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source: palm/trunk/SOURCE/init_3d_model.f90 @ 2514

Last change on this file since 2514 was 2513, checked in by kanani, 7 years ago

Bugfixes related to profile output of passive scalar

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

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Rev	Line
[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 2513 2017-10-04 09:24:39Z suehring $
[2513]	27	! Bugfix in storing initial scalar profile (wrong index)
	28	!
	29	! 2350 2017-08-15 11:48:26Z kanani
[2350]	30	! Bugfix in nopointer version
	31	!
	32	! 2339 2017-08-07 13:55:26Z gronemeier
[2339]	33	! corrected timestamp in header
	34	!
	35	! 2338 2017-08-07 12:15:38Z gronemeier
[2338]	36	! Modularize 1D model
	37	!
[2339]	38	! 2329 2017-08-03 14:24:56Z knoop
[2329]	39	! Removed temporary bugfix (r2327) as bug is properly resolved by this revision
	40	!
	41	! 2327 2017-08-02 07:40:57Z maronga
[2327]	42	! Temporary bugfix
	43	!
	44	! 2320 2017-07-21 12:47:43Z suehring
[2320]	45	! Modularize large-scale forcing and nudging
	46	!
	47	! 2292 2017-06-20 09:51:42Z schwenkel
[2292]	48	! Implementation of new microphysic scheme: cloud_scheme = 'morrison'
	49	! includes two more prognostic equations for cloud drop concentration (nc)
	50	! and cloud water content (qc).
	51	!
	52	! 2277 2017-06-12 10:47:51Z kanani
[2277]	53	! Removed unused variable sums_up_fraction_l
	54	!
	55	! 2270 2017-06-09 12:18:47Z maronga
[2270]	56	! dots_num must be increased when LSM and/or radiation is used
	57	!
	58	! 2259 2017-06-08 09:09:11Z gronemeier
[2259]	59	! Implemented synthetic turbulence generator
	60	!
	61	! 2252 2017-06-07 09:35:37Z knoop
[2252]	62	! rho_air now depending on surface_pressure even in Boussinesq mode
	63	!
	64	! 2233 2017-05-30 18:08:54Z suehring
[2233]	65	!
	66	! 2232 2017-05-30 17:47:52Z suehring
[2232]	67	! Adjustments to new topography and surface concept:
	68	! - Modify passed parameters for disturb_field
	69	! - Topography representation via flags
	70	! - Remove unused arrays.
	71	! - Move initialization of surface-related quantities to surface_mod
[1961]	72	!
[2173]	73	! 2172 2017-03-08 15:55:25Z knoop
	74	! Bugfix: moved parallel random generator initialization into its module
	75	!
[2119]	76	! 2118 2017-01-17 16:38:49Z raasch
	77	! OpenACC directives removed
	78	!
[2038]	79	! 2037 2016-10-26 11:15:40Z knoop
	80	! Anelastic approximation implemented
	81	!
[2032]	82	! 2031 2016-10-21 15:11:58Z knoop
	83	! renamed variable rho to rho_ocean
	84	!
[2012]	85	! 2011 2016-09-19 17:29:57Z kanani
	86	! Flag urban_surface is now defined in module control_parameters.
	87	!
[2008]	88	! 2007 2016-08-24 15:47:17Z kanani
	89	! Added support for urban surface model,
	90	! adjusted location_message in case of plant_canopy
	91	!
[2001]	92	! 2000 2016-08-20 18:09:15Z knoop
	93	! Forced header and separation lines into 80 columns
	94	!
[1993]	95	! 1992 2016-08-12 15:14:59Z suehring
	96	! Initializaton of scalarflux at model top
	97	! Bugfixes in initialization of surface and top salinity flux, top scalar and
	98	! humidity fluxes
	99	!
[1961]	100	! 1960 2016-07-12 16:34:24Z suehring
[1960]	101	! Separate humidity and passive scalar
	102	! Increase dimension for mean_inflow_profiles
	103	! Remove inadvertent write-statement
	104	! Bugfix, large-scale forcing is still not implemented for passive scalars
[1919]	105	!
[1958]	106	! 1957 2016-07-07 10:43:48Z suehring
	107	! flight module added
	108	!
[1921]	109	! 1920 2016-05-30 10:50:15Z suehring
	110	! Initialize us with very small number to avoid segmentation fault during
	111	! calculation of Obukhov length
	112	!
[1919]	113	! 1918 2016-05-27 14:35:57Z raasch
	114	! intermediate_timestep_count is set 0 instead 1 for first call of pres,
	115	! bugfix: initialization of local sum arrays are moved to the beginning of the
	116	! routine because otherwise results from pres are overwritten
	117	!
[1917]	118	! 1914 2016-05-26 14:44:07Z witha
	119	! Added initialization of the wind turbine model
	120	!
[1879]	121	! 1878 2016-04-19 12:30:36Z hellstea
	122	! The zeroth element of weight_pres removed as unnecessary
	123	!
[1851]	124	! 1849 2016-04-08 11:33:18Z hoffmann
[1849]	125	! Adapted for modularization of microphysics.
	126	! precipitation_amount, precipitation_rate, prr moved to arrays_3d.
[1852]	127	! Initialization of nc_1d, nr_1d, pt_1d, qc_1d, qr_1d, q_1d moved to
[1849]	128	! microphysics_init.
	129	!
[1846]	130	! 1845 2016-04-08 08:29:13Z raasch
	131	! nzb_2d replaced by nzb_u\|v_inner
[1914]	132	!
[1834]	133	! 1833 2016-04-07 14:23:03Z raasch
	134	! initialization of spectra quantities moved to spectra_mod
	135	!
[1832]	136	! 1831 2016-04-07 13:15:51Z hoffmann
	137	! turbulence renamed collision_turbulence
	138	!
[1827]	139	! 1826 2016-04-07 12:01:39Z maronga
	140	! Renamed radiation calls.
	141	! Renamed canopy model calls.
	142	!
[1823]	143	! 1822 2016-04-07 07:49:42Z hoffmann
	144	! icloud_scheme replaced by microphysics_*
[1914]	145	!
[1818]	146	! 1817 2016-04-06 15:44:20Z maronga
	147	! Renamed lsm calls.
	148	!
[1816]	149	! 1815 2016-04-06 13:49:59Z raasch
	150	! zero-settings for velocities inside topography re-activated (was deactivated
	151	! in r1762)
	152	!
[1789]	153	! 1788 2016-03-10 11:01:04Z maronga
	154	! Added z0q.
	155	! Syntax layout improved.
	156	!
[1784]	157	! 1783 2016-03-06 18:36:17Z raasch
	158	! netcdf module name changed + related changes
	159	!
[1765]	160	! 1764 2016-02-28 12:45:19Z raasch
	161	! bugfix: increase size of volume_flow_area_l and volume_flow_initial_l by 1
	162	!
[1763]	163	! 1762 2016-02-25 12:31:13Z hellstea
	164	! Introduction of nested domain feature
	165	!
[1739]	166	! 1738 2015-12-18 13:56:05Z raasch
	167	! calculate mean surface level height for each statistic region
	168	!
[1735]	169	! 1734 2015-12-02 12:17:12Z raasch
	170	! no initial disturbances in case that the disturbance energy limit has been
	171	! set zero
	172	!
[1708]	173	! 1707 2015-11-02 15:24:52Z maronga
	174	! Bugfix: transfer of Richardson number from 1D model to Obukhov length caused
	175	! devision by zero in neutral stratification
	176	!
[1692]	177	! 1691 2015-10-26 16:17:44Z maronga
	178	! Call to init_surface_layer added. rif is replaced by ol and zeta.
	179	!
[1683]	180	! 1682 2015-10-07 23:56:08Z knoop
	181	! Code annotations made doxygen readable
	182	!
[1616]	183	! 1615 2015-07-08 18:49:19Z suehring
	184	! Enable turbulent inflow for passive_scalar and humidity
	185	!
[1586]	186	! 1585 2015-04-30 07:05:52Z maronga
	187	! Initialization of radiation code is now done after LSM initializtion
	188	!
[1576]	189	! 1575 2015-03-27 09:56:27Z raasch
	190	! adjustments for psolver-queries
	191	!
[1552]	192	! 1551 2015-03-03 14:18:16Z maronga
[1817]	193	! Allocation of land surface arrays is now done in the subroutine lsm_init_arrays,
[1552]	194	! which is part of land_surface_model.
	195	!
[1508]	196	! 1507 2014-12-10 12:14:18Z suehring
	197	! Bugfix: set horizontal velocity components to zero inside topography
	198	!
[1497]	199	! 1496 2014-12-02 17:25:50Z maronga
	200	! Added initialization of the land surface and radiation schemes
	201	!
[1485]	202	! 1484 2014-10-21 10:53:05Z kanani
[1484]	203	! Changes due to new module structure of the plant canopy model:
[1508]	204	! canopy-related initialization (e.g. lad and canopy_heat_flux) moved to new
	205	! subroutine init_plant_canopy within the module plant_canopy_model_mod,
	206	! call of subroutine init_plant_canopy added.
[1341]	207	!
[1432]	208	! 1431 2014-07-15 14:47:17Z suehring
	209	! var_d added, in order to normalize spectra.
	210	!
[1430]	211	! 1429 2014-07-15 12:53:45Z knoop
	212	! Ensemble run capability added to parallel random number generator
	213	!
[1412]	214	! 1411 2014-05-16 18:01:51Z suehring
	215	! Initial horizontal velocity profiles were not set to zero at the first vertical
	216	! grid level in case of non-cyclic lateral boundary conditions.
	217	!
[1407]	218	! 1406 2014-05-16 13:47:01Z raasch
	219	! bugfix: setting of initial velocities at k=1 to zero not in case of a
	220	! no-slip boundary condition for uv
	221	!
[1403]	222	! 1402 2014-05-09 14:25:13Z raasch
	223	! location messages modified
	224	!
[1401]	225	! 1400 2014-05-09 14:03:54Z knoop
	226	! Parallel random number generator added
	227	!
[1385]	228	! 1384 2014-05-02 14:31:06Z raasch
	229	! location messages added
	230	!
[1362]	231	! 1361 2014-04-16 15:17:48Z hoffmann
	232	! tend_* removed
	233	! Bugfix: w_subs is not allocated anymore if it is already allocated
	234	!
[1360]	235	! 1359 2014-04-11 17:15:14Z hoffmann
	236	! module lpm_init_mod added to use statements, because lpm_init has become a
	237	! module
	238	!
[1354]	239	! 1353 2014-04-08 15:21:23Z heinze
	240	! REAL constants provided with KIND-attribute
	241	!
[1341]	242	! 1340 2014-03-25 19:45:13Z kanani
	243	! REAL constants defined as wp-kind
	244	!
[1323]	245	! 1322 2014-03-20 16:38:49Z raasch
	246	! REAL constants defined as wp-kind
	247	! module interfaces removed
	248	!
[1321]	249	! 1320 2014-03-20 08:40:49Z raasch
	250	! ONLY-attribute added to USE-statements,
	251	! kind-parameters added to all INTEGER and REAL declaration statements,
	252	! kinds are defined in new module kinds,
	253	! revision history before 2012 removed,
	254	! comment fields (!:) to be used for variable explanations added to
	255	! all variable declaration statements
	256	!
[1317]	257	! 1316 2014-03-17 07:44:59Z heinze
	258	! Bugfix: allocation of w_subs
	259	!
[1300]	260	! 1299 2014-03-06 13:15:21Z heinze
	261	! Allocate w_subs due to extension of large scale subsidence in combination
	262	! with large scale forcing data (LSF_DATA)
	263	!
[1242]	264	! 1241 2013-10-30 11:36:58Z heinze
	265	! Overwrite initial profiles in case of nudging
	266	! Inititialize shf and qsws in case of large_scale_forcing
	267	!
[1222]	268	! 1221 2013-09-10 08:59:13Z raasch
	269	! +rflags_s_inner in copyin statement, use copyin for most arrays instead of
	270	! copy
	271	!
[1213]	272	! 1212 2013-08-15 08:46:27Z raasch
	273	! array tri is allocated and included in data copy statement
	274	!
[1196]	275	! 1195 2013-07-01 12:27:57Z heinze
	276	! Bugfix: move allocation of ref_state to parin.f90 and read_var_list.f90
	277	!
[1182]	278	! 1179 2013-06-14 05:57:58Z raasch
	279	! allocate and set ref_state to be used in buoyancy terms
	280	!
[1172]	281	! 1171 2013-05-30 11:27:45Z raasch
	282	! diss array is allocated with full size if accelerator boards are used
	283	!
[1160]	284	! 1159 2013-05-21 11:58:22Z fricke
	285	! -bc_lr_dirneu, bc_lr_neudir, bc_ns_dirneu, bc_ns_neudir
	286	!
[1154]	287	! 1153 2013-05-10 14:33:08Z raasch
	288	! diss array is allocated with dummy elements even if it is not needed
[1171]	289	! (required by PGI 13.4 / CUDA 5.0)
[1154]	290	!
[1116]	291	! 1115 2013-03-26 18:16:16Z hoffmann
	292	! unused variables removed
	293	!
[1114]	294	! 1113 2013-03-10 02:48:14Z raasch
	295	! openACC directive modified
	296	!
