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diaobs.F90 in branches/UKMO/dev_r5518_obs_oper_update_SlaAssim/NEMOGCM/NEMO/OPA_SRC/OBS – NEMO

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source: branches/UKMO/dev_r5518_obs_oper_update_SlaAssim/NEMOGCM/NEMO/OPA_SRC/OBS/diaobs.F90 @ 12035

Last change on this file since 12035 was 12035, checked in by kingr, 4 years ago
Added option to remove tides from SLA by taking average over 24h50m.
File size: 95.8 KB

Line
1	MODULE diaobs
2	!!======================================================================
3	!! * MODULE diaobs *
4	!! Observation diagnostics: Computation of the misfit between data and
5	!! their model equivalent
6	!!======================================================================
7
8	!!----------------------------------------------------------------------
9	!! dia_obs_init : Reading and prepare observations
10	!! dia_obs : Compute model equivalent to observations
11	!! dia_obs_wri : Write observational diagnostics
12	!! ini_date : Compute the initial date YYYYMMDD.HHMMSS
13	!! fin_date : Compute the final date YYYYMMDD.HHMMSS
14	!!----------------------------------------------------------------------
15	!! * Modules used
16	USE wrk_nemo ! Memory Allocation
17	USE par_kind ! Precision variables
18	USE in_out_manager ! I/O manager
19	USE par_oce
20	USE dom_oce ! Ocean space and time domain variables
21	USE obs_read_prof ! Reading and allocation of profile obs
22	USE obs_read_surf ! Reading and allocation of surface obs
23	USE obs_readmdt ! Reading and allocation of MDT for SLA.
24	USE obs_prep ! Preparation of obs. (grid search etc).
25	USE obs_oper ! Observation operators
26	USE obs_write ! Writing of observation related diagnostics
27	USE obs_grid ! Grid searching
28	USE obs_read_altbias ! Bias treatment for altimeter
29	USE obs_sstbias ! Bias correction routine for SST
30	USE obs_profiles_def ! Profile data definitions
31	USE obs_surf_def ! Surface data definitions
32	USE obs_types ! Definitions for observation types
33	USE mpp_map ! MPP mapping
34	USE lib_mpp ! For ctl_warn/stop
35	USE tradmp ! For climatological temperature & salinity
36
37	IMPLICIT NONE
38
39	!! * Routine accessibility
40	PRIVATE
41	PUBLIC dia_obs_init, & ! Initialize and read observations
42	& dia_obs, & ! Compute model equivalent to observations
43	& dia_obs_wri, & ! Write model equivalent to observations
44	& dia_obs_dealloc ! Deallocate dia_obs data
45
46	!! * Module variables
47	LOGICAL, PUBLIC :: &
48	& lk_diaobs = .TRUE. !: Include this for backwards compatibility at NEMO 3.6.
49	LOGICAL :: ln_diaobs !: Logical switch for the obs operator
50	LOGICAL :: ln_sstnight !: Logical switch for night mean SST obs
51	LOGICAL :: ln_default_fp_indegs !: T=> Default obs footprint size specified in degrees, F=> in metres
52	LOGICAL :: ln_sla_fp_indegs !: T=> SLA obs footprint size specified in degrees, F=> in metres
53	LOGICAL :: ln_sst_fp_indegs !: T=> SST obs footprint size specified in degrees, F=> in metres
54	LOGICAL :: ln_sss_fp_indegs !: T=> SSS obs footprint size specified in degrees, F=> in metres
55	LOGICAL :: ln_sic_fp_indegs !: T=> sea-ice obs footprint size specified in degrees, F=> in metres
56	LOGICAL :: ln_output_clim !: Logical switch for interpolating and writing T/S climatology
57	LOGICAL :: ln_time_mean_sla_bkg !: Logical switch for applying time mean of SLA background to remove tidal signal
58
59	REAL(wp) :: rn_default_avglamscl !: Default E/W diameter of observation footprint
60	REAL(wp) :: rn_default_avgphiscl !: Default N/S diameter of observation footprint
61	REAL(wp) :: rn_sla_avglamscl !: E/W diameter of SLA observation footprint
62	REAL(wp) :: rn_sla_avgphiscl !: N/S diameter of SLA observation footprint
63	REAL(wp) :: rn_sst_avglamscl !: E/W diameter of SST observation footprint
64	REAL(wp) :: rn_sst_avgphiscl !: N/S diameter of SST observation footprint
65	REAL(wp) :: rn_sss_avglamscl !: E/W diameter of SSS observation footprint
66	REAL(wp) :: rn_sss_avgphiscl !: N/S diameter of SSS observation footprint
67	REAL(wp) :: rn_sic_avglamscl !: E/W diameter of sea-ice observation footprint
68	REAL(wp) :: rn_sic_avgphiscl !: N/S diameter of sea-ice observation footprint
69	REAL(wp), PUBLIC :: &
70	& MeanPeriodHours = 24. + (5./6.) !: Meaning period for surface data.
