be done in surface_mod, where all other
	1767	!-- initializations of surface quantities are done. However, this
	1768	!-- would create a ring dependency, hence, it is done here. Maybe delete
	1769	!-- disturb_heatflux and tranfer the respective code directly into the
	1770	!-- initialization in surface_mod.
	1771	IF ( use_surface_fluxes .AND. constant_heatflux .AND. &
	1772	random_heatflux ) THEN
	1773	IF ( surf_def_h(0)%ns >= 1 ) CALL disturb_heatflux( surf_def_h(0) )
	1774	IF ( surf_lsm_h%ns >= 1 ) CALL disturb_heatflux( surf_lsm_h )
	1775	IF ( surf_usm_h%ns >= 1 ) CALL disturb_heatflux( surf_usm_h )
	1776	ENDIF
	1777	ENDIF
[680]	1778
[787]	1779	!
[2232]	1780	!-- Initialize surface forcing corresponding to large-scale forcing. Therein,
	1781	!-- initialize heat-fluxes, etc. via datatype. Revise it later!
	1782	IF ( large_scale_forcing .AND. lsf_surf ) THEN
	1783	IF ( use_surface_fluxes .AND. constant_heatflux ) THEN
	1784	CALL ls_forcing_surf ( simulated_time )
	1785	ENDIF
	1786	ENDIF
	1787	!
[787]	1788	!-- Initialize quantities for special advections schemes
	1789	CALL init_advec
[680]	1790
[667]	1791	!
[680]	1792	!-- Impose random perturbation on the horizontal velocity field and then
	1793	!-- remove the divergences from the velocity field at the initial stage
[1788]	1794	IF ( create_disturbances .AND. disturbance_energy_limit /= 0.0_wp .AND. &
	1795	TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[680]	1796	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1797
[1402]	1798	CALL location_message( 'creating initial disturbances', .FALSE. )
[2232]	1799	CALL disturb_field( 'u', tend, u )
	1800	CALL disturb_field( 'v', tend, v )
[1402]	1801	CALL location_message( 'finished', .TRUE. )
[1384]	1802
[1402]	1803	CALL location_message( 'calling pressure solver', .FALSE. )
[680]	1804	n_sor = nsor_ini
	1805	CALL pres
	1806	n_sor = nsor
[1402]	1807	CALL location_message( 'finished', .TRUE. )
[1384]	1808
[680]	1809	ENDIF
	1810
	1811	!
[1484]	1812	!-- If required, initialize quantities needed for the plant canopy model
[2007]	1813	IF ( plant_canopy ) THEN
	1814	CALL location_message( 'initializing plant canopy model', .FALSE. )
	1815	CALL pcm_init
	1816	CALL location_message( 'finished', .TRUE. )
	1817	ENDIF
[138]	1818
	1819	!
[1]	1820	!-- If required, initialize dvrp-software
[1340]	1821	IF ( dt_dvrp /= 9999999.9_wp ) CALL init_dvrp
[1]	1822
[96]	1823	IF ( ocean ) THEN
[1]	1824	!
[96]	1825	!-- Initialize quantities needed for the ocean model
	1826	CALL init_ocean
[388]	1827
[96]	1828	ELSE
	1829	!
	1830	!-- Initialize quantities for handling cloud physics
[849]	1831	!-- This routine must be called before lpm_init, because
[96]	1832	!-- otherwise, array pt_d_t, needed in data_output_dvrp (called by
[849]	1833	!-- lpm_init) is not defined.
[96]	1834	CALL init_cloud_physics
[1849]	1835	!
	1836	!-- Initialize bulk cloud microphysics
	1837	CALL microphysics_init
[96]	1838	ENDIF
[1]	1839
	1840	!
	1841	!-- If required, initialize particles
[849]	1842	IF ( particle_advection ) CALL lpm_init
[1]	1843
[1585]	1844	!
	1845	!-- If required, initialize quantities needed for the LSM
	1846	IF ( land_surface ) THEN
	1847	CALL location_message( 'initializing land surface model', .FALSE. )
[1817]	1848	CALL lsm_init
[1585]	1849	CALL location_message( 'finished', .TRUE. )
	1850	ENDIF
[1496]	1851
[1]	1852	!