[1112]	297	! 1111 2013-03-08 23:54:10Z raasch
	298	! openACC directives added for pres
	299	! array diss allocated only if required
	300	!
[1093]	301	! 1092 2013-02-02 11:24:22Z raasch
	302	! unused variables removed
	303	!
[1066]	304	! 1065 2012-11-22 17:42:36Z hoffmann
	305	! allocation of diss (dissipation rate) in case of turbulence = .TRUE. added
	306	!
[1054]	307	! 1053 2012-11-13 17:11:03Z hoffmann
[1053]	308	! allocation and initialisation of necessary data arrays for the two-moment
	309	! cloud physics scheme the two new prognostic equations (nr, qr):
	310	! +dr, lambda_r, mu_r, sed_, xr, s, sws, swst, , _p, t_m, _1, _2, _3,
	311	! +tend_*, prr
[979]	312	!
[1037]	313	! 1036 2012-10-22 13:43:42Z raasch
	314	! code put under GPL (PALM 3.9)
	315	!
[1033]	316	! 1032 2012-10-21 13:03:21Z letzel
	317	! save memory by not allocating pt_2 in case of neutral = .T.
	318	!
[1026]	319	! 1025 2012-10-07 16:04:41Z letzel
	320	! bugfix: swap indices of mask for ghost boundaries
	321	!
[1017]	322	! 1015 2012-09-27 09:23:24Z raasch
	323	! mask is set to zero for ghost boundaries
	324	!
[1011]	325	! 1010 2012-09-20 07:59:54Z raasch
	326	! cpp switch __nopointer added for pointer free version
	327	!
[1004]	328	! 1003 2012-09-14 14:35:53Z raasch
	329	! nxra,nyna, nzta replaced ny nxr, nyn, nzt
	330	!
[1002]	331	! 1001 2012-09-13 14:08:46Z raasch
	332	! all actions concerning leapfrog scheme removed
	333	!
[997]	334	! 996 2012-09-07 10:41:47Z raasch
	335	! little reformatting
	336	!
[979]	337	! 978 2012-08-09 08:28:32Z fricke
[978]	338	! outflow damping layer removed
	339	! roughness length for scalar quantites z0h added
	340	! damping zone for the potential temperatur in case of non-cyclic lateral
	341	! boundaries added
	342	! initialization of ptdf_x, ptdf_y
	343	! initialization of c_u_m, c_u_m_l, c_v_m, c_v_m_l, c_w_m, c_w_m_l
[708]	344	!
[850]	345	! 849 2012-03-15 10:35:09Z raasch
	346	! init_particles renamed lpm_init
	347	!
[826]	348	! 825 2012-02-19 03:03:44Z raasch
	349	! wang_collision_kernel renamed wang_kernel
	350	!
[1]	351	! Revision 1.1 1998/03/09 16:22:22 raasch
	352	! Initial revision
	353	!
	354	!
	355	! Description:
	356	! ------------
[1682]	357	!> Allocation of arrays and initialization of the 3D model via
	358	!> a) pre-run the 1D model
	359	!> or
	360	!> b) pre-set constant linear profiles
	361	!> or
	362	!> c) read values of a previous run
[1]	363	!------------------------------------------------------------------------------!
[1682]	364	SUBROUTINE init_3d_model
	365
[1]	366
[667]	367	USE advec_ws
[1320]	368
[1]	369	USE arrays_3d
[1849]	370
[2037]	371	USE cloud_parameters, &
	372	ONLY: cp, l_v, r_d
	373
[1320]	374	USE constants, &
	375	ONLY: pi
	376
[1]	377	USE control_parameters
[1320]	378
[1957]	379	USE flight_mod, &
	380	ONLY: flight_init
	381
[1320]	382	USE grid_variables, &
[2037]	383	ONLY: dx, dy, ddx2_mg, ddy2_mg
[1320]	384
[1]	385	USE indices
[1359]	386
[1429]	387	USE lpm_init_mod, &
[1359]	388	ONLY: lpm_init
[1320]	389
	390	USE kinds
[1496]	391
	392	USE land_surface_model_mod, &
[2232]	393	ONLY: lsm_init, lsm_init_arrays
[1496]	394
[2320]	395	USE lsf_nudging_mod, &
	396	ONLY: lsf_init, ls_forcing_surf, nudge_init
[1849]	397
	398	USE microphysics_mod, &
	399	ONLY: collision_turbulence, microphysics_init
	400
[2338]	401	USE model_1d_mod, &
	402	ONLY: e1d, init_1d_model, kh1d, km1d, l1d, rif1d, u1d, us1d, usws1d, &
	403	v1d, vsws1d
	404
[1783]	405	USE netcdf_interface, &
	406	ONLY: dots_max, dots_num
[1320]	407
	408	USE particle_attributes, &
	409	ONLY: particle_advection, use_sgs_for_particles, wang_kernel
	410
[1]	411	USE pegrid
[1320]	412
[1484]	413	USE plant_canopy_model_mod, &
[1826]	414	ONLY: pcm_init, plant_canopy
[1496]	415
	416	USE radiation_model_mod, &
[2270]	417	ONLY: radiation_init, radiation, radiation_scheme
[1484]	418
[1320]	419	USE random_function_mod
	420
[1400]	421	USE random_generator_parallel, &
[2172]	422	ONLY: init_parallel_random_generator
[1400]	423
[1320]	424	USE statistics, &
[1738]	425	ONLY: hom, hom_sum, mean_surface_level_height, pr_palm, rmask, &
[1833]	426	statistic_regions, sums, sums_divnew_l, sums_divold_l, sums_l, &
[2277]	427	sums_l_l, sums_wsts_bc_l, ts_value, &
[1833]	428	weight_pres, weight_substep
[2259]	429
	430	USE synthetic_turbulence_generator_mod, &
	431	ONLY: stg_init, use_synthetic_turbulence_generator
	432
[1691]	433	USE surface_layer_fluxes_mod, &
	434	ONLY: init_surface_layer_fluxes
[2232]	435
	436	USE surface_mod, &
	437	ONLY : init_surface_arrays, init_surfaces, surf_def_h, surf_lsm_h, &
	438	surf_usm_h
[1691]	439
[2007]	440	USE transpose_indices
[1]	441
[2007]	442	USE urban_surface_mod, &
[2011]	443	ONLY: usm_init_urban_surface
[2007]	444
[1914]	445	USE wind_turbine_model_mod, &
	446	ONLY: wtm_init, wtm_init_arrays, wind_turbine
	447
[1]	448	IMPLICIT NONE
	449
[1682]	450	INTEGER(iwp) :: i !<
	451	INTEGER(iwp) :: ind_array(1) !<
	452	INTEGER(iwp) :: j !<
	453	INTEGER(iwp) :: k !<
[2232]	454	INTEGER(iwp) :: k_surf !< surface level index
	455	INTEGER(iwp) :: m !< index of surface element in surface data type
	456	INTEGER(iwp) :: sr !< index of statistic region
[1]	457
[1682]	458	INTEGER(iwp), DIMENSION(:), ALLOCATABLE :: ngp_2dh_l !<
[1]	459
[1682]	460	INTEGER(iwp), DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_outer_l !<
	461	INTEGER(iwp), DIMENSION(:,:), ALLOCATABLE :: ngp_2dh_s_inner_l !<
[1]	462
[2037]	463	REAL(wp) :: t_surface !< air temperature at the surface
	464
	465	REAL(wp), DIMENSION(:), ALLOCATABLE :: p_hydrostatic !< hydrostatic pressure
	466
	467	INTEGER(iwp) :: l !< loop variable
	468	INTEGER(iwp) :: nzt_l !< index of top PE boundary for multigrid level
	469	REAL(wp) :: dx_l !< grid spacing along x on different multigrid level
	470	REAL(wp) :: dy_l !< grid spacing along y on different multigrid level
	471
[1764]	472	REAL(wp), DIMENSION(1:3) :: volume_flow_area_l !<
	473	REAL(wp), DIMENSION(1:3) :: volume_flow_initial_l !<
[1]	474
[1738]	475	REAL(wp), DIMENSION(:), ALLOCATABLE :: mean_surface_level_height_l !<
[1682]	476	REAL(wp), DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_l !<
	477	REAL(wp), DIMENSION(:), ALLOCATABLE :: ngp_3d_inner_tmp !<
[1]	478
[485]	479
[1402]	480	CALL location_message( 'allocating arrays', .FALSE. )
[1]	481	!
	482	!-- Allocate arrays
[1788]	483	ALLOCATE( mean_surface_level_height(0:statistic_regions), &
	484	mean_surface_level_height_l(0:statistic_regions), &
	485	ngp_2dh(0:statistic_regions), ngp_2dh_l(0:statistic_regions), &
	486	ngp_3d(0:statistic_regions), &
	487	ngp_3d_inner(0:statistic_regions), &
	488	ngp_3d_inner_l(0:statistic_regions), &
	489	ngp_3d_inner_tmp(0:statistic_regions), &
	490	sums_divnew_l(0:statistic_regions), &
[1]	491	sums_divold_l(0:statistic_regions) )
[1195]	492	ALLOCATE( dp_smooth_factor(nzb:nzt), rdf(nzb+1:nzt), rdf_sc(nzb+1:nzt) )
[1788]	493	ALLOCATE( ngp_2dh_outer(nzb:nzt+1,0:statistic_regions), &
	494	ngp_2dh_outer_l(nzb:nzt+1,0:statistic_regions), &
	495	ngp_2dh_s_inner(nzb:nzt+1,0:statistic_regions), &
	496	ngp_2dh_s_inner_l(nzb:nzt+1,0:statistic_regions), &
	497	rmask(nysg:nyng,nxlg:nxrg,0:statistic_regions), &
	498	sums(nzb:nzt+1,pr_palm+max_pr_user), &
	499	sums_l(nzb:nzt+1,pr_palm+max_pr_user,0:threads_per_task-1), &
	500	sums_l_l(nzb:nzt+1,0:statistic_regions,0:threads_per_task-1), &
	501	sums_wsts_bc_l(nzb:nzt+1,0:statistic_regions), &
[394]	502	ts_value(dots_max,0:statistic_regions) )
[978]	503	ALLOCATE( ptdf_x(nxlg:nxrg), ptdf_y(nysg:nyng) )
[1]	504
[1788]	505	ALLOCATE( d(nzb+1:nzt,nys:nyn,nxl:nxr), &
	506	kh(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	507	km(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	508	p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	509	tend(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	510
	511	#if defined( __nopointer )
[1788]	512	ALLOCATE( e(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	513	e_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	514	pt(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	515	pt_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	516	u(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	517	u_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	518	v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	519	v_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	520	w(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	521	w_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	522	te_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	523	tpt_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	524	tu_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	525	tv_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	526	tw_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	527	#else
[1788]	528	ALLOCATE( e_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	529	e_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	530	e_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	531	pt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	532	pt_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	533	u_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	534	u_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	535	u_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	536	v_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	537	v_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	538	v_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	539	w_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	540	w_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	541	w_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1788]	542	IF ( .NOT. neutral ) THEN
[1032]	543	ALLOCATE( pt_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	544	ENDIF
[1010]	545	#endif
	546
[673]	547	!
[707]	548	!-- Following array is required for perturbation pressure within the iterative
	549	!-- pressure solvers. For the multistep schemes (Runge-Kutta), array p holds
	550	!-- the weighted average of the substeps and cannot be used in the Poisson
	551	!-- solver.
	552	IF ( psolver == 'sor' ) THEN
	553	ALLOCATE( p_loc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1575]	554	ELSEIF ( psolver(1:9) == 'multigrid' ) THEN
[707]	555	!
	556	!-- For performance reasons, multigrid is using one ghost layer only
	557	ALLOCATE( p_loc(nzb:nzt+1,nys-1:nyn+1,nxl-1:nxr+1) )
[673]	558	ENDIF
[1]	559
[1111]	560	!
	561	!-- Array for storing constant coeffficients of the tridiagonal solver
	562	IF ( psolver == 'poisfft' ) THEN
[1212]	563	ALLOCATE( tri(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1,2) )
[1111]	564	ALLOCATE( tric(nxl_z:nxr_z,nys_z:nyn_z,0:nz-1) )
	565	ENDIF
	566
[1960]	567	IF ( humidity ) THEN
[1]	568	!
[1960]	569	!-- 3D-humidity
[1010]	570	#if defined( __nopointer )
[1788]	571	ALLOCATE( q(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	572	q_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	573	tq_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	574	#else
[1788]	575	ALLOCATE( q_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	576	q_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	577	q_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	578	#endif
[1]	579
	580	!
[1960]	581	!-- 3D-arrays needed for humidity
[75]	582	IF ( humidity ) THEN
[1010]	583	#if defined( __nopointer )
	584	ALLOCATE( vpt(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	585	#else
[667]	586	ALLOCATE( vpt_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	587	#endif
[1]	588
[1788]	589	IF ( cloud_physics ) THEN
[1]	590	!
	591	!-- Liquid water content
[1010]	592	#if defined( __nopointer )
	593	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	594	#else
[667]	595	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1010]	596	#endif
[1053]	597
	598	!