71
72
73	INTEGER :: nn_1dint !: Vertical interpolation method
74	INTEGER :: nn_2dint_default !: Default horizontal interpolation method
75	INTEGER :: nn_2dint_sla !: SLA horizontal interpolation method (-1 = default)
76	INTEGER :: nn_2dint_sst !: SST horizontal interpolation method (-1 = default)
77	INTEGER :: nn_2dint_sss !: SSS horizontal interpolation method (-1 = default)
78	INTEGER :: nn_2dint_sic !: Seaice horizontal interpolation method (-1 = default)
79
80	INTEGER, DIMENSION(imaxavtypes) :: &
81	& nn_profdavtypes !: Profile data types representing a daily average
82	INTEGER :: nproftypes !: Number of profile obs types
83	INTEGER :: nsurftypes !: Number of surface obs types
84	INTEGER, DIMENSION(:), ALLOCATABLE :: &
85	& nvarsprof, & !: Number of profile variables
86	& nvarssurf !: Number of surface variables
87	INTEGER, DIMENSION(:), ALLOCATABLE :: &
88	& nextrprof, & !: Number of profile extra variables
89	& nextrsurf !: Number of surface extra variables
90	INTEGER, DIMENSION(:), ALLOCATABLE :: &
91	& n2dintsurf !: Interpolation option for surface variables
92	REAL(wp), DIMENSION(:), ALLOCATABLE :: &
93	& ravglamscl, & !: E/W diameter of averaging footprint for surface variables
94	& ravgphiscl !: N/S diameter of averaging footprint for surface variables
95	LOGICAL, DIMENSION(:), ALLOCATABLE :: &
96	& lfpindegs, & !: T=> surface obs footprint size specified in degrees, F=> in metres
97	& llnightav !: Logical for calculating night-time averages
98
99	TYPE(obs_surf), PUBLIC, POINTER, DIMENSION(:) :: &
100	& surfdata, & !: Initial surface data
101	& surfdataqc !: Surface data after quality control
102	TYPE(obs_prof), PUBLIC, POINTER, DIMENSION(:) :: &
103	& profdata, & !: Initial profile data
104	& profdataqc !: Profile data after quality control
105
106	CHARACTER(len=8), PUBLIC, DIMENSION(:), ALLOCATABLE :: &
107	& cobstypesprof, & !: Profile obs types
108	& cobstypessurf !: Surface obs types
109
110	!!----------------------------------------------------------------------
111	!! NEMO/OPA 3.3 , NEMO Consortium (2010)
112	!! $Id$
113	!! Software governed by the CeCILL licence (NEMOGCM/NEMO_CeCILL.txt)
114	!!----------------------------------------------------------------------
115
116	!! * Substitutions
117	# include "domzgr_substitute.h90"
118	CONTAINS
119
120	SUBROUTINE dia_obs_init
121	!!----------------------------------------------------------------------
122	!! * ROUTINE dia_obs_init *
123	!!
124	!! ** Purpose : Initialize and read observations
125	!!
126	!! ** Method : Read the namelist and call reading routines
127	!!
128	!! ** Action : Read the namelist and call reading routines
129	!!