[1691]	1853	!-- Initialize surface layer (done after LSM as roughness length are required
	1854	!-- for initialization
	1855	IF ( constant_flux_layer ) THEN
	1856	CALL location_message( 'initializing surface layer', .FALSE. )
	1857	CALL init_surface_layer_fluxes
	1858	CALL location_message( 'finished', .TRUE. )
	1859	ENDIF
	1860
	1861	!
[1496]	1862	!-- If required, initialize radiation model
	1863	IF ( radiation ) THEN
[1585]	1864	CALL location_message( 'initializing radiation model', .FALSE. )
[1826]	1865	CALL radiation_init
[1585]	1866	CALL location_message( 'finished', .TRUE. )
[1496]	1867	ENDIF
[2007]	1868
[2270]	1869
[1914]	1870	!
[2270]	1871	!-- Temporary solution to add LSM and radiation time series to the default
	1872	!-- output
	1873	IF ( land_surface .OR. radiation ) THEN
	1874	IF ( TRIM( radiation_scheme ) == 'rrtmg' ) THEN
	1875	dots_num = dots_num + 15
	1876	ELSE
	1877	dots_num = dots_num + 11
	1878	ENDIF
	1879	ENDIF
	1880
	1881	!
[2007]	1882	!-- If required, initialize urban surface model
	1883	IF ( urban_surface ) THEN
	1884	CALL location_message( 'initializing urban surface model', .FALSE. )
	1885	CALL usm_init_urban_surface
	1886	CALL location_message( 'finished', .TRUE. )
	1887	ENDIF
	1888
	1889	!
[1914]	1890	!-- If required, initialize quantities needed for the wind turbine model
	1891	IF ( wind_turbine ) THEN
	1892	CALL location_message( 'initializing wind turbine model', .FALSE. )
	1893	CALL wtm_init
	1894	CALL location_message( 'finished', .TRUE. )
	1895	ENDIF
[1496]	1896
[1914]	1897
[1496]	1898	!
[673]	1899	!-- Initialize the ws-scheme.
	1900	IF ( ws_scheme_sca .OR. ws_scheme_mom ) CALL ws_init
[1]	1901
	1902	!
[709]	1903	!-- Setting weighting factors for calculation of perturbation pressure
[1762]	1904	!-- and turbulent quantities from the RK substeps
[709]	1905	IF ( TRIM(timestep_scheme) == 'runge-kutta-3' ) THEN ! for RK3-method
	1906
[1322]	1907	weight_substep(1) = 1._wp/6._wp
	1908	weight_substep(2) = 3._wp/10._wp
	1909	weight_substep(3) = 8._wp/15._wp
[709]	1910
[1322]	1911	weight_pres(1) = 1._wp/3._wp
	1912	weight_pres(2) = 5._wp/12._wp
	1913	weight_pres(3) = 1._wp/4._wp
[709]	1914
	1915	ELSEIF ( TRIM(timestep_scheme) == 'runge-kutta-2' ) THEN ! for RK2-method
	1916
[1322]	1917	weight_substep(1) = 1._wp/2._wp
	1918	weight_substep(2) = 1._wp/2._wp
[673]	1919
[1322]	1920	weight_pres(1) = 1._wp/2._wp
	1921	weight_pres(2) = 1._wp/2._wp
[709]	1922
[1001]	1923	ELSE ! for Euler-method
[709]	1924
[1340]	1925	weight_substep(1) = 1.0_wp
	1926	weight_pres(1) = 1.0_wp
[709]	1927
[673]	1928	ENDIF
	1929
	1930	!
[1]	1931	!-- Initialize Rayleigh damping factors
[1340]	1932	rdf = 0.0_wp
	1933	rdf_sc = 0.0_wp
	1934	IF ( rayleigh_damping_factor /= 0.0_wp ) THEN
[1788]	1935	IF ( .NOT. ocean ) THEN
[108]	1936	DO k = nzb+1, nzt
	1937	IF ( zu(k) >= rayleigh_damping_height ) THEN
[1788]	1938	rdf(k) = rayleigh_damping_factor * &
[1340]	1939	( SIN( pi * 0.5_wp * ( zu(k) - rayleigh_damping_height ) &
[1788]	1940	/ ( zu(nzt) - rayleigh_damping_height ) ) &
[1]	1941	)**2
[108]	1942	ENDIF
	1943	ENDDO
	1944	ELSE
	1945	DO k = nzt, nzb+1, -1
	1946	IF ( zu(k) <= rayleigh_damping_height ) THEN
[1788]	1947	rdf(k) = rayleigh_damping_factor * &
[1340]	1948	( SIN( pi * 0.5_wp * ( rayleigh_damping_height - zu(k) ) &
[1788]	1949	/ ( rayleigh_damping_height - zu(nzb+1) ) ) &
[108]	1950	)**2
	1951	ENDIF
	1952	ENDDO
	1953	ENDIF
[1]	1954	ENDIF
[785]	1955	IF ( scalar_rayleigh_damping ) rdf_sc = rdf
[1]	1956
	1957	!