[1822]	599	!-- 3D-cloud water content
[2292]	600	IF ( .NOT. microphysics_morrison ) THEN
[1053]	601	#if defined( __nopointer )
[2292]	602	ALLOCATE( qc(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	603	#else
[2292]	604	ALLOCATE( qc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1053]	605	#endif
[2292]	606	ENDIF
[1822]	607	!
[2292]	608	!-- Precipitation amount and rate (only needed if output is switched)
	609	ALLOCATE( precipitation_amount(nysg:nyng,nxlg:nxrg), &
	610	precipitation_rate(nysg:nyng,nxlg:nxrg) )
	611
	612	!
[1822]	613	!-- 3d-precipitation rate
	614	ALLOCATE( prr(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	615
[2292]	616	IF ( microphysics_morrison ) THEN
	617	!
	618	!-- 3D-cloud drop water content, cloud drop concentration arrays
	619	#if defined( __nopointer )
	620	ALLOCATE( nc(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	621	nc_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	622	qc(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	623	qc_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[2350]	624	tnc_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[2292]	625	tqc_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	626	#else
	627	ALLOCATE( nc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	628	nc_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	629	nc_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	630	qc_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	631	qc_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	632	qc_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	633	#endif
	634	ENDIF
	635
[1822]	636	IF ( microphysics_seifert ) THEN
[1053]	637	!
[1822]	638	!-- 3D-rain water content, rain drop concentration arrays
[1115]	639	#if defined( __nopointer )
[1822]	640	ALLOCATE( nr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	641	nr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	642	qr(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	643	qr_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	644	tnr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	645	tqr_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	646	#else
[1822]	647	ALLOCATE( nr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	648	nr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	649	nr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	650	qr_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	651	qr_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	652	qr_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1115]	653	#endif
[1822]	654	ENDIF
[1053]	655
[1]	656	ENDIF
	657
	658	IF ( cloud_droplets ) THEN
	659	!
[1010]	660	!-- Liquid water content, change in liquid water content
	661	#if defined( __nopointer )
[1788]	662	ALLOCATE ( ql(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	663	ql_c(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	664	#else
[1788]	665	ALLOCATE ( ql_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	666	ql_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	667	#endif
	668	!
	669	!-- Real volume of particles (with weighting), volume of particles
[1788]	670	ALLOCATE ( ql_v(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	671	ql_vp(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	672	ENDIF
	673
	674	ENDIF
	675
	676	ENDIF
[1960]	677
	678
	679	IF ( passive_scalar ) THEN
[1]	680
[1960]	681	!
	682	!-- 3D scalar arrays
	683	#if defined( __nopointer )
	684	ALLOCATE( s(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	685	s_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	686	ts_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	687	#else
	688	ALLOCATE( s_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	689	s_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	690	s_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	691	#endif
	692	ENDIF
	693
[94]	694	IF ( ocean ) THEN
[1010]	695	#if defined( __nopointer )
[1788]	696	ALLOCATE( prho(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[2031]	697	rho_ocean(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1788]	698	sa(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	699	sa_p(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[1010]	700	tsa_m(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
	701	#else
[1788]	702	ALLOCATE( prho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	703	rho_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	704	sa_1(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
	705	sa_2(nzb:nzt+1,nysg:nyng,nxlg:nxrg), &
[667]	706	sa_3(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[388]	707	prho => prho_1
[2031]	708	rho_ocean => rho_1 ! routines calc_mean_profile and diffusion_e require
[388]	709	! density to be apointer
[1010]	710	#endif
[94]	711	ENDIF
	712
[1]	713	!
[2037]	714	!-- Allocation of anelastic and Boussinesq approximation specific arrays
	715	ALLOCATE( p_hydrostatic(nzb:nzt+1) )
	716	ALLOCATE( rho_air(nzb:nzt+1) )
	717	ALLOCATE( rho_air_zw(nzb:nzt+1) )
	718	ALLOCATE( drho_air(nzb:nzt+1) )
	719	ALLOCATE( drho_air_zw(nzb:nzt+1) )
	720
	721	!
	722	!-- Density profile calculation for anelastic approximation
[2252]	723	t_surface = pt_surface * ( surface_pressure / 1000.0_wp )**( r_d / cp )
[2037]	724	IF ( TRIM( approximation ) == 'anelastic' ) THEN
	725	DO k = nzb, nzt+1
	726	p_hydrostatic(k) = surface_pressure * 100.0_wp * &
	727	( 1 - ( g * zu(k) ) / ( cp * t_surface ) &
	728	)**( cp / r_d )
	729	rho_air(k) = ( p_hydrostatic(k) * &
	730	( 100000.0_wp / p_hydrostatic(k) &
	731	)**( r_d / cp ) &
	732	) / ( r_d * pt_init(k) )
	733	ENDDO
	734	DO k = nzb, nzt
	735	rho_air_zw(k) = 0.5_wp * ( rho_air(k) + rho_air(k+1) )
	736	ENDDO
	737	rho_air_zw(nzt+1) = rho_air_zw(nzt) &
	738	+ 2.0_wp * ( rho_air(nzt+1) - rho_air_zw(nzt) )
	739	ELSE
[2252]	740	DO k = nzb, nzt+1
	741	p_hydrostatic(k) = surface_pressure * 100.0_wp * &
	742	( 1 - ( g * zu(nzb) ) / ( cp * t_surface ) &
	743	)**( cp / r_d )
	744	rho_air(k) = ( p_hydrostatic(k) * &
	745	( 100000.0_wp / p_hydrostatic(k) &
	746	)**( r_d / cp ) &
	747	) / ( r_d * pt_init(nzb) )
	748	ENDDO
	749	DO k = nzb, nzt
	750	rho_air_zw(k) = 0.5_wp * ( rho_air(k) + rho_air(k+1) )
	751	ENDDO
	752	rho_air_zw(nzt+1) = rho_air_zw(nzt) &
	753	+ 2.0_wp * ( rho_air(nzt+1) - rho_air_zw(nzt) )
[2037]	754	ENDIF
	755
	756	!-- compute the inverse density array in order to avoid expencive divisions
	757	drho_air = 1.0_wp / rho_air
	758	drho_air_zw = 1.0_wp / rho_air_zw
	759
	760	!
	761	!-- Allocation of flux conversion arrays
	762	ALLOCATE( heatflux_input_conversion(nzb:nzt+1) )
	763	ALLOCATE( waterflux_input_conversion(nzb:nzt+1) )
	764	ALLOCATE( momentumflux_input_conversion(nzb:nzt+1) )
	765	ALLOCATE( heatflux_output_conversion(nzb:nzt+1) )
	766	ALLOCATE( waterflux_output_conversion(nzb:nzt+1) )
	767	ALLOCATE( momentumflux_output_conversion(nzb:nzt+1) )
	768
	769	!
	770	!-- calculate flux conversion factors according to approximation and in-/output mode
	771	DO k = nzb, nzt+1
	772
	773	IF ( TRIM( flux_input_mode ) == 'kinematic' ) THEN
	774	heatflux_input_conversion(k) = rho_air_zw(k)
	775	waterflux_input_conversion(k) = rho_air_zw(k)
	776	momentumflux_input_conversion(k) = rho_air_zw(k)
	777	ELSEIF ( TRIM( flux_input_mode ) == 'dynamic' ) THEN
	778	heatflux_input_conversion(k) = 1.0_wp / cp
	779	waterflux_input_conversion(k) = 1.0_wp / l_v
	780	momentumflux_input_conversion(k) = 1.0_wp
	781	ENDIF
	782
	783	IF ( TRIM( flux_output_mode ) == 'kinematic' ) THEN
	784	heatflux_output_conversion(k) = drho_air_zw(k)
	785	waterflux_output_conversion(k) = drho_air_zw(k)
	786	momentumflux_output_conversion(k) = drho_air_zw(k)
	787	ELSEIF ( TRIM( flux_output_mode ) == 'dynamic' ) THEN
	788	heatflux_output_conversion(k) = cp
	789	waterflux_output_conversion(k) = l_v
	790	momentumflux_output_conversion(k) = 1.0_wp
	791	ENDIF
	792
	793	IF ( .NOT. humidity ) THEN
	794	waterflux_input_conversion(k) = 1.0_wp
	795	waterflux_output_conversion(k) = 1.0_wp
	796	ENDIF
	797
	798	ENDDO
	799
	800	!
	801	!-- In case of multigrid method, compute grid lengths and grid factors for the
	802	!-- grid levels with respective density on each grid
	803	IF ( psolver(1:9) == 'multigrid' ) THEN
	804
	805	ALLOCATE( ddx2_mg(maximum_grid_level) )
	806	ALLOCATE( ddy2_mg(maximum_grid_level) )
	807	ALLOCATE( dzu_mg(nzb+1:nzt+1,maximum_grid_level) )
	808	ALLOCATE( dzw_mg(nzb+1:nzt+1,maximum_grid_level) )
	809	ALLOCATE( f1_mg(nzb+1:nzt,maximum_grid_level) )
	810	ALLOCATE( f2_mg(nzb+1:nzt,maximum_grid_level) )
	811	ALLOCATE( f3_mg(nzb+1:nzt,maximum_grid_level) )
	812	ALLOCATE( rho_air_mg(nzb:nzt+1,maximum_grid_level) )
	813	ALLOCATE( rho_air_zw_mg(nzb:nzt+1,maximum_grid_level) )
	814
	815	dzu_mg(:,maximum_grid_level) = dzu
	816	rho_air_mg(:,maximum_grid_level) = rho_air
	817	!
	818	!-- Next line to ensure an equally spaced grid.
	819	dzu_mg(1,maximum_grid_level) = dzu(2)
	820	rho_air_mg(nzb,maximum_grid_level) = rho_air(nzb) + &
	821	(rho_air(nzb) - rho_air(nzb+1))
	822
	823	dzw_mg(:,maximum_grid_level) = dzw
	824	rho_air_zw_mg(:,maximum_grid_level) = rho_air_zw
	825	nzt_l = nzt
	826	DO l = maximum_grid_level-1, 1, -1
	827	dzu_mg(nzb+1,l) = 2.0_wp * dzu_mg(nzb+1,l+1)
	828	dzw_mg(nzb+1,l) = 2.0_wp * dzw_mg(nzb+1,l+1)
	829	rho_air_mg(nzb,l) = rho_air_mg(nzb,l+1) + (rho_air_mg(nzb,l+1) - rho_air_mg(nzb+1,l+1))
	830	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))
	831	rho_air_mg(nzb+1,l) = rho_air_mg(nzb+1,l+1)
	832	rho_air_zw_mg(nzb+1,l) = rho_air_zw_mg(nzb+1,l+1)
	833	nzt_l = nzt_l / 2
	834	DO k = 2, nzt_l+1
	835	dzu_mg(k,l) = dzu_mg(2k-2,l+1) + dzu_mg(2k-1,l+1)
	836	dzw_mg(k,l) = dzw_mg(2k-2,l+1) + dzw_mg(2k-1,l+1)
	837	rho_air_mg(k,l) = rho_air_mg(2*k-1,l+1)
	838	rho_air_zw_mg(k,l) = rho_air_zw_mg(2*k-1,l+1)
	839	ENDDO
	840	ENDDO
	841
	842	nzt_l = nzt
	843	dx_l = dx
	844	dy_l = dy
	845	DO l = maximum_grid_level, 1, -1
	846	ddx2_mg(l) = 1.0_wp / dx_l**2
	847	ddy2_mg(l) = 1.0_wp / dy_l**2
	848	DO k = nzb+1, nzt_l
	849	f2_mg(k,l) = rho_air_zw_mg(k,l) / ( dzu_mg(k+1,l) * dzw_mg(k,l) )
	850	f3_mg(k,l) = rho_air_zw_mg(k-1,l) / ( dzu_mg(k,l) * dzw_mg(k,l) )
	851	f1_mg(k,l) = 2.0_wp * ( ddx2_mg(l) + ddy2_mg(l) ) &
	852	* rho_air_mg(k,l) + f2_mg(k,l) + f3_mg(k,l)
	853	ENDDO
	854	nzt_l = nzt_l / 2
	855	dx_l = dx_l * 2.0_wp
	856	dy_l = dy_l * 2.0_wp
	857	ENDDO
	858
	859	ENDIF
	860
	861	!
[1]	862	!-- 3D-array for storing the dissipation, needed for calculating the sgs
	863	!-- particle velocities
[2118]	864	IF ( use_sgs_for_particles .OR. wang_kernel .OR. collision_turbulence )&
	865	THEN
[1153]	866	ALLOCATE( diss(nzb:nzt+1,nysg:nyng,nxlg:nxrg) )
[1]	867	ENDIF
	868
	869	!
[1299]	870	!-- 1D-array for large scale subsidence velocity
[1361]	871	IF ( .NOT. ALLOCATED( w_subs ) ) THEN
	872	ALLOCATE ( w_subs(nzb:nzt+1) )
	873	w_subs = 0.0_wp
	874	ENDIF
[1299]	875
	876	!