130	!! History :
131	!! ! 06-03 (K. Mogensen) Original code
132	!! ! 06-05 (A. Weaver) Reformatted
133	!! ! 06-10 (A. Weaver) Cleaning and add controls
134	!! ! 07-03 (K. Mogensen) General handling of profiles
135	!! ! 14-08 (J.While) Incorporated SST bias correction
136	!! ! 15-02 (M. Martin) Simplification of namelist and code
137	!!----------------------------------------------------------------------
138
139	IMPLICIT NONE
140
141	!! * Local declarations
142	INTEGER, PARAMETER :: &
143	& jpmaxnfiles = 1000 ! Maximum number of files for each obs type
144	INTEGER, DIMENSION(:), ALLOCATABLE :: &
145	& ifilesprof, & ! Number of profile files
146	& ifilessurf ! Number of surface files
147	INTEGER :: ios ! Local integer output status for namelist read
148	INTEGER :: jtype ! Counter for obs types
149	INTEGER :: jvar ! Counter for variables
150	INTEGER :: jfile ! Counter for files
151	INTEGER :: jnumsstbias ! Number of SST bias files to read and apply
152	INTEGER :: n2dint_type ! Local version of nn_2dint*
153
154	CHARACTER(len=128), DIMENSION(jpmaxnfiles) :: &
155	& cn_profbfiles, & ! T/S profile input filenames
156	& cn_sstfbfiles, & ! Sea surface temperature input filenames
157	& cn_slafbfiles, & ! Sea level anomaly input filenames
158	& cn_sicfbfiles, & ! Seaice concentration input filenames
159	& cn_velfbfiles, & ! Velocity profile input filenames
160	& cn_sssfbfiles, & ! Sea surface salinity input filenames
161	& cn_slchltotfbfiles, & ! Surface total log10(chlorophyll) input filenames
162	& cn_slchldiafbfiles, & ! Surface diatom log10(chlorophyll) input filenames
163	& cn_slchlnonfbfiles, & ! Surface non-diatom log10(chlorophyll) input filenames
164	& cn_slchldinfbfiles, & ! Surface dinoflagellate log10(chlorophyll) input filenames
165	& cn_slchlmicfbfiles, & ! Surface microphytoplankton log10(chlorophyll) input filenames
166	& cn_slchlnanfbfiles, & ! Surface nanophytoplankton log10(chlorophyll) input filenames
167	& cn_slchlpicfbfiles, & ! Surface picophytoplankton log10(chlorophyll) input filenames
168	& cn_schltotfbfiles, & ! Surface total chlorophyll input filenames
169	& cn_slphytotfbfiles, & ! Surface total log10(phytoplankton carbon) input filenames
170	& cn_slphydiafbfiles, & ! Surface diatom log10(phytoplankton carbon) input filenames
171	& cn_slphynonfbfiles, & ! Surface non-diatom log10(phytoplankton carbon) input filenames
172	& cn_sspmfbfiles, & ! Surface suspended particulate matter input filenames
173	& cn_skd490fbfiles, & ! Surface Kd490 input filenames
174	& cn_sfco2fbfiles, & ! Surface fugacity of carbon dioxide input filenames
175	& cn_spco2fbfiles, & ! Surface partial pressure of carbon dioxide input filenames
176	& cn_plchltotfbfiles, & ! Profile total log10(chlorophyll) input filenames
177	& cn_pchltotfbfiles, & ! Profile total chlorophyll input filenames
178	& cn_pno3fbfiles, & ! Profile nitrate input filenames
179	& cn_psi4fbfiles, & ! Profile silicate input filenames
180	& cn_ppo4fbfiles, & ! Profile phosphate input filenames
181	& cn_pdicfbfiles, & ! Profile dissolved inorganic carbon input filenames
182	& cn_palkfbfiles, & ! Profile alkalinity input filenames
183	& cn_pphfbfiles, & ! Profile pH input filenames
184	& cn_po2fbfiles, & ! Profile dissolved oxygen input filenames
185	& cn_sstbiasfiles ! SST bias input filenames
186
187	CHARACTER(LEN=128) :: &
188	& cn_altbiasfile ! Altimeter bias input filename
189
190
191	LOGICAL :: ln_t3d ! Logical switch for temperature profiles
192	LOGICAL :: ln_s3d ! Logical switch for salinity profiles
193	LOGICAL :: ln_sla ! Logical switch for sea level anomalies
194	LOGICAL :: ln_sst ! Logical switch for sea surface temperature