[240]	1958	!-- Initialize the starting level and the vertical smoothing factor used for
	1959	!-- the external pressure gradient
[1340]	1960	dp_smooth_factor = 1.0_wp
[240]	1961	IF ( dp_external ) THEN
	1962	!
	1963	!-- Set the starting level dp_level_ind_b only if it has not been set before
	1964	!-- (e.g. in init_grid).
	1965	IF ( dp_level_ind_b == 0 ) THEN
	1966	ind_array = MINLOC( ABS( dp_level_b - zu ) )
	1967	dp_level_ind_b = ind_array(1) - 1 + nzb
	1968	! MINLOC uses lower array bound 1
	1969	ENDIF
	1970	IF ( dp_smooth ) THEN
[1340]	1971	dp_smooth_factor(:dp_level_ind_b) = 0.0_wp
[240]	1972	DO k = dp_level_ind_b+1, nzt
[1340]	1973	dp_smooth_factor(k) = 0.5_wp * ( 1.0_wp + SIN( pi * &
	1974	( REAL( k - dp_level_ind_b, KIND=wp ) / &
	1975	REAL( nzt - dp_level_ind_b, KIND=wp ) - 0.5_wp ) ) )
[240]	1976	ENDDO
	1977	ENDIF
	1978	ENDIF
	1979
	1980	!
[978]	1981	!-- Initialize damping zone for the potential temperature in case of
	1982	!-- non-cyclic lateral boundaries. The damping zone has the maximum value
	1983	!-- at the inflow boundary and decreases to zero at pt_damping_width.
[1340]	1984	ptdf_x = 0.0_wp
	1985	ptdf_y = 0.0_wp
[1159]	1986	IF ( bc_lr_dirrad ) THEN
[996]	1987	DO i = nxl, nxr
[978]	1988	IF ( ( i * dx ) < pt_damping_width ) THEN
[1340]	1989	ptdf_x(i) = pt_damping_factor * ( SIN( pi * 0.5_wp * &
	1990	REAL( pt_damping_width - i * dx, KIND=wp ) / ( &
[1788]	1991	REAL( pt_damping_width, KIND=wp ) ) ) )**2
[73]	1992	ENDIF
	1993	ENDDO
[1159]	1994	ELSEIF ( bc_lr_raddir ) THEN
[996]	1995	DO i = nxl, nxr
[978]	1996	IF ( ( i * dx ) > ( nx * dx - pt_damping_width ) ) THEN
[1322]	1997	ptdf_x(i) = pt_damping_factor * &
[1340]	1998	SIN( pi * 0.5_wp * &
	1999	( ( i - nx ) * dx + pt_damping_width ) / &
	2000	REAL( pt_damping_width, KIND=wp ) )**2
[73]	2001	ENDIF
[978]	2002	ENDDO
[1159]	2003	ELSEIF ( bc_ns_dirrad ) THEN
[996]	2004	DO j = nys, nyn
[978]	2005	IF ( ( j * dy ) > ( ny * dy - pt_damping_width ) ) THEN
[1322]	2006	ptdf_y(j) = pt_damping_factor * &
[1340]	2007	SIN( pi * 0.5_wp * &
	2008	( ( j - ny ) * dy + pt_damping_width ) / &
	2009	REAL( pt_damping_width, KIND=wp ) )**2
[1]	2010	ENDIF
[978]	2011	ENDDO
[1159]	2012	ELSEIF ( bc_ns_raddir ) THEN
[996]	2013	DO j = nys, nyn
[978]	2014	IF ( ( j * dy ) < pt_damping_width ) THEN
[1322]	2015	ptdf_y(j) = pt_damping_factor * &
[1340]	2016	SIN( pi * 0.5_wp * &
	2017	( pt_damping_width - j * dy ) / &
	2018	REAL( pt_damping_width, KIND=wp ) )**2
[1]	2019	ENDIF
[73]	2020	ENDDO
[1]	2021	ENDIF
	2022
	2023	!