[106]	877	!-- Arrays to store velocity data from t-dt and the phase speeds which
	878	!-- are needed for radiation boundary conditions
[73]	879	IF ( outflow_l ) THEN
[1788]	880	ALLOCATE( u_m_l(nzb:nzt+1,nysg:nyng,1:2), &
	881	v_m_l(nzb:nzt+1,nysg:nyng,0:1), &
[667]	882	w_m_l(nzb:nzt+1,nysg:nyng,0:1) )
[73]	883	ENDIF
	884	IF ( outflow_r ) THEN
[1788]	885	ALLOCATE( u_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
	886	v_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx), &
[667]	887	w_m_r(nzb:nzt+1,nysg:nyng,nx-1:nx) )
[73]	888	ENDIF
[106]	889	IF ( outflow_l .OR. outflow_r ) THEN
[1788]	890	ALLOCATE( c_u(nzb:nzt+1,nysg:nyng), c_v(nzb:nzt+1,nysg:nyng), &
[667]	891	c_w(nzb:nzt+1,nysg:nyng) )
[106]	892	ENDIF
[73]	893	IF ( outflow_s ) THEN
[1788]	894	ALLOCATE( u_m_s(nzb:nzt+1,0:1,nxlg:nxrg), &
	895	v_m_s(nzb:nzt+1,1:2,nxlg:nxrg), &
[667]	896	w_m_s(nzb:nzt+1,0:1,nxlg:nxrg) )
[73]	897	ENDIF
	898	IF ( outflow_n ) THEN
[1788]	899	ALLOCATE( u_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
	900	v_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg), &
[667]	901	w_m_n(nzb:nzt+1,ny-1:ny,nxlg:nxrg) )
[73]	902	ENDIF
[106]	903	IF ( outflow_s .OR. outflow_n ) THEN
[1788]	904	ALLOCATE( c_u(nzb:nzt+1,nxlg:nxrg), c_v(nzb:nzt+1,nxlg:nxrg), &
[667]	905	c_w(nzb:nzt+1,nxlg:nxrg) )
[106]	906	ENDIF
[996]	907	IF ( outflow_l .OR. outflow_r .OR. outflow_s .OR. outflow_n ) THEN
[978]	908	ALLOCATE( c_u_m_l(nzb:nzt+1), c_v_m_l(nzb:nzt+1), c_w_m_l(nzb:nzt+1) )
	909	ALLOCATE( c_u_m(nzb:nzt+1), c_v_m(nzb:nzt+1), c_w_m(nzb:nzt+1) )
	910	ENDIF
[73]	911
[978]	912
[1010]	913	#if ! defined( __nopointer )
[73]	914	!
[1]	915	!-- Initial assignment of the pointers
[1001]	916	e => e_1; e_p => e_2; te_m => e_3
[1032]	917	IF ( .NOT. neutral ) THEN
	918	pt => pt_1; pt_p => pt_2; tpt_m => pt_3
	919	ELSE
	920	pt => pt_1; pt_p => pt_1; tpt_m => pt_3
	921	ENDIF
[1001]	922	u => u_1; u_p => u_2; tu_m => u_3
	923	v => v_1; v_p => v_2; tv_m => v_3
	924	w => w_1; w_p => w_2; tw_m => w_3
[1]	925
[1960]	926	IF ( humidity ) THEN
[1001]	927	q => q_1; q_p => q_2; tq_m => q_3
[1053]	928	IF ( humidity ) THEN
	929	vpt => vpt_1
	930	IF ( cloud_physics ) THEN
	931	ql => ql_1
[2292]	932	IF ( .NOT. microphysics_morrison ) THEN
	933	qc => qc_1
	934	ENDIF
	935	IF ( microphysics_morrison ) THEN
	936	qc => qc_1; qc_p => qc_2; tqc_m => qc_3
	937	nc => nc_1; nc_p => nc_2; tnc_m => nc_3
	938	ENDIF
[1822]	939	IF ( microphysics_seifert ) THEN
	940	qr => qr_1; qr_p => qr_2; tqr_m => qr_3
	941	nr => nr_1; nr_p => nr_2; tnr_m => nr_3
[1053]	942	ENDIF
	943	ENDIF
	944	ENDIF
[1001]	945	IF ( cloud_droplets ) THEN
	946	ql => ql_1
	947	ql_c => ql_2
[1]	948	ENDIF
[1001]	949	ENDIF
[1960]	950
	951	IF ( passive_scalar ) THEN
	952	s => s_1; s_p => s_2; ts_m => s_3
	953	ENDIF
[1]	954
[1001]	955	IF ( ocean ) THEN
	956	sa => sa_1; sa_p => sa_2; tsa_m => sa_3
	957	ENDIF
[1010]	958	#endif
[1]	959	!
[2232]	960	!-- Initialize wall arrays
	961	CALL init_surface_arrays
	962	!
[1551]	963	!-- Allocate land surface model arrays
	964	IF ( land_surface ) THEN
[1817]	965	CALL lsm_init_arrays
[1551]	966	ENDIF
	967
	968	!
[1914]	969	!-- Allocate wind turbine model arrays
	970	IF ( wind_turbine ) THEN
	971	CALL wtm_init_arrays
	972	ENDIF
[1957]	973
	974	!
	975	!-- Initialize virtual flight measurements
	976	IF ( virtual_flight ) THEN
	977	CALL flight_init
	978	ENDIF
[1914]	979
	980	!
[2320]	981	!-- Initialize nudging if required
	982	IF ( nudging ) THEN
	983	CALL nudge_init
	984	ENDIF
	985
	986	!
	987	!-- Initialize reading of large scale forcing from external file - if required
	988	IF ( large_scale_forcing ) THEN
	989	CALL lsf_init
	990	ENDIF
	991
	992	!
[709]	993	!-- Allocate arrays containing the RK coefficient for calculation of
	994	!-- perturbation pressure and turbulent fluxes. At this point values are
	995	!-- set for pressure calculation during initialization (where no timestep
	996	!-- is done). Further below the values needed within the timestep scheme
	997	!-- will be set.
[1788]	998	ALLOCATE( weight_substep(1:intermediate_timestep_count_max), &
[1878]	999	weight_pres(1:intermediate_timestep_count_max) )
[1340]	1000	weight_substep = 1.0_wp
	1001	weight_pres = 1.0_wp
[1918]	1002	intermediate_timestep_count = 0 ! needed when simulated_time = 0.0
[673]	1003
[1402]	1004	CALL location_message( 'finished', .TRUE. )
[1918]	1005
[673]	1006	!
[1918]	1007	!-- Initialize local summation arrays for routine flow_statistics.
	1008	!-- This is necessary because they may not yet have been initialized when they
	1009	!-- are called from flow_statistics (or - depending on the chosen model run -
	1010	!-- are never initialized)
	1011	sums_divnew_l = 0.0_wp
	1012	sums_divold_l = 0.0_wp
	1013	sums_l_l = 0.0_wp
	1014	sums_wsts_bc_l = 0.0_wp
	1015
	1016	!
[1]	1017	!-- Initialize model variables
[1788]	1018	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[328]	1019	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
[1]	1020	!
	1021	!-- First model run of a possible job queue.
	1022	!-- Initial profiles of the variables must be computes.
	1023	IF ( INDEX( initializing_actions, 'set_1d-model_profiles' ) /= 0 ) THEN
[1384]	1024
[1402]	1025	CALL location_message( 'initializing with 1D model profiles', .FALSE. )
[1]	1026	!
	1027	!-- Use solutions of the 1D model as initial profiles,
	1028	!-- start 1D model
	1029	CALL init_1d_model
	1030	!
	1031	!-- Transfer initial profiles to the arrays of the 3D model
[667]	1032	DO i = nxlg, nxrg
	1033	DO j = nysg, nyng
[1]	1034	e(:,j,i) = e1d
	1035	kh(:,j,i) = kh1d
	1036	km(:,j,i) = km1d
	1037	pt(:,j,i) = pt_init
	1038	u(:,j,i) = u1d
	1039	v(:,j,i) = v1d
	1040	ENDDO
	1041	ENDDO
	1042
[1960]	1043	IF ( humidity ) THEN
[667]	1044	DO i = nxlg, nxrg
	1045	DO j = nysg, nyng
[1]	1046	q(:,j,i) = q_init
	1047	ENDDO
	1048	ENDDO
[2292]	1049	IF ( cloud_physics .AND. microphysics_morrison ) THEN
	1050	DO i = nxlg, nxrg
	1051	DO j = nysg, nyng
	1052	qc(:,j,i) = 0.0_wp
	1053	nc(:,j,i) = 0.0_wp
	1054	ENDDO
	1055	ENDDO
	1056	ENDIF
[1822]	1057	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1053]	1058	DO i = nxlg, nxrg
	1059	DO j = nysg, nyng
[1340]	1060	qr(:,j,i) = 0.0_wp
	1061	nr(:,j,i) = 0.0_wp
[1053]	1062	ENDDO
	1063	ENDDO
	1064	ENDIF
[1]	1065	ENDIF
[2292]	1066
[1960]	1067	IF ( passive_scalar ) THEN
	1068	DO i = nxlg, nxrg
	1069	DO j = nysg, nyng
	1070	s(:,j,i) = s_init
	1071	ENDDO
	1072	ENDDO
	1073	ENDIF
[1]	1074
	1075	IF ( .NOT. constant_diffusion ) THEN
[667]	1076	DO i = nxlg, nxrg
	1077	DO j = nysg, nyng
[1]	1078	e(:,j,i) = e1d
	1079	ENDDO
	1080	ENDDO
	1081	!
	1082	!-- Store initial profiles for output purposes etc.
	1083	hom(:,1,25,:) = SPREAD( l1d, 2, statistic_regions+1 )
	1084
	1085	ELSE
[1340]	1086	e = 0.0_wp ! must be set, because used in
[1]	1087	ENDIF
	1088	!
[1762]	1089	!-- Inside buildings set velocities back to zero
[1]	1090	IF ( topography /= 'flat' ) THEN
[1762]	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), 1 ) )
	1096	v(k,j,i) = MERGE( v(k,j,i), 0.0_wp, &
	1097	BTEST( wall_flags_0(k,j,i), 2 ) )
	1098	ENDDO
[1]	1099	ENDDO
	1100	ENDDO
[667]	1101
[1]	1102	!
	1103	!-- WARNING: The extra boundary conditions set after running the
	1104	!-- ------- 1D model impose an error on the divergence one layer
	1105	!-- below the topography; need to correct later
	1106	!-- ATTENTION: Provisional correction for Piacsek & Williams
	1107	!-- --------- advection scheme: keep u and v zero one layer below
	1108	!-- the topography.
[667]	1109	IF ( ibc_uv_b == 1 ) THEN
	1110	!
[1]	1111	!-- Neumann condition
	1112	DO i = nxl-1, nxr+1
	1113	DO j = nys-1, nyn+1
[2232]	1114	u(nzb,j,i) = u(nzb+1,j,i)
	1115	v(nzb,j,i) = v(nzb+1,j,i)
[1]	1116	ENDDO
	1117	ENDDO
	1118
	1119	ENDIF
	1120
	1121	ENDIF
	1122
[1402]	1123	CALL location_message( 'finished', .TRUE. )
[1384]	1124
[1788]	1125	ELSEIF ( INDEX(initializing_actions, 'set_constant_profiles') /= 0 ) &
[1]	1126	THEN
[1241]	1127
[1402]	1128	CALL location_message( 'initializing with constant profiles', .FALSE. )
[1]	1129	!
[2259]	1130	!-- Overwrite initial profiles in case of synthetic turbulence generator
	1131	IF( use_synthetic_turbulence_generator ) THEN
	1132	CALL stg_init
	1133	ENDIF
	1134
	1135	!
[1]	1136	!-- Use constructed initial profiles (velocity constant with height,
	1137	!-- temperature profile with constant gradient)
[667]	1138	DO i = nxlg, nxrg
	1139	DO j = nysg, nyng
[1]	1140	pt(:,j,i) = pt_init
	1141	u(:,j,i) = u_init
	1142	v(:,j,i) = v_init
	1143	ENDDO
	1144	ENDDO
[75]	1145
[1]	1146	!
[292]	1147	!-- Set initial horizontal velocities at the lowest computational grid
	1148	!-- levels to zero in order to avoid too small time steps caused by the
	1149	!-- diffusion limit in the initial phase of a run (at k=1, dz/2 occurs
[1815]	1150	!-- in the limiting formula!).