195	LOGICAL :: ln_sic ! Logical switch for sea ice concentration
196	LOGICAL :: ln_sss ! Logical switch for sea surface salinity obs
197	LOGICAL :: ln_vel3d ! Logical switch for velocity (u,v) obs
198	LOGICAL :: ln_slchltot ! Logical switch for surface total log10(chlorophyll) obs
199	LOGICAL :: ln_slchldia ! Logical switch for surface diatom log10(chlorophyll) obs
200	LOGICAL :: ln_slchlnon ! Logical switch for surface non-diatom log10(chlorophyll) obs
201	LOGICAL :: ln_slchldin ! Logical switch for surface dinoflagellate log10(chlorophyll) obs
202	LOGICAL :: ln_slchlmic ! Logical switch for surface microphytoplankton log10(chlorophyll) obs
203	LOGICAL :: ln_slchlnan ! Logical switch for surface nanophytoplankton log10(chlorophyll) obs
204	LOGICAL :: ln_slchlpic ! Logical switch for surface picophytoplankton log10(chlorophyll) obs
205	LOGICAL :: ln_schltot ! Logical switch for surface total chlorophyll obs
206	LOGICAL :: ln_slphytot ! Logical switch for surface total log10(phytoplankton carbon) obs
207	LOGICAL :: ln_slphydia ! Logical switch for surface diatom log10(phytoplankton carbon) obs
208	LOGICAL :: ln_slphynon ! Logical switch for surface non-diatom log10(phytoplankton carbon) obs
209	LOGICAL :: ln_sspm ! Logical switch for surface suspended particulate matter obs
210	LOGICAL :: ln_skd490 ! Logical switch for surface Kd490
211	LOGICAL :: ln_sfco2 ! Logical switch for surface fugacity of carbon dioxide obs
212	LOGICAL :: ln_spco2 ! Logical switch for surface partial pressure of carbon dioxide obs
213	LOGICAL :: ln_plchltot ! Logical switch for profile total log10(chlorophyll) obs
214	LOGICAL :: ln_pchltot ! Logical switch for profile total chlorophyll obs
215	LOGICAL :: ln_pno3 ! Logical switch for profile nitrate obs
216	LOGICAL :: ln_psi4 ! Logical switch for profile silicate obs
217	LOGICAL :: ln_ppo4 ! Logical switch for profile phosphate obs
218	LOGICAL :: ln_pdic ! Logical switch for profile dissolved inorganic carbon obs
219	LOGICAL :: ln_palk ! Logical switch for profile alkalinity obs
220	LOGICAL :: ln_pph ! Logical switch for profile pH obs
221	LOGICAL :: ln_po2 ! Logical switch for profile dissolved oxygen obs
222	LOGICAL :: ln_nea ! Logical switch to remove obs near land
223	LOGICAL :: ln_altbias ! Logical switch for altimeter bias
224	LOGICAL :: ln_sstbias ! Logical switch for bias correction of SST
225	LOGICAL :: ln_ignmis ! Logical switch for ignoring missing files
226	LOGICAL :: ln_s_at_t ! Logical switch to compute model S at T obs
227	LOGICAL :: ln_bound_reject ! Logical switch for rejecting obs near the boundary
228
229	REAL(dp) :: rn_dobsini ! Obs window start date YYYYMMDD.HHMMSS
230	REAL(dp) :: rn_dobsend ! Obs window end date YYYYMMDD.HHMMSS
231
232	REAL(wp) :: ztype_avglamscl ! Local version of rn_*_avglamscl
233	REAL(wp) :: ztype_avgphiscl ! Local version of rn_*_avgphiscl
234
235	CHARACTER(len=128), DIMENSION(:,:), ALLOCATABLE :: &
236	& clproffiles, & ! Profile filenames
237	& clsurffiles ! Surface filenames
238	CHARACTER(len=8), DIMENSION(:), ALLOCATABLE :: clvars ! Expected variable names
239
240	LOGICAL, DIMENSION(:), ALLOCATABLE :: llvar ! Logical for profile variable read
241	LOGICAL :: ltype_fp_indegs ! Local version of ln_*_fp_indegs
242	LOGICAL :: ltype_night ! Local version of ln_sstnight (false for other variables)
243	LOGICAL :: ltype_clim ! Local version of ln_output_clim
244
245
246	REAL(wp), POINTER, DIMENSION(:,:,:) :: &
247	& zglam ! Model longitudes for profile variables
248	REAL(wp), POINTER, DIMENSION(:,:,:) :: &
249	& zgphi ! Model latitudes for profile variables
250	REAL(wp), POINTER, DIMENSION(:,:,:,:) :: &
251	& zmask ! Model land/sea mask associated with variables
252
253