	2024	!-- Pre-set masks for regional statistics. Default is the total model domain.
[1015]	2025	!-- Ghost points are excluded because counting values at the ghost boundaries
	2026	!-- would bias the statistics
[1340]	2027	rmask = 1.0_wp
	2028	rmask(:,nxlg:nxl-1,:) = 0.0_wp; rmask(:,nxr+1:nxrg,:) = 0.0_wp
	2029	rmask(nysg:nys-1,:,:) = 0.0_wp; rmask(nyn+1:nyng,:,:) = 0.0_wp
[1]	2030
	2031	!
[51]	2032	!-- User-defined initializing actions. Check afterwards, if maximum number
[709]	2033	!-- of allowed timeseries is exceeded
[1]	2034	CALL user_init
	2035
[51]	2036	IF ( dots_num > dots_max ) THEN
[1788]	2037	WRITE( message_string, * ) 'number of time series quantities exceeds', &
	2038	' its maximum of dots_max = ', dots_max, &
[254]	2039	' &Please increase dots_max in modules.f90.'
	2040	CALL message( 'init_3d_model', 'PA0194', 1, 2, 0, 6, 0 )
[51]	2041	ENDIF
	2042
[1]	2043	!
	2044	!-- Input binary data file is not needed anymore. This line must be placed
	2045	!-- after call of user_init!
	2046	CALL close_file( 13 )
	2047
	2048	!
	2049	!-- Compute total sum of active mask grid points
[1738]	2050	!-- and the mean surface level height for each statistic region
[1]	2051	!-- ngp_2dh: number of grid points of a horizontal cross section through the
	2052	!-- total domain
	2053	!-- ngp_3d: number of grid points of the total domain
[132]	2054	ngp_2dh_outer_l = 0
	2055	ngp_2dh_outer = 0
	2056	ngp_2dh_s_inner_l = 0
	2057	ngp_2dh_s_inner = 0
	2058	ngp_2dh_l = 0
	2059	ngp_2dh = 0
[1340]	2060	ngp_3d_inner_l = 0.0_wp
[132]	2061	ngp_3d_inner = 0
	2062	ngp_3d = 0
	2063	ngp_sums = ( nz + 2 ) * ( pr_palm + max_pr_user )
[1]	2064
[1738]	2065	mean_surface_level_height = 0.0_wp
	2066	mean_surface_level_height_l = 0.0_wp
	2067
[2232]	2068	!
	2069	!-- To do: New concept for these non-topography grid points!
[1]	2070	DO sr = 0, statistic_regions
	2071	DO i = nxl, nxr
	2072	DO j = nys, nyn
[1340]	2073	IF ( rmask(j,i,sr) == 1.0_wp ) THEN
[1]	2074	!
	2075	!-- All xy-grid points
	2076	ngp_2dh_l(sr) = ngp_2dh_l(sr) + 1
	2077	!
[2232]	2078	!-- Determine mean surface-level height. In case of downward-
	2079	!-- facing walls are present, more than one surface level exist.
	2080	!-- In this case, use the lowest surface-level height.
	2081	IF ( surf_def_h(0)%start_index(j,i) <= &
	2082	surf_def_h(0)%end_index(j,i) ) THEN
	2083	m = surf_def_h(0)%start_index(j,i)
	2084	k = surf_def_h(0)%k(m)
	2085	mean_surface_level_height_l(sr) = &
	2086	mean_surface_level_height_l(sr) + zw(k-1)
	2087	ENDIF
	2088	IF ( surf_lsm_h%start_index(j,i) <= &
	2089	surf_lsm_h%end_index(j,i) ) THEN
	2090	m = surf_lsm_h%start_index(j,i)
	2091	k = surf_lsm_h%k(m)
	2092	mean_surface_level_height_l(sr) = &
	2093	mean_surface_level_height_l(sr) + zw(k-1)
	2094	ENDIF
	2095	IF ( surf_usm_h%start_index(j,i) <= &
	2096	surf_usm_h%end_index(j,i) ) THEN
	2097	m = surf_usm_h%start_index(j,i)
	2098	k = surf_usm_h%k(m)
	2099	mean_surface_level_height_l(sr) = &
	2100	mean_surface_level_height_l(sr) + zw(k-1)
	2101	ENDIF
	2102
	2103	k_surf = k - 1
	2104
	2105	DO k = nzb, nzt+1
	2106	!