	1151	IF ( ibc_uv_b /= 1 ) THEN
	1152	DO i = nxlg, nxrg
	1153	DO j = nysg, nyng
[2232]	1154	DO k = nzb, nzt
	1155	u(k,j,i) = MERGE( u(k,j,i), 0.0_wp, &
	1156	BTEST( wall_flags_0(k,j,i), 20 ) )
	1157	v(k,j,i) = MERGE( v(k,j,i), 0.0_wp, &
	1158	BTEST( wall_flags_0(k,j,i), 21 ) )
	1159	ENDDO
[1815]	1160	ENDDO
	1161	ENDDO
	1162	ENDIF
[1]	1163
[1960]	1164	IF ( humidity ) THEN
[667]	1165	DO i = nxlg, nxrg
	1166	DO j = nysg, nyng
[1]	1167	q(:,j,i) = q_init
	1168	ENDDO
	1169	ENDDO
[2292]	1170	IF ( cloud_physics .AND. microphysics_morrison ) THEN
	1171	DO i = nxlg, nxrg
	1172	DO j = nysg, nyng
	1173	qc(:,j,i) = 0.0_wp
	1174	nc(:,j,i) = 0.0_wp
	1175	ENDDO
	1176	ENDDO
	1177	ENDIF
	1178
[1822]	1179	IF ( cloud_physics .AND. microphysics_seifert ) THEN
	1180	DO i = nxlg, nxrg
	1181	DO j = nysg, nyng
	1182	qr(:,j,i) = 0.0_wp
	1183	nr(:,j,i) = 0.0_wp
[1053]	1184	ENDDO
[1822]	1185	ENDDO
[2292]	1186	ENDIF
[1115]	1187
[1]	1188	ENDIF
[1960]	1189
	1190	IF ( passive_scalar ) THEN
	1191	DO i = nxlg, nxrg
	1192	DO j = nysg, nyng
	1193	s(:,j,i) = s_init
	1194	ENDDO
	1195	ENDDO
	1196	ENDIF
[1]	1197
[94]	1198	IF ( ocean ) THEN
[667]	1199	DO i = nxlg, nxrg
	1200	DO j = nysg, nyng
[94]	1201	sa(:,j,i) = sa_init
	1202	ENDDO
	1203	ENDDO
	1204	ENDIF
[1]	1205
	1206	IF ( constant_diffusion ) THEN
	1207	km = km_constant
	1208	kh = km / prandtl_number
[1340]	1209	e = 0.0_wp
	1210	ELSEIF ( e_init > 0.0_wp ) THEN
[108]	1211	DO k = nzb+1, nzt
[1340]	1212	km(k,:,:) = 0.1_wp * l_grid(k) * SQRT( e_init )
[108]	1213	ENDDO
	1214	km(nzb,:,:) = km(nzb+1,:,:)
	1215	km(nzt+1,:,:) = km(nzt,:,:)
	1216	kh = km / prandtl_number
	1217	e = e_init
[1]	1218	ELSE
[108]	1219	IF ( .NOT. ocean ) THEN
[1340]	1220	kh = 0.01_wp ! there must exist an initial diffusion, because
	1221	km = 0.01_wp ! otherwise no TKE would be produced by the
[108]	1222	! production terms, as long as not yet
	1223	! e = (u/cm)*2 at k=nzb+1
	1224	ELSE
[1340]	1225	kh = 0.00001_wp
	1226	km = 0.00001_wp
[108]	1227	ENDIF
[1340]	1228	e = 0.0_wp
[1]	1229	ENDIF
[1920]	1230	!
[1]	1231	!-- Compute initial temperature field and other constants used in case
	1232	!-- of a sloping surface
	1233	IF ( sloping_surface ) CALL init_slope
	1234
[1402]	1235	CALL location_message( 'finished', .TRUE. )
[1384]	1236
[1788]	1237	ELSEIF ( INDEX(initializing_actions, 'by_user') /= 0 ) &
[46]	1238	THEN
[1384]	1239
[1402]	1240	CALL location_message( 'initializing by user', .FALSE. )
[46]	1241	!
	1242	!-- Initialization will completely be done by the user
	1243	CALL user_init_3d_model
	1244
[1402]	1245	CALL location_message( 'finished', .TRUE. )
[1384]	1246
[1]	1247	ENDIF
[1384]	1248
[1402]	1249	CALL location_message( 'initializing statistics, boundary conditions, etc.', &
	1250	.FALSE. )
[1384]	1251
[667]	1252	!
	1253	!-- Bottom boundary
	1254	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2 ) THEN
[1340]	1255	u(nzb,:,:) = 0.0_wp
	1256	v(nzb,:,:) = 0.0_wp
[667]	1257	ENDIF
[1]	1258
	1259	!
[151]	1260	!-- Apply channel flow boundary condition
[132]	1261	IF ( TRIM( bc_uv_t ) == 'dirichlet_0' ) THEN
[1340]	1262	u(nzt+1,:,:) = 0.0_wp
	1263	v(nzt+1,:,:) = 0.0_wp
[132]	1264	ENDIF
	1265
	1266	!
[1]	1267	!-- Calculate virtual potential temperature
[1960]	1268	IF ( humidity ) vpt = pt * ( 1.0_wp + 0.61_wp * q )
[1]	1269
	1270	!
	1271	!-- Store initial profiles for output purposes etc.
	1272	hom(:,1,5,:) = SPREAD( u(:,nys,nxl), 2, statistic_regions+1 )
	1273	hom(:,1,6,:) = SPREAD( v(:,nys,nxl), 2, statistic_regions+1 )
[667]	1274	IF ( ibc_uv_b == 0 .OR. ibc_uv_b == 2) THEN
[1340]	1275	hom(nzb,1,5,:) = 0.0_wp
	1276	hom(nzb,1,6,:) = 0.0_wp
[1]	1277	ENDIF
	1278	hom(:,1,7,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	1279	hom(:,1,23,:) = SPREAD( km(:,nys,nxl), 2, statistic_regions+1 )
	1280	hom(:,1,24,:) = SPREAD( kh(:,nys,nxl), 2, statistic_regions+1 )
	1281
[97]	1282	IF ( ocean ) THEN
	1283	!
	1284	!-- Store initial salinity profile
	1285	hom(:,1,26,:) = SPREAD( sa(:,nys,nxl), 2, statistic_regions+1 )
	1286	ENDIF
[1]	1287
[75]	1288	IF ( humidity ) THEN
[1]	1289	!
	1290	!-- Store initial profile of total water content, virtual potential
	1291	!-- temperature
	1292	hom(:,1,26,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	1293	hom(:,1,29,:) = SPREAD( vpt(:,nys,nxl), 2, statistic_regions+1 )
	1294	IF ( cloud_physics .OR. cloud_droplets ) THEN
	1295	!
	1296	!-- Store initial profile of specific humidity and potential
	1297	!-- temperature
	1298	hom(:,1,27,:) = SPREAD( q(:,nys,nxl), 2, statistic_regions+1 )
	1299	hom(:,1,28,:) = SPREAD( pt(:,nys,nxl), 2, statistic_regions+1 )
	1300	ENDIF
	1301	ENDIF
	1302
	1303	IF ( passive_scalar ) THEN
	1304	!
	1305	!-- Store initial scalar profile
[2513]	1306	hom(:,1,121,:) = SPREAD( s(:,nys,nxl), 2, statistic_regions+1 )
[1]	1307	ENDIF
	1308
	1309	!
[1400]	1310	!-- Initialize the random number generators (from numerical recipes)
	1311	CALL random_function_ini
[1429]	1312
[1400]	1313	IF ( random_generator == 'random-parallel' ) THEN
[2172]	1314	CALL init_parallel_random_generator(nx, ny, nys, nyn, nxl, nxr)
[1400]	1315	ENDIF
	1316	!
[1179]	1317	!-- Set the reference state to be used in the buoyancy terms (for ocean runs
	1318	!-- the reference state will be set (overwritten) in init_ocean)
	1319	IF ( use_single_reference_value ) THEN
[1788]	1320	IF ( .NOT. humidity ) THEN
[1179]	1321	ref_state(:) = pt_reference
	1322	ELSE
	1323	ref_state(:) = vpt_reference
	1324	ENDIF
	1325	ELSE
[1788]	1326	IF ( .NOT. humidity ) THEN
[1179]	1327	ref_state(:) = pt_init(:)
	1328	ELSE
	1329	ref_state(:) = vpt(:,nys,nxl)
	1330	ENDIF
	1331	ENDIF
[152]	1332
	1333	!
[707]	1334	!-- For the moment, vertical velocity is zero
[1340]	1335	w = 0.0_wp
[1]	1336
	1337	!
	1338	!-- Initialize array sums (must be defined in first call of pres)
[1340]	1339	sums = 0.0_wp
[1]	1340
	1341	!
[707]	1342	!-- In case of iterative solvers, p must get an initial value
[1575]	1343	IF ( psolver(1:9) == 'multigrid' .OR. psolver == 'sor' ) p = 0.0_wp
[707]	1344
	1345	!
[72]	1346	!-- Treating cloud physics, liquid water content and precipitation amount
	1347	!-- are zero at beginning of the simulation
	1348	IF ( cloud_physics ) THEN
[1340]	1349	ql = 0.0_wp
[1822]	1350	qc = 0.0_wp
	1351
	1352	precipitation_amount = 0.0_wp
[72]	1353	ENDIF
[673]	1354	!
[1]	1355	!-- Impose vortex with vertical axis on the initial velocity profile
	1356	IF ( INDEX( initializing_actions, 'initialize_vortex' ) /= 0 ) THEN
	1357	CALL init_rankine
	1358	ENDIF
	1359
	1360	!
	1361	!-- Impose temperature anomaly (advection test only)
	1362	IF ( INDEX( initializing_actions, 'initialize_ptanom' ) /= 0 ) THEN
	1363	CALL init_pt_anomaly
	1364	ENDIF
	1365
	1366	!
	1367	!-- If required, change the surface temperature at the start of the 3D run
[1340]	1368	IF ( pt_surface_initial_change /= 0.0_wp ) THEN
[1]	1369	pt(nzb,:,:) = pt(nzb,:,:) + pt_surface_initial_change
	1370	ENDIF
	1371
	1372	!
	1373	!-- If required, change the surface humidity/scalar at the start of the 3D
	1374	!-- run
[1960]	1375	IF ( humidity .AND. q_surface_initial_change /= 0.0_wp ) &
[1]	1376	q(nzb,:,:) = q(nzb,:,:) + q_surface_initial_change
[1960]	1377
	1378	IF ( passive_scalar .AND. s_surface_initial_change /= 0.0_wp ) &
	1379	s(nzb,:,:) = s(nzb,:,:) + s_surface_initial_change
	1380
[1]	1381
	1382	!
	1383	!-- Initialize old and new time levels.
[1340]	1384	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]	1385	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
	1386
[1960]	1387	IF ( humidity ) THEN
[1340]	1388	tq_m = 0.0_wp
[1]	1389	q_p = q
[2292]	1390	IF ( cloud_physics .AND. microphysics_morrison ) THEN
	1391	tqc_m = 0.0_wp
	1392	qc_p = qc
	1393	tnc_m = 0.0_wp
	1394	nc_p = nc
	1395	ENDIF
[1822]	1396	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1397	tqr_m = 0.0_wp
[1822]	1398	qr_p = qr
[1340]	1399	tnr_m = 0.0_wp
[1822]	1400	nr_p = nr
[1053]	1401	ENDIF
[1]	1402	ENDIF
[1960]	1403
	1404	IF ( passive_scalar ) THEN
	1405	ts_m = 0.0_wp
	1406	s_p = s
	1407	ENDIF
[1]	1408
[94]	1409	IF ( ocean ) THEN
[1340]	1410	tsa_m = 0.0_wp
[94]	1411	sa_p = sa
	1412	ENDIF
[667]	1413
[1402]	1414	CALL location_message( 'finished', .TRUE. )
[94]	1415
[1788]	1416	ELSEIF ( TRIM( initializing_actions ) == 'read_restart_data' .OR. &
[2232]	1417	TRIM( initializing_actions ) == 'cyclic_fill' ) &
[1]	1418	THEN
[1384]	1419
[1402]	1420	CALL location_message( 'initializing in case of restart / cyclic_fill', &
	1421	.FALSE. )
[1]	1422	!
[2232]	1423	!-- Initialize surface elements and its attributes, e.g. heat- and
	1424	!-- momentumfluxes, roughness, scaling parameters. As number of surface
	1425	!-- elements might be different between runs, e.g. in case of cyclic fill,
	1426	!-- and not all surface elements are read, surface elements need to be
	1427	!-- initialized before.
	1428	CALL init_surfaces
	1429	!
[767]	1430	!-- When reading data for cyclic fill of 3D prerun data files, read
	1431	!-- some of the global variables from the restart file which are required
	1432	!-- for initializing the inflow
[328]	1433	IF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
[559]	1434
[759]	1435	DO i = 0, io_blocks-1
	1436	IF ( i == io_group ) THEN
	1437	CALL read_parts_of_var_list
	1438	CALL close_file( 13 )
	1439	ENDIF
	1440	#if defined( __parallel )
	1441	CALL MPI_BARRIER( comm2d, ierr )
	1442	#endif
	1443	ENDDO
[328]	1444
[767]	1445	ENDIF
	1446
[151]	1447	!
[767]	1448	!-- Read binary data from restart file
	1449	DO i = 0, io_blocks-1
	1450	IF ( i == io_group ) THEN
	1451	CALL read_3d_binary
	1452	ENDIF
	1453	#if defined( __parallel )
	1454	CALL MPI_BARRIER( comm2d, ierr )
	1455	#endif
	1456	ENDDO
	1457
[328]	1458	!
[767]	1459	!-- Initialization of the turbulence recycling method
[1788]	1460	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
[767]	1461	turbulent_inflow ) THEN
	1462	!
	1463	!-- First store the profiles to be used at the inflow.
	1464	!-- These profiles are the (temporally) and horizontally averaged vertical
	1465	!-- profiles from the prerun. Alternatively, prescribed profiles
	1466	!-- for u,v-components can be used.