254	NAMELIST/namobs/ln_diaobs, ln_t3d, ln_s3d, ln_sla, &
255	& ln_sst, ln_sic, ln_sss, ln_vel3d, &
256	& ln_slchltot, ln_slchldia, ln_slchlnon, &
257	& ln_slchldin, ln_slchlmic, ln_slchlnan, &
258	& ln_slchlpic, ln_schltot, &
259	& ln_slphytot, ln_slphydia, ln_slphynon, &
260	& ln_sspm, ln_sfco2, ln_spco2, &
261	& ln_skd490, &
262	& ln_plchltot, ln_pchltot, ln_pno3, &
263	& ln_psi4, ln_ppo4, ln_pdic, &
264	& ln_palk, ln_pph, ln_po2, &
265	& ln_altbias, ln_sstbias, ln_nea, &
266	& ln_grid_global, ln_grid_search_lookup, &
267	& ln_ignmis, ln_s_at_t, ln_bound_reject, &
268	& ln_sstnight, ln_output_clim, &
269	& ln_time_mean_sla_bkg, ln_default_fp_indegs, &
270	& ln_sla_fp_indegs, ln_sst_fp_indegs, &
271	& ln_sss_fp_indegs, ln_sic_fp_indegs, &
272	& cn_profbfiles, cn_slafbfiles, &
273	& cn_sstfbfiles, cn_sicfbfiles, &
274	& cn_velfbfiles, cn_sssfbfiles, &
275	& cn_slchltotfbfiles, cn_slchldiafbfiles, &
276	& cn_slchlnonfbfiles, cn_slchldinfbfiles, &
277	& cn_slchlmicfbfiles, cn_slchlnanfbfiles, &
278	& cn_slchlpicfbfiles, cn_schltotfbfiles, &
279	& cn_slphytotfbfiles, cn_slphydiafbfiles, &
280	& cn_slphynonfbfiles, cn_sspmfbfiles, &
281	& cn_skd490fbfiles, &
282	& cn_sfco2fbfiles, cn_spco2fbfiles, &
283	& cn_plchltotfbfiles, cn_pchltotfbfiles, &
284	& cn_pno3fbfiles, cn_psi4fbfiles, cn_ppo4fbfiles, &
285	& cn_pdicfbfiles, cn_palkfbfiles, cn_pphfbfiles, &
286	& cn_po2fbfiles, &
287	& cn_sstbiasfiles, cn_altbiasfile, &
288	& cn_gridsearchfile, rn_gridsearchres, &
289	& rn_dobsini, rn_dobsend, &
290	& rn_default_avglamscl, rn_default_avgphiscl, &
291	& rn_sla_avglamscl, rn_sla_avgphiscl, &
292	& rn_sst_avglamscl, rn_sst_avgphiscl, &
293	& rn_sss_avglamscl, rn_sss_avgphiscl, &
294	& rn_sic_avglamscl, rn_sic_avgphiscl, &
295	& nn_1dint, nn_2dint_default, &
296	& nn_2dint_sla, nn_2dint_sst, &
297	& nn_2dint_sss, nn_2dint_sic, &
298	& nn_msshc, rn_mdtcorr, rn_mdtcutoff, &
299	& nn_profdavtypes
300
301	!-----------------------------------------------------------------------
302	! Read namelist parameters
303	!-----------------------------------------------------------------------
304
305	! Some namelist arrays need initialising
306	cn_profbfiles(:) = ''
307	cn_slafbfiles(:) = ''
308	cn_sstfbfiles(:) = ''
309	cn_sicfbfiles(:) = ''
310	cn_velfbfiles(:) = ''
311	cn_sssfbfiles(:) = ''
312	cn_slchltotfbfiles(:) = ''
313	cn_slchldiafbfiles(:) = ''
314	cn_slchlnonfbfiles(:) = ''
315	cn_slchldinfbfiles(:) = ''
316	cn_slchlmicfbfiles(:) = ''
317	cn_slchlnanfbfiles(:) = ''
318	cn_slchlpicfbfiles(:) = ''
319	cn_schltotfbfiles(:) = ''
320	cn_slphytotfbfiles(:) = ''
321	cn_slphydiafbfiles(:) = ''
322	cn_slphynonfbfiles(:) = ''
323	cn_sspmfbfiles(:) = ''
324	cn_skd490fbfiles(:) = ''
325	cn_sfco2fbfiles(:) = ''
326	cn_spco2fbfiles(:) = ''
327	cn_plchltotfbfiles(:) = ''
328	cn_pchltotfbfiles(:) = ''
329	cn_pno3fbfiles(:) = ''
330	cn_psi4fbfiles(:) = ''
331	cn_ppo4fbfiles(:) = ''
332	cn_pdicfbfiles(:) = ''
333	cn_palkfbfiles(:) = ''
334	cn_pphfbfiles(:) = ''
335	cn_po2fbfiles(:) = ''
336	cn_sstbiasfiles(:) = ''
337	nn_profdavtypes(:) = -1
338
339	CALL ini_date( rn_dobsini )
340	CALL fin_date( rn_dobsend )
341
342	! Read namelist namobs : control observation diagnostics
343	REWIND( numnam_ref ) ! Namelist namobs in reference namelist
344	READ ( numnam_ref, namobs, IOSTAT = ios, ERR = 901)
345	901 IF( ios /= 0 ) CALL ctl_nam ( ios , 'namobs in reference namelist', lwp )
346
347	REWIND( numnam_cfg ) ! Namelist namobs in configuration namelist
348	READ ( numnam_cfg, namobs, IOSTAT = ios, ERR = 902 )
349	902 IF( ios /= 0 ) CALL ctl_nam ( ios , 'namobs in configuration namelist', lwp )
350	IF(lwm) WRITE ( numond, namobs )
351
352	lk_diaobs = .FALSE.