	2107	!-- xy-grid points above topography
	2108	ngp_2dh_outer_l(k,sr) = ngp_2dh_outer_l(k,sr) + &
	2109	MERGE( 1, 0, BTEST( wall_flags_0(k,j,i), 24 ) )
	2110
	2111	ngp_2dh_s_inner_l(k,sr) = ngp_2dh_s_inner_l(k,sr) + &
	2112	MERGE( 1, 0, BTEST( wall_flags_0(k,j,i), 22 ) )
	2113
[1]	2114	ENDDO
	2115	!
	2116	!-- All grid points of the total domain above topography
[2232]	2117	ngp_3d_inner_l(sr) = ngp_3d_inner_l(sr) + ( nz - k_surf + 2 )
	2118
	2119
	2120
[1]	2121	ENDIF
	2122	ENDDO
	2123	ENDDO
	2124	ENDDO
	2125
	2126	sr = statistic_regions + 1
	2127	#if defined( __parallel )
[622]	2128	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2129	CALL MPI_ALLREDUCE( ngp_2dh_l(0), ngp_2dh(0), sr, MPI_INTEGER, MPI_SUM, &
[1]	2130	comm2d, ierr )
[622]	2131	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2132	CALL MPI_ALLREDUCE( ngp_2dh_outer_l(0,0), ngp_2dh_outer(0,0), (nz+2)*sr, &
[1]	2133	MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	2134	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2135	CALL MPI_ALLREDUCE( ngp_2dh_s_inner_l(0,0), ngp_2dh_s_inner(0,0), &
[132]	2136	(nz+2)*sr, MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	2137	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2138	CALL MPI_ALLREDUCE( ngp_3d_inner_l(0), ngp_3d_inner_tmp(0), sr, MPI_REAL, &
[1]	2139	MPI_SUM, comm2d, ierr )
[485]	2140	ngp_3d_inner = INT( ngp_3d_inner_tmp, KIND = SELECTED_INT_KIND( 18 ) )
[1738]	2141	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2142	CALL MPI_ALLREDUCE( mean_surface_level_height_l(0), &
	2143	mean_surface_level_height(0), sr, MPI_REAL, &
[1738]	2144	MPI_SUM, comm2d, ierr )
	2145	mean_surface_level_height = mean_surface_level_height / REAL( ngp_2dh )
[1]	2146	#else
[132]	2147	ngp_2dh = ngp_2dh_l
	2148	ngp_2dh_outer = ngp_2dh_outer_l
	2149	ngp_2dh_s_inner = ngp_2dh_s_inner_l
[485]	2150	ngp_3d_inner = INT( ngp_3d_inner_l, KIND = SELECTED_INT_KIND( 18 ) )
[1738]	2151	mean_surface_level_height = mean_surface_level_height_l / REAL( ngp_2dh_l )
[1]	2152	#endif
	2153
[560]	2154	ngp_3d = INT ( ngp_2dh, KIND = SELECTED_INT_KIND( 18 ) ) * &
	2155	INT ( (nz + 2 ), KIND = SELECTED_INT_KIND( 18 ) )
[1]	2156
	2157	!
	2158	!-- Set a lower limit of 1 in order to avoid zero divisions in flow_statistics,
	2159	!-- buoyancy, etc. A zero value will occur for cases where all grid points of
	2160	!-- the respective subdomain lie below the surface topography
[667]	2161	ngp_2dh_outer = MAX( 1, ngp_2dh_outer(:,:) )
[1788]	2162	ngp_3d_inner = MAX( INT(1, KIND = SELECTED_INT_KIND( 18 )), &
[631]	2163	ngp_3d_inner(:) )
[667]	2164	ngp_2dh_s_inner = MAX( 1, ngp_2dh_s_inner(:,:) )
[1]	2165
[1788]	2166	DEALLOCATE( mean_surface_level_height_l, ngp_2dh_l, ngp_2dh_outer_l, &
[1738]	2167	ngp_3d_inner_l, ngp_3d_inner_tmp )
[1]	2168
[1402]	2169	CALL location_message( 'leaving init_3d_model', .TRUE. )
[1]	2170
	2171	END SUBROUTINE init_3d_model

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