[1960]	1467	ALLOCATE( mean_inflow_profiles(nzb:nzt+1,7) )
[151]	1468
[767]	1469	IF ( use_prescribed_profile_data ) THEN
	1470	mean_inflow_profiles(:,1) = u_init ! u
	1471	mean_inflow_profiles(:,2) = v_init ! v
	1472	ELSE
[328]	1473	mean_inflow_profiles(:,1) = hom_sum(:,1,0) ! u
	1474	mean_inflow_profiles(:,2) = hom_sum(:,2,0) ! v
[767]	1475	ENDIF
	1476	mean_inflow_profiles(:,4) = hom_sum(:,4,0) ! pt
	1477	mean_inflow_profiles(:,5) = hom_sum(:,8,0) ! e
[1960]	1478	IF ( humidity ) &
	1479	mean_inflow_profiles(:,6) = hom_sum(:,41,0) ! q
	1480	IF ( passive_scalar ) &
	1481	mean_inflow_profiles(:,7) = hom_sum(:,115,0) ! s
[151]	1482
	1483	!
[767]	1484	!-- If necessary, adjust the horizontal flow field to the prescribed
	1485	!-- profiles
	1486	IF ( use_prescribed_profile_data ) THEN
	1487	DO i = nxlg, nxrg
[667]	1488	DO j = nysg, nyng
[328]	1489	DO k = nzb, nzt+1
[767]	1490	u(k,j,i) = u(k,j,i) - hom_sum(k,1,0) + u_init(k)
	1491	v(k,j,i) = v(k,j,i) - hom_sum(k,2,0) + v_init(k)
[328]	1492	ENDDO
[151]	1493	ENDDO
[767]	1494	ENDDO
	1495	ENDIF
[151]	1496
	1497	!
[767]	1498	!-- Use these mean profiles at the inflow (provided that Dirichlet
	1499	!-- conditions are used)
	1500	IF ( inflow_l ) THEN
	1501	DO j = nysg, nyng
	1502	DO k = nzb, nzt+1
	1503	u(k,j,nxlg:-1) = mean_inflow_profiles(k,1)
	1504	v(k,j,nxlg:-1) = mean_inflow_profiles(k,2)
[1340]	1505	w(k,j,nxlg:-1) = 0.0_wp
[767]	1506	pt(k,j,nxlg:-1) = mean_inflow_profiles(k,4)
	1507	e(k,j,nxlg:-1) = mean_inflow_profiles(k,5)
[1960]	1508	IF ( humidity ) &
[1615]	1509	q(k,j,nxlg:-1) = mean_inflow_profiles(k,6)
[1960]	1510	IF ( passive_scalar ) &
	1511	s(k,j,nxlg:-1) = mean_inflow_profiles(k,7)
[767]	1512	ENDDO
	1513	ENDDO
	1514	ENDIF
	1515
[151]	1516	!
[767]	1517	!-- Calculate the damping factors to be used at the inflow. For a
	1518	!-- turbulent inflow the turbulent fluctuations have to be limited
	1519	!-- vertically because otherwise the turbulent inflow layer will grow
	1520	!-- in time.
[1340]	1521	IF ( inflow_damping_height == 9999999.9_wp ) THEN
[767]	1522	!
	1523	!-- Default: use the inversion height calculated by the prerun; if
	1524	!-- this is zero, inflow_damping_height must be explicitly
	1525	!-- specified.
[1340]	1526	IF ( hom_sum(nzb+6,pr_palm,0) /= 0.0_wp ) THEN
[767]	1527	inflow_damping_height = hom_sum(nzb+6,pr_palm,0)
	1528	ELSE
[1788]	1529	WRITE( message_string, * ) 'inflow_damping_height must be ', &
	1530	'explicitly specified because&the inversion height ', &
[767]	1531	'calculated by the prerun is zero.'
	1532	CALL message( 'init_3d_model', 'PA0318', 1, 2, 0, 6, 0 )
[292]	1533	ENDIF
[151]	1534
[767]	1535	ENDIF
	1536
[1340]	1537	IF ( inflow_damping_width == 9999999.9_wp ) THEN
[151]	1538	!
[767]	1539	!-- Default for the transition range: one tenth of the undamped
	1540	!-- layer
[1340]	1541	inflow_damping_width = 0.1_wp * inflow_damping_height
[151]	1542
[767]	1543	ENDIF
[151]	1544
[767]	1545	ALLOCATE( inflow_damping_factor(nzb:nzt+1) )
[151]	1546
[767]	1547	DO k = nzb, nzt+1
[151]	1548
[767]	1549	IF ( zu(k) <= inflow_damping_height ) THEN
[1340]	1550	inflow_damping_factor(k) = 1.0_wp
[996]	1551	ELSEIF ( zu(k) <= ( inflow_damping_height + inflow_damping_width ) ) THEN
[1340]	1552	inflow_damping_factor(k) = 1.0_wp - &
[996]	1553	( zu(k) - inflow_damping_height ) / &
	1554	inflow_damping_width
[767]	1555	ELSE
[1340]	1556	inflow_damping_factor(k) = 0.0_wp
[767]	1557	ENDIF
[151]	1558
[767]	1559	ENDDO
[151]	1560
[147]	1561	ENDIF
	1562
[152]	1563	!
[359]	1564	!-- Inside buildings set velocities and TKE back to zero
[1788]	1565	IF ( TRIM( initializing_actions ) == 'cyclic_fill' .AND. &
[359]	1566	topography /= 'flat' ) THEN
	1567	!
	1568	!-- Inside buildings set velocities and TKE back to zero.
	1569	!-- Other scalars (pt, q, s, km, kh, p, sa, ...) are ignored at present,
	1570	!-- maybe revise later.
[1001]	1571	DO i = nxlg, nxrg
	1572	DO j = nysg, nyng
[2232]	1573	DO k = nzb, nzt
	1574	u(k,j,i) = MERGE( u(k,j,i), 0.0_wp, &
	1575	BTEST( wall_flags_0(k,j,i), 1 ) )
	1576	v(k,j,i) = MERGE( v(k,j,i), 0.0_wp, &
	1577	BTEST( wall_flags_0(k,j,i), 2 ) )
	1578	w(k,j,i) = MERGE( w(k,j,i), 0.0_wp, &
	1579	BTEST( wall_flags_0(k,j,i), 3 ) )
	1580	e(k,j,i) = MERGE( e(k,j,i), 0.0_wp, &
	1581	BTEST( wall_flags_0(k,j,i), 0 ) )
	1582	tu_m(k,j,i) = MERGE( tu_m(k,j,i), 0.0_wp, &
	1583	BTEST( wall_flags_0(k,j,i), 1 ) )
	1584	tv_m(k,j,i) = MERGE( tv_m(k,j,i), 0.0_wp, &
	1585	BTEST( wall_flags_0(k,j,i), 2 ) )
	1586	tw_m(k,j,i) = MERGE( tw_m(k,j,i), 0.0_wp, &
	1587	BTEST( wall_flags_0(k,j,i), 3 ) )
	1588	te_m(k,j,i) = MERGE( te_m(k,j,i), 0.0_wp, &
	1589	BTEST( wall_flags_0(k,j,i), 0 ) )
	1590	tpt_m(k,j,i) = MERGE( tpt_m(k,j,i), 0.0_wp, &
	1591	BTEST( wall_flags_0(k,j,i), 0 ) )
	1592	ENDDO
[359]	1593	ENDDO
[1001]	1594	ENDDO
[359]	1595
	1596	ENDIF
	1597
	1598	!
[1]	1599	!-- Calculate initial temperature field and other constants used in case
	1600	!-- of a sloping surface
	1601	IF ( sloping_surface ) CALL init_slope
	1602
	1603	!
	1604	!-- Initialize new time levels (only done in order to set boundary values
	1605	!-- including ghost points)
	1606	e_p = e; pt_p = pt; u_p = u; v_p = v; w_p = w
[1960]	1607	IF ( humidity ) THEN
[1053]	1608	q_p = q
[2292]	1609	IF ( cloud_physics .AND. microphysics_morrison ) THEN
	1610	qc_p = qc
	1611	nc_p = nc
	1612	ENDIF
[1822]	1613	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1053]	1614	qr_p = qr
	1615	nr_p = nr
	1616	ENDIF
	1617	ENDIF
[1960]	1618	IF ( passive_scalar ) s_p = s
	1619	IF ( ocean ) sa_p = sa
[1]	1620
[181]	1621	!
	1622	!-- Allthough tendency arrays are set in prognostic_equations, they have
	1623	!-- have to be predefined here because they are used (but multiplied with 0)
	1624	!-- there before they are set.
[1340]	1625	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]	1626	IF ( humidity ) THEN
[1340]	1627	tq_m = 0.0_wp
[2292]	1628	IF ( cloud_physics .AND. microphysics_morrison ) THEN
	1629	tqc_m = 0.0_wp
	1630	tnc_m = 0.0_wp
	1631	ENDIF
[1822]	1632	IF ( cloud_physics .AND. microphysics_seifert ) THEN
[1340]	1633	tqr_m = 0.0_wp
	1634	tnr_m = 0.0_wp
[1053]	1635	ENDIF
	1636	ENDIF
[1960]	1637	IF ( passive_scalar ) ts_m = 0.0_wp
	1638	IF ( ocean ) tsa_m = 0.0_wp
[2259]	1639	!
	1640	!-- Initialize synthetic turbulence generator in case of restart.
	1641	IF ( TRIM( initializing_actions ) == 'read_restart_data' .AND. &
	1642	use_synthetic_turbulence_generator ) CALL stg_init
[181]	1643
[1402]	1644	CALL location_message( 'finished', .TRUE. )
[1384]	1645
[1]	1646	ELSE
	1647	!
	1648	!-- Actually this part of the programm should not be reached
[254]	1649	message_string = 'unknown initializing problem'
	1650	CALL message( 'init_3d_model', 'PA0193', 1, 2, 0, 6, 0 )
[1]	1651	ENDIF
	1652
[151]	1653
	1654	IF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
[1]	1655	!
[151]	1656	!-- Initialize old timelevels needed for radiation boundary conditions
	1657	IF ( outflow_l ) THEN
	1658	u_m_l(:,:,:) = u(:,:,1:2)
	1659	v_m_l(:,:,:) = v(:,:,0:1)
	1660	w_m_l(:,:,:) = w(:,:,0:1)
	1661	ENDIF
	1662	IF ( outflow_r ) THEN
	1663	u_m_r(:,:,:) = u(:,:,nx-1:nx)
	1664	v_m_r(:,:,:) = v(:,:,nx-1:nx)
	1665	w_m_r(:,:,:) = w(:,:,nx-1:nx)
	1666	ENDIF
	1667	IF ( outflow_s ) THEN
	1668	u_m_s(:,:,:) = u(:,0:1,:)
	1669	v_m_s(:,:,:) = v(:,1:2,:)
	1670	w_m_s(:,:,:) = w(:,0:1,:)
	1671	ENDIF
	1672	IF ( outflow_n ) THEN
	1673	u_m_n(:,:,:) = u(:,ny-1:ny,:)
	1674	v_m_n(:,:,:) = v(:,ny-1:ny,:)
	1675	w_m_n(:,:,:) = w(:,ny-1:ny,:)
	1676	ENDIF
[667]	1677
[151]	1678	ENDIF
[680]	1679
[667]	1680	!