353	#if defined key_diaobs
354	IF ( ln_diaobs ) lk_diaobs = .TRUE.
355	#endif
356
357	IF ( .NOT. lk_diaobs ) THEN
358	IF(lwp) WRITE(numout,cform_war)
359	IF(lwp) WRITE(numout,*)' ln_diaobs is set to false or key_diaobs is not set, so not calling dia_obs'
360	RETURN
361	ENDIF
362
363	IF(lwp) THEN
364	WRITE(numout,*)
365	WRITE(numout,*) 'dia_obs_init : Observation diagnostic initialization'
366	WRITE(numout,*) '~~~~~~~~~~~~'
367	WRITE(numout,*) ' Namelist namobs : set observation diagnostic parameters'
368	WRITE(numout,*) ' Logical switch for T profile observations ln_t3d = ', ln_t3d
369	WRITE(numout,*) ' Logical switch for S profile observations ln_s3d = ', ln_s3d
370	WRITE(numout,*) ' Logical switch for SLA observations ln_sla = ', ln_sla
371	WRITE(numout,*) ' Logical switch for SST observations ln_sst = ', ln_sst
372	WRITE(numout,*) ' Logical switch for Sea Ice observations ln_sic = ', ln_sic
373	WRITE(numout,*) ' Logical switch for velocity observations ln_vel3d = ', ln_vel3d
374	WRITE(numout,*) ' Logical switch for SSS observations ln_sss = ', ln_sss
375	WRITE(numout,*) ' Logical switch for surface total logchl obs ln_slchltot = ', ln_slchltot
376	WRITE(numout,*) ' Logical switch for surface diatom logchl obs ln_slchldia = ', ln_slchldia
377	WRITE(numout,*) ' Logical switch for surface non-diatom logchl obs ln_slchlnon = ', ln_slchlnon
378	WRITE(numout,*) ' Logical switch for surface dino logchl obs ln_slchldin = ', ln_slchldin
379	WRITE(numout,*) ' Logical switch for surface micro logchl obs ln_slchlmic = ', ln_slchlmic
380	WRITE(numout,*) ' Logical switch for surface nano logchl obs ln_slchlnan = ', ln_slchlnan
381	WRITE(numout,*) ' Logical switch for surface pico logchl obs ln_slchlpic = ', ln_slchlpic
382	WRITE(numout,*) ' Logical switch for surface total chl obs ln_schltot = ', ln_schltot
383	WRITE(numout,*) ' Logical switch for surface total log(phyC) obs ln_slphytot = ', ln_slphytot
384	WRITE(numout,*) ' Logical switch for surface diatom log(phyC) obs ln_slphydia = ', ln_slphydia
385	WRITE(numout,*) ' Logical switch for surface non-diatom log(phyC) obs ln_slphynon = ', ln_slphynon
386	WRITE(numout,*) ' Logical switch for surface SPM observations ln_sspm = ', ln_sspm
387	WRITE(numout,*) ' Logical switch for surface Kd490 observations ln_skd490 = ', ln_skd490
388	WRITE(numout,*) ' Logical switch for surface fCO2 observations ln_sfco2 = ', ln_sfco2
389	WRITE(numout,*) ' Logical switch for surface pCO2 observations ln_spco2 = ', ln_spco2
390	WRITE(numout,*) ' Logical switch for profile total logchl obs ln_plchltot = ', ln_plchltot
391	WRITE(numout,*) ' Logical switch for profile total chl obs ln_pchltot = ', ln_pchltot
392	WRITE(numout,*) ' Logical switch for profile nitrate obs ln_pno3 = ', ln_pno3
393	WRITE(numout,*) ' Logical switch for profile silicate obs ln_psi4 = ', ln_psi4
394	WRITE(numout,*) ' Logical switch for profile phosphate obs ln_ppo4 = ', ln_ppo4