	1681	!-- Calculate the initial volume flow at the right and north boundary
[709]	1682	IF ( conserve_volume_flow ) THEN
[151]	1683
[767]	1684	IF ( use_prescribed_profile_data ) THEN
[667]	1685
[1340]	1686	volume_flow_initial_l = 0.0_wp
	1687	volume_flow_area_l = 0.0_wp
[732]	1688
[667]	1689	IF ( nxr == nx ) THEN
	1690	DO j = nys, nyn
[2232]	1691	DO k = nzb+1, nzt
[1788]	1692	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[2232]	1693	u_init(k) * dzw(k) &
	1694	* MERGE( 1.0_wp, 0.0_wp, &
	1695	BTEST( wall_flags_0(k,j,nxr), 1 )&
	1696	)
	1697
	1698	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k) &
	1699	* MERGE( 1.0_wp, 0.0_wp, &
	1700	BTEST( wall_flags_0(k,j,nxr), 1 )&
	1701	)
[767]	1702	ENDDO
	1703	ENDDO
	1704	ENDIF
	1705
	1706	IF ( nyn == ny ) THEN
	1707	DO i = nxl, nxr
[2232]	1708	DO k = nzb+1, nzt
	1709	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
	1710	v_init(k) * dzw(k) &
	1711	* MERGE( 1.0_wp, 0.0_wp, &
	1712	BTEST( wall_flags_0(k,nyn,i), 2 )&
	1713	)
	1714	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k) &
	1715	* MERGE( 1.0_wp, 0.0_wp, &
	1716	BTEST( wall_flags_0(k,nyn,i), 2 )&
	1717	)
[767]	1718	ENDDO
	1719	ENDDO
	1720	ENDIF
	1721
	1722	#if defined( __parallel )
	1723	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1724	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1725	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1726	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1727
	1728	#else
	1729	volume_flow_initial = volume_flow_initial_l
	1730	volume_flow_area = volume_flow_area_l
	1731	#endif
	1732
	1733	ELSEIF ( TRIM( initializing_actions ) == 'cyclic_fill' ) THEN
	1734
[1340]	1735	volume_flow_initial_l = 0.0_wp
	1736	volume_flow_area_l = 0.0_wp
[767]	1737
	1738	IF ( nxr == nx ) THEN
	1739	DO j = nys, nyn
[2232]	1740	DO k = nzb+1, nzt
[1788]	1741	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
[2232]	1742	hom_sum(k,1,0) * dzw(k) &
	1743	* MERGE( 1.0_wp, 0.0_wp, &
	1744	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1745	)
	1746	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k) &
	1747	* MERGE( 1.0_wp, 0.0_wp, &
	1748	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1749	)
[667]	1750	ENDDO
	1751	ENDDO
	1752	ENDIF
	1753
	1754	IF ( nyn == ny ) THEN
	1755	DO i = nxl, nxr
[2232]	1756	DO k = nzb+1, nzt
[1788]	1757	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[2232]	1758	hom_sum(k,2,0) * dzw(k) &
	1759	* MERGE( 1.0_wp, 0.0_wp, &
	1760	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1761	)
	1762	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k) &
	1763	* MERGE( 1.0_wp, 0.0_wp, &
	1764	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1765	)
[667]	1766	ENDDO
	1767	ENDDO
	1768	ENDIF
	1769
[732]	1770	#if defined( __parallel )
	1771	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1772	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1773	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1774	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1775
	1776	#else
	1777	volume_flow_initial = volume_flow_initial_l
	1778	volume_flow_area = volume_flow_area_l
	1779	#endif
	1780
[667]	1781	ELSEIF ( TRIM( initializing_actions ) /= 'read_restart_data' ) THEN
	1782
[1340]	1783	volume_flow_initial_l = 0.0_wp
	1784	volume_flow_area_l = 0.0_wp
[732]	1785
[667]	1786	IF ( nxr == nx ) THEN
	1787	DO j = nys, nyn
[2232]	1788	DO k = nzb+1, nzt
	1789	volume_flow_initial_l(1) = volume_flow_initial_l(1) + &
	1790	u(k,j,nx) * dzw(k) &
	1791	* MERGE( 1.0_wp, 0.0_wp, &
	1792	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1793	)
	1794	volume_flow_area_l(1) = volume_flow_area_l(1) + dzw(k) &
	1795	* MERGE( 1.0_wp, 0.0_wp, &
	1796	BTEST( wall_flags_0(k,j,nx), 1 ) &
	1797	)
[667]	1798	ENDDO
	1799	ENDDO
	1800	ENDIF
	1801
	1802	IF ( nyn == ny ) THEN
	1803	DO i = nxl, nxr
[2232]	1804	DO k = nzb+1, nzt
[1788]	1805	volume_flow_initial_l(2) = volume_flow_initial_l(2) + &
[2232]	1806	v(k,ny,i) * dzw(k) &
	1807	* MERGE( 1.0_wp, 0.0_wp, &
	1808	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1809	)
	1810	volume_flow_area_l(2) = volume_flow_area_l(2) + dzw(k) &
	1811	* MERGE( 1.0_wp, 0.0_wp, &
	1812	BTEST( wall_flags_0(k,ny,i), 2 ) &
	1813	)
[667]	1814	ENDDO
	1815	ENDDO
	1816	ENDIF
	1817
	1818	#if defined( __parallel )
[732]	1819	CALL MPI_ALLREDUCE( volume_flow_initial_l(1), volume_flow_initial(1),&
	1820	2, MPI_REAL, MPI_SUM, comm2d, ierr )
	1821	CALL MPI_ALLREDUCE( volume_flow_area_l(1), volume_flow_area(1), &
	1822	2, MPI_REAL, MPI_SUM, comm2d, ierr )
[667]	1823
	1824	#else
[732]	1825	volume_flow_initial = volume_flow_initial_l
	1826	volume_flow_area = volume_flow_area_l
[667]	1827	#endif
	1828
[732]	1829	ENDIF
	1830
[151]	1831	!
[709]	1832	!-- In case of 'bulk_velocity' mode, volume_flow_initial is calculated
	1833	!-- from u\|v_bulk instead
[680]	1834	IF ( TRIM( conserve_volume_flow_mode ) == 'bulk_velocity' ) THEN
	1835	volume_flow_initial(1) = u_bulk * volume_flow_area(1)
	1836	volume_flow_initial(2) = v_bulk * volume_flow_area(2)
	1837	ENDIF
[667]	1838
[680]	1839	ENDIF
[2232]	1840	!
	1841	!-- Initialize surface elements and its attributes, e.g. heat- and
	1842	!-- momentumfluxes, roughness, scaling parameters.
	1843	!-- This is already done in case of restart data.
	1844	IF ( TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
	1845	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1846	CALL init_surfaces
	1847	!
	1848	!-- Finally, if random_heatflux is set, disturb shf at horizontal
	1849	!-- surfaces. Actually, this should be done in surface_mod, where all other
	1850	!-- initializations of surface quantities are done. However, this
	1851	!-- would create a ring dependency, hence, it is done here. Maybe delete
	1852	!-- disturb_heatflux and tranfer the respective code directly into the
	1853	!-- initialization in surface_mod.
	1854	IF ( use_surface_fluxes .AND. constant_heatflux .AND. &
	1855	random_heatflux ) THEN
	1856	IF ( surf_def_h(0)%ns >= 1 ) CALL disturb_heatflux( surf_def_h(0) )
	1857	IF ( surf_lsm_h%ns >= 1 ) CALL disturb_heatflux( surf_lsm_h )
	1858	IF ( surf_usm_h%ns >= 1 ) CALL disturb_heatflux( surf_usm_h )
	1859	ENDIF
	1860	ENDIF
[680]	1861
[787]	1862	!
[2232]	1863	!-- Initialize surface forcing corresponding to large-scale forcing. Therein,
	1864	!-- initialize heat-fluxes, etc. via datatype. Revise it later!
	1865	IF ( large_scale_forcing .AND. lsf_surf ) THEN
	1866	IF ( use_surface_fluxes .AND. constant_heatflux ) THEN
	1867	CALL ls_forcing_surf ( simulated_time )
	1868	ENDIF
	1869	ENDIF
	1870	!
[787]	1871	!-- Initialize quantities for special advections schemes
	1872	CALL init_advec
[680]	1873
[667]	1874	!
[680]	1875	!-- Impose random perturbation on the horizontal velocity field and then
	1876	!-- remove the divergences from the velocity field at the initial stage
[1788]	1877	IF ( create_disturbances .AND. disturbance_energy_limit /= 0.0_wp .AND. &
	1878	TRIM( initializing_actions ) /= 'read_restart_data' .AND. &
[680]	1879	TRIM( initializing_actions ) /= 'cyclic_fill' ) THEN
	1880
[1402]	1881	CALL location_message( 'creating initial disturbances', .FALSE. )
[2232]	1882	CALL disturb_field( 'u', tend, u )
	1883	CALL disturb_field( 'v', tend, v )
[1402]	1884	CALL location_message( 'finished', .TRUE. )
[1384]	1885
[1402]	1886	CALL location_message( 'calling pressure solver', .FALSE. )
[680]	1887	n_sor = nsor_ini
	1888	CALL pres
	1889	n_sor = nsor
[1402]	1890	CALL location_message( 'finished', .TRUE. )
[1384]	1891
[680]	1892	ENDIF
	1893
	1894	!
[1484]	1895	!-- If required, initialize quantities needed for the plant canopy model
[2007]	1896	IF ( plant_canopy ) THEN
	1897	CALL location_message( 'initializing plant canopy model', .FALSE. )
	1898	CALL pcm_init
	1899	CALL location_message( 'finished', .TRUE. )
	1900	ENDIF
[138]	1901
	1902	!
[1]	1903	!-- If required, initialize dvrp-software
[1340]	1904	IF ( dt_dvrp /= 9999999.9_wp ) CALL init_dvrp
[1]	1905
[96]	1906	IF ( ocean ) THEN
[1]	1907	!
[96]	1908	!-- Initialize quantities needed for the ocean model
	1909	CALL init_ocean
[388]	1910
[96]	1911	ELSE
	1912	!
	1913	!-- Initialize quantities for handling cloud physics
[849]	1914	!-- This routine must be called before lpm_init, because
[96]	1915	!-- otherwise, array pt_d_t, needed in data_output_dvrp (called by
[849]	1916	!-- lpm_init) is not defined.
[96]	1917	CALL init_cloud_physics
[1849]	1918	!
	1919	!-- Initialize bulk cloud microphysics
	1920	CALL microphysics_init
[96]	1921	ENDIF
[1]	1922
	1923	!
	1924	!-- If required, initialize particles
[849]	1925	IF ( particle_advection ) CALL lpm_init
[1]	1926
[1585]	1927	!
	1928	!-- If required, initialize quantities needed for the LSM
	1929	IF ( land_surface ) THEN
	1930	CALL location_message( 'initializing land surface model', .FALSE. )
[1817]	1931	CALL lsm_init
[1585]	1932	CALL location_message( 'finished', .TRUE. )
	1933	ENDIF
[1496]	1934
[1]	1935	!
[1691]	1936	!-- Initialize surface layer (done after LSM as roughness length are required
	1937	!-- for initialization
	1938	IF ( constant_flux_layer ) THEN
	1939	CALL location_message( 'initializing surface layer', .FALSE. )
	1940	CALL init_surface_layer_fluxes
	1941	CALL location_message( 'finished', .TRUE. )
	1942	ENDIF
	1943
	1944	!
[1496]	1945	!-- If required, initialize radiation model
	1946	IF ( radiation ) THEN
[1585]	1947	CALL location_message( 'initializing radiation model', .FALSE. )
[1826]	1948	CALL radiation_init
[1585]	1949	CALL location_message( 'finished', .TRUE. )
[1496]	1950	ENDIF
[2007]	1951
[2270]	1952
[1914]	1953	!
[2270]	1954	!-- Temporary solution to add LSM and radiation time series to the default
	1955	!-- output
	1956	IF ( land_surface .OR. radiation ) THEN
	1957	IF ( TRIM( radiation_scheme ) == 'rrtmg' ) THEN
	1958	dots_num = dots_num + 15
	1959	ELSE
	1960	dots_num = dots_num + 11
	1961	ENDIF
	1962	ENDIF
	1963
	1964	!
[2007]	1965	!-- If required, initialize urban surface model
	1966	IF ( urban_surface ) THEN
	1967	CALL location_message( 'initializing urban surface model', .FALSE. )
	1968	CALL usm_init_urban_surface
	1969	CALL location_message( 'finished', .TRUE. )
	1970	ENDIF
	1971
	1972	!
[1914]	1973	!-- If required, initialize quantities needed for the wind turbine model
	1974	IF ( wind_turbine ) THEN
	1975	CALL location_message( 'initializing wind turbine model', .FALSE. )
	1976	CALL wtm_init
	1977	CALL location_message( 'finished', .TRUE. )
	1978	ENDIF
[1496]	1979
[1914]	1980
[1496]	1981	!
[673]	1982	!-- Initialize the ws-scheme.
	1983	IF ( ws_scheme_sca .OR. ws_scheme_mom ) CALL ws_init
[1]	1984
	1985	!
[709]	1986	!-- Setting weighting factors for calculation of perturbation pressure
[1762]	1987	!-- and turbulent quantities from the RK substeps
[709]	1988	IF ( TRIM(timestep_scheme) == 'runge-kutta-3' ) THEN ! for RK3-method
	1989
[1322]	1990	weight_substep(1) = 1._wp/6._wp
	1991	weight_substep(2) = 3._wp/10._wp
	1992	weight_substep(3) = 8._wp/15._wp
[709]	1993
[1322]	1994	weight_pres(1) = 1._wp/3._wp
	1995	weight_pres(2) = 5._wp/12._wp
	1996	weight_pres(3) = 1._wp/4._wp
[709]	1997
	1998	ELSEIF ( TRIM(timestep_scheme) == 'runge-kutta-2' ) THEN ! for RK2-method
	1999
[1322]	2000	weight_substep(1) = 1._wp/2._wp
	2001	weight_substep(2) = 1._wp/2._wp
[673]	2002
[1322]	2003	weight_pres(1) = 1._wp/2._wp
	2004	weight_pres(2) = 1._wp/2._wp
[709]	2005
[1001]	2006	ELSE ! for Euler-method
[709]	2007
[1340]	2008	weight_substep(1) = 1.0_wp
	2009	weight_pres(1) = 1.0_wp
[709]	2010
[673]	2011	ENDIF
	2012
	2013	!
[1]	2014	!-- Initialize Rayleigh damping factors
[1340]	2015	rdf = 0.0_wp
	2016	rdf_sc = 0.0_wp
	2017	IF ( rayleigh_damping_factor /= 0.0_wp ) THEN
[1788]	2018	IF ( .NOT. ocean ) THEN
[108]	2019	DO k = nzb+1, nzt
	2020	IF ( zu(k) >= rayleigh_damping_height ) THEN
[1788]	2021	rdf(k) = rayleigh_damping_factor * &
[1340]	2022	( SIN( pi * 0.5_wp * ( zu(k) - rayleigh_damping_height ) &
[1788]	2023	/ ( zu(nzt) - rayleigh_damping_height ) ) &
[1]	2024	)**2
[108]	2025	ENDIF
	2026	ENDDO
	2027	ELSE
	2028	DO k = nzt, nzb+1, -1
	2029	IF ( zu(k) <= rayleigh_damping_height ) THEN
[1788]	2030	rdf(k) = rayleigh_damping_factor * &
[1340]	2031	( SIN( pi * 0.5_wp * ( rayleigh_damping_height - zu(k) ) &
[1788]	2032	/ ( rayleigh_damping_height - zu(nzb+1) ) ) &
[108]	2033	)**2
	2034	ENDIF
	2035	ENDDO
	2036	ENDIF
[1]	2037	ENDIF
[785]	2038	IF ( scalar_rayleigh_damping ) rdf_sc = rdf
[1]	2039
	2040	!
[240]	2041	!-- Initialize the starting level and the vertical smoothing factor used for
	2042	!-- the external pressure gradient
[1340]	2043	dp_smooth_factor = 1.0_wp
[240]	2044	IF ( dp_external ) THEN
	2045	!
	2046	!-- Set the starting level dp_level_ind_b only if it has not been set before
	2047	!-- (e.g. in init_grid).
	2048	IF ( dp_level_ind_b == 0 ) THEN
	2049	ind_array = MINLOC( ABS( dp_level_b - zu ) )
	2050	dp_level_ind_b = ind_array(1) - 1 + nzb
	2051	! MINLOC uses lower array bound 1
	2052	ENDIF
	2053	IF ( dp_smooth ) THEN
[1340]	2054	dp_smooth_factor(:dp_level_ind_b) = 0.0_wp
[240]	2055	DO k = dp_level_ind_b+1, nzt
[1340]	2056	dp_smooth_factor(k) = 0.5_wp * ( 1.0_wp + SIN( pi * &
	2057	( REAL( k - dp_level_ind_b, KIND=wp ) / &
	2058	REAL( nzt - dp_level_ind_b, KIND=wp ) - 0.5_wp ) ) )
[240]	2059	ENDDO
	2060	ENDIF
	2061	ENDIF
	2062
	2063	!
[978]	2064	!-- Initialize damping zone for the potential temperature in case of
	2065	!-- non-cyclic lateral boundaries. The damping zone has the maximum value
	2066	!-- at the inflow boundary and decreases to zero at pt_damping_width.
[1340]	2067	ptdf_x = 0.0_wp
	2068	ptdf_y = 0.0_wp
[1159]	2069	IF ( bc_lr_dirrad ) THEN
[996]	2070	DO i = nxl, nxr
[978]	2071	IF ( ( i * dx ) < pt_damping_width ) THEN
[1340]	2072	ptdf_x(i) = pt_damping_factor * ( SIN( pi * 0.5_wp * &
	2073	REAL( pt_damping_width - i * dx, KIND=wp ) / ( &
[1788]	2074	REAL( pt_damping_width, KIND=wp ) ) ) )**2
[73]	2075	ENDIF
	2076	ENDDO
[1159]	2077	ELSEIF ( bc_lr_raddir ) THEN
[996]	2078	DO i = nxl, nxr
[978]	2079	IF ( ( i * dx ) > ( nx * dx - pt_damping_width ) ) THEN
[1322]	2080	ptdf_x(i) = pt_damping_factor * &
[1340]	2081	SIN( pi * 0.5_wp * &
	2082	( ( i - nx ) * dx + pt_damping_width ) / &
	2083	REAL( pt_damping_width, KIND=wp ) )**2
[73]	2084	ENDIF
[978]	2085	ENDDO
[1159]	2086	ELSEIF ( bc_ns_dirrad ) THEN
[996]	2087	DO j = nys, nyn
[978]	2088	IF ( ( j * dy ) > ( ny * dy - pt_damping_width ) ) THEN
[1322]	2089	ptdf_y(j) = pt_damping_factor * &
[1340]	2090	SIN( pi * 0.5_wp * &
	2091	( ( j - ny ) * dy + pt_damping_width ) / &
	2092	REAL( pt_damping_width, KIND=wp ) )**2
[1]	2093	ENDIF
[978]	2094	ENDDO
[1159]	2095	ELSEIF ( bc_ns_raddir ) THEN
[996]	2096	DO j = nys, nyn
[978]	2097	IF ( ( j * dy ) < pt_damping_width ) THEN
[1322]	2098	ptdf_y(j) = pt_damping_factor * &
[1340]	2099	SIN( pi * 0.5_wp * &
	2100	( pt_damping_width - j * dy ) / &
	2101	REAL( pt_damping_width, KIND=wp ) )**2
[1]	2102	ENDIF
[73]	2103	ENDDO
[1]	2104	ENDIF
	2105
	2106	!
	2107	!-- Pre-set masks for regional statistics. Default is the total model domain.
[1015]	2108	!-- Ghost points are excluded because counting values at the ghost boundaries
	2109	!-- would bias the statistics
[1340]	2110	rmask = 1.0_wp
	2111	rmask(:,nxlg:nxl-1,:) = 0.0_wp; rmask(:,nxr+1:nxrg,:) = 0.0_wp
	2112	rmask(nysg:nys-1,:,:) = 0.0_wp; rmask(nyn+1:nyng,:,:) = 0.0_wp
[1]	2113
	2114	!
[51]	2115	!-- User-defined initializing actions. Check afterwards, if maximum number
[709]	2116	!-- of allowed timeseries is exceeded
[1]	2117	CALL user_init
	2118
[51]	2119	IF ( dots_num > dots_max ) THEN
[1788]	2120	WRITE( message_string, * ) 'number of time series quantities exceeds', &
	2121	' its maximum of dots_max = ', dots_max, &
[254]	2122	' &Please increase dots_max in modules.f90.'
	2123	CALL message( 'init_3d_model', 'PA0194', 1, 2, 0, 6, 0 )
[51]	2124	ENDIF
	2125
[1]	2126	!
	2127	!-- Input binary data file is not needed anymore. This line must be placed
	2128	!-- after call of user_init!
	2129	CALL close_file( 13 )
	2130
	2131	!
	2132	!-- Compute total sum of active mask grid points
[1738]	2133	!-- and the mean surface level height for each statistic region
[1]	2134	!-- ngp_2dh: number of grid points of a horizontal cross section through the
	2135	!-- total domain
	2136	!-- ngp_3d: number of grid points of the total domain
[132]	2137	ngp_2dh_outer_l = 0
	2138	ngp_2dh_outer = 0
	2139	ngp_2dh_s_inner_l = 0
	2140	ngp_2dh_s_inner = 0
	2141	ngp_2dh_l = 0
	2142	ngp_2dh = 0
[1340]	2143	ngp_3d_inner_l = 0.0_wp
[132]	2144	ngp_3d_inner = 0
	2145	ngp_3d = 0
	2146	ngp_sums = ( nz + 2 ) * ( pr_palm + max_pr_user )
[1]	2147
[1738]	2148	mean_surface_level_height = 0.0_wp
	2149	mean_surface_level_height_l = 0.0_wp
	2150
[2232]	2151	!
	2152	!-- To do: New concept for these non-topography grid points!
[1]	2153	DO sr = 0, statistic_regions
	2154	DO i = nxl, nxr
	2155	DO j = nys, nyn
[1340]	2156	IF ( rmask(j,i,sr) == 1.0_wp ) THEN
[1]	2157	!
	2158	!-- All xy-grid points
	2159	ngp_2dh_l(sr) = ngp_2dh_l(sr) + 1
	2160	!
[2232]	2161	!-- Determine mean surface-level height. In case of downward-
	2162	!-- facing walls are present, more than one surface level exist.
	2163	!-- In this case, use the lowest surface-level height.
	2164	IF ( surf_def_h(0)%start_index(j,i) <= &
	2165	surf_def_h(0)%end_index(j,i) ) THEN
	2166	m = surf_def_h(0)%start_index(j,i)
	2167	k = surf_def_h(0)%k(m)
	2168	mean_surface_level_height_l(sr) = &
	2169	mean_surface_level_height_l(sr) + zw(k-1)
	2170	ENDIF
	2171	IF ( surf_lsm_h%start_index(j,i) <= &
	2172	surf_lsm_h%end_index(j,i) ) THEN
	2173	m = surf_lsm_h%start_index(j,i)
	2174	k = surf_lsm_h%k(m)
	2175	mean_surface_level_height_l(sr) = &
	2176	mean_surface_level_height_l(sr) + zw(k-1)
	2177	ENDIF
	2178	IF ( surf_usm_h%start_index(j,i) <= &
	2179	surf_usm_h%end_index(j,i) ) THEN
	2180	m = surf_usm_h%start_index(j,i)
	2181	k = surf_usm_h%k(m)
	2182	mean_surface_level_height_l(sr) = &
	2183	mean_surface_level_height_l(sr) + zw(k-1)
	2184	ENDIF
	2185
	2186	k_surf = k - 1
	2187
	2188	DO k = nzb, nzt+1
	2189	!
	2190	!-- xy-grid points above topography
	2191	ngp_2dh_outer_l(k,sr) = ngp_2dh_outer_l(k,sr) + &
	2192	MERGE( 1, 0, BTEST( wall_flags_0(k,j,i), 24 ) )
	2193
	2194	ngp_2dh_s_inner_l(k,sr) = ngp_2dh_s_inner_l(k,sr) + &
	2195	MERGE( 1, 0, BTEST( wall_flags_0(k,j,i), 22 ) )
	2196
[1]	2197	ENDDO
	2198	!
	2199	!-- All grid points of the total domain above topography
[2232]	2200	ngp_3d_inner_l(sr) = ngp_3d_inner_l(sr) + ( nz - k_surf + 2 )
	2201
	2202
	2203
[1]	2204	ENDIF
	2205	ENDDO
	2206	ENDDO
	2207	ENDDO
	2208
	2209	sr = statistic_regions + 1
	2210	#if defined( __parallel )
[622]	2211	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2212	CALL MPI_ALLREDUCE( ngp_2dh_l(0), ngp_2dh(0), sr, MPI_INTEGER, MPI_SUM, &
[1]	2213	comm2d, ierr )
[622]	2214	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2215	CALL MPI_ALLREDUCE( ngp_2dh_outer_l(0,0), ngp_2dh_outer(0,0), (nz+2)*sr, &
[1]	2216	MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	2217	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2218	CALL MPI_ALLREDUCE( ngp_2dh_s_inner_l(0,0), ngp_2dh_s_inner(0,0), &
[132]	2219	(nz+2)*sr, MPI_INTEGER, MPI_SUM, comm2d, ierr )
[622]	2220	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2221	CALL MPI_ALLREDUCE( ngp_3d_inner_l(0), ngp_3d_inner_tmp(0), sr, MPI_REAL, &
[1]	2222	MPI_SUM, comm2d, ierr )
[485]	2223	ngp_3d_inner = INT( ngp_3d_inner_tmp, KIND = SELECTED_INT_KIND( 18 ) )
[1738]	2224	IF ( collective_wait ) CALL MPI_BARRIER( comm2d, ierr )
[1788]	2225	CALL MPI_ALLREDUCE( mean_surface_level_height_l(0), &
	2226	mean_surface_level_height(0), sr, MPI_REAL, &
[1738]	2227	MPI_SUM, comm2d, ierr )
	2228	mean_surface_level_height = mean_surface_level_height / REAL( ngp_2dh )
[1]	2229	#else
[132]	2230	ngp_2dh = ngp_2dh_l
	2231	ngp_2dh_outer = ngp_2dh_outer_l
	2232	ngp_2dh_s_inner = ngp_2dh_s_inner_l
[485]	2233	ngp_3d_inner = INT( ngp_3d_inner_l, KIND = SELECTED_INT_KIND( 18 ) )
[1738]	2234	mean_surface_level_height = mean_surface_level_height_l / REAL( ngp_2dh_l )
[1]	2235	#endif
	2236
[560]	2237	ngp_3d = INT ( ngp_2dh, KIND = SELECTED_INT_KIND( 18 ) ) * &
	2238	INT ( (nz + 2 ), KIND = SELECTED_INT_KIND( 18 ) )
[1]	2239
	2240	!
	2241	!-- Set a lower limit of 1 in order to avoid zero divisions in flow_statistics,
	2242	!-- buoyancy, etc. A zero value will occur for cases where all grid points of
	2243	!-- the respective subdomain lie below the surface topography
[667]	2244	ngp_2dh_outer = MAX( 1, ngp_2dh_outer(:,:) )
[1788]	2245	ngp_3d_inner = MAX( INT(1, KIND = SELECTED_INT_KIND( 18 )), &
[631]	2246	ngp_3d_inner(:) )
[667]	2247	ngp_2dh_s_inner = MAX( 1, ngp_2dh_s_inner(:,:) )
[1]	2248
[1788]	2249	DEALLOCATE( mean_surface_level_height_l, ngp_2dh_l, ngp_2dh_outer_l, &
[1738]	2250	ngp_3d_inner_l, ngp_3d_inner_tmp )
[1]	2251
[1402]	2252	CALL location_message( 'leaving init_3d_model', .TRUE. )
[1]	2253
	2254	END SUBROUTINE init_3d_model

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