395	WRITE(numout,*) ' Logical switch for profile DIC obs ln_pdic = ', ln_pdic
396	WRITE(numout,*) ' Logical switch for profile alkalinity obs ln_palk = ', ln_palk
397	WRITE(numout,*) ' Logical switch for profile pH obs ln_pph = ', ln_pph
398	WRITE(numout,*) ' Logical switch for profile oxygen obs ln_po2 = ', ln_po2
399	WRITE(numout,*) ' Global distribution of observations ln_grid_global = ', ln_grid_global
400	WRITE(numout,*) ' Logical switch for obs grid search lookup ln_grid_search_lookup = ', ln_grid_search_lookup
401	IF (ln_grid_search_lookup) &
402	WRITE(numout,*) ' Grid search lookup file header cn_gridsearchfile = ', cn_gridsearchfile
403	WRITE(numout,*) ' Initial date in window YYYYMMDD.HHMMSS rn_dobsini = ', rn_dobsini
404	WRITE(numout,*) ' Final date in window YYYYMMDD.HHMMSS rn_dobsend = ', rn_dobsend
405	WRITE(numout,*) ' Type of vertical interpolation method nn_1dint = ', nn_1dint
406	WRITE(numout,*) ' Default horizontal interpolation method nn_2dint_default = ', nn_2dint_default
407	WRITE(numout,*) ' Type of horizontal interpolation method for SLA nn_2dint_sla = ', nn_2dint_sla
408	WRITE(numout,*) ' Type of horizontal interpolation method for SST nn_2dint_sst = ', nn_2dint_sst
409	WRITE(numout,*) ' Type of horizontal interpolation method for SSS nn_2dint_sss = ', nn_2dint_sss
410	WRITE(numout,*) ' Type of horizontal interpolation method for SIC nn_2dint_sic = ', nn_2dint_sic
411	WRITE(numout,*) ' Default E/W diameter of obs footprint rn_default_avglamscl = ', rn_default_avglamscl
412	WRITE(numout,*) ' Default N/S diameter of obs footprint rn_default_avgphiscl = ', rn_default_avgphiscl
413	WRITE(numout,*) ' Default obs footprint in deg [T] or m [F] ln_default_fp_indegs = ', ln_default_fp_indegs
414	WRITE(numout,*) ' SLA E/W diameter of obs footprint rn_sla_avglamscl = ', rn_sla_avglamscl
415	WRITE(numout,*) ' SLA N/S diameter of obs footprint rn_sla_avgphiscl = ', rn_sla_avgphiscl
416	WRITE(numout,*) ' SLA obs footprint in deg [T] or m [F] ln_sla_fp_indegs = ', ln_sla_fp_indegs
417	WRITE(numout,*) ' SST E/W diameter of obs footprint rn_sst_avglamscl = ', rn_sst_avglamscl
418	WRITE(numout,*) ' SST N/S diameter of obs footprint rn_sst_avgphiscl = ', rn_sst_avgphiscl
419	WRITE(numout,*) ' SST obs footprint in deg [T] or m [F] ln_sst_fp_indegs = ', ln_sst_fp_indegs
420	WRITE(numout,*) ' SIC E/W diameter of obs footprint rn_sic_avglamscl = ', rn_sic_avglamscl
421	WRITE(numout,*) ' SIC N/S diameter of obs footprint rn_sic_avgphiscl = ', rn_sic_avgphiscl
422	WRITE(numout,*) ' SIC obs footprint in deg [T] or m [F] ln_sic_fp_indegs = ', ln_sic_fp_indegs
423	WRITE(numout,*) ' Rejection of observations near land switch ln_nea = ', ln_nea
424	WRITE(numout,*) ' Rejection of obs near open bdys ln_bound_reject = ', ln_bound_reject
425	WRITE(numout,*) ' MSSH correction scheme nn_msshc = ', nn_msshc
426	WRITE(numout,*) ' MDT correction rn_mdtcorr = ', rn_mdtcorr
427	WRITE(numout,*) ' MDT cutoff for computed correction rn_mdtcutoff = ', rn_mdtcutoff
428	WRITE(numout,*) ' Logical switch for alt bias ln_altbias = ', ln_altbias
429	WRITE(numout,*) ' Logical switch for sst bias ln_sstbias = ', ln_sstbias
430	WRITE(numout,*) ' Logical switch for ignoring missing files ln_ignmis = ', ln_ignmis
431	WRITE(numout,*) ' Daily average types nn_profdavtypes = ', nn_profdavtypes
432	WRITE(numout,*) ' Logical switch for night-time SST obs ln_sstnight = ', ln_sstnight
433	WRITE(numout,*) ' Logical switch for writing climat. at obs points ln_output_clim = ', ln_output_clim
434	WRITE(numout,*) ' Logical switch for time-mean of SLA ln_time_mean_sla_bkg = ', ln_time_mean_sla_bkg
435	ENDIF
436	!-----------------------------------------------------------------------
437	! Set up list of observation types to be used
438	! and the files associated with each type
439	!-----------------------------------------------------------------------
440
441	nproftypes = COUNT( (/ln_t3d .OR. ln_s3d, ln_vel3d, ln_plchltot, &
442	& ln_pchltot, ln_pno3, ln_psi4, ln_ppo4, &
443	& ln_pdic, ln_palk, ln_pph, ln_po2 /) )
444	nsurftypes = COUNT( (/ln_sla, ln_sst, ln_sic, ln_sss, &
445	& ln_slchltot, ln_slchldia, ln_slchlnon, ln_slchldin, &
446	& ln_slchlmic, ln_slchlnan, ln_slchlpic, ln_schltot, &
447	& ln_slphytot, ln_slphydia, ln_slphynon, ln_sspm, &
448	& ln_skd490, ln_sfco2, ln_spco2 /) )
449
450	IF ( nproftypes == 0 .AND. nsurftypes == 0 ) THEN
451	IF(lwp) WRITE(numout,cform_war)
452	IF(lwp) WRITE(numout,*) ' ln_diaobs is set to true, but all obs operator logical flags', &
453	& ' are set to .FALSE. so turning off calls to dia_obs'
454	nwarn = nwarn + 1
455	lk_diaobs = .FALSE.
456	RETURN
457	ENDIF
458
459	IF ( ln_output_clim .AND. ( .NOT. ln_tradmp ) ) THEN
460	IF(lwp) WRITE(numout,cform_war)
461	IF(lwp) WRITE(numout,*) ' ln_output_clim is true, but ln_tradmp is false', &
462	& ' so climatological T/S not available and will not be output'
463	nwarn = nwarn + 1
464	ln_output_clim = .FALSE.
465	ENDIF
466
467
468	IF(lwp) WRITE(numout,*) ' Number of profile obs types: ',nproftypes
469	IF ( nproftypes > 0 ) THEN
470
471	ALLOCATE( cobstypesprof(nproftypes) )
472	ALLOCATE( ifilesprof(nproftypes) )
473	ALLOCATE( clproffiles(nproftypes,jpmaxnfiles) )
474
475	jtype = 0
476	IF (ln_t3d .OR. ln_s3d) THEN
477	jtype = jtype + 1
478	cobstypesprof(jtype) = 'prof'
479	clproffiles(jtype,:) = cn_profbfiles
480	ENDIF
481	IF (ln_vel3d) THEN
482	jtype = jtype + 1
483	cobstypesprof(jtype) = 'vel'
484	clproffiles(jtype,:) = cn_velfbfiles
485	ENDIF
486	IF (ln_plchltot) THEN
487	jtype = jtype + 1
488	cobstypesprof(jtype) = 'plchltot'
489	clproffiles(jtype,:) = cn_plchltotfbfiles
490	ENDIF
491	IF (ln_pchltot) THEN
492	jtype = jtype + 1
493	cobstypesprof(jtype) = 'pchltot'
494	clproffiles(jtype,:) = cn_pchltotfbfiles
495	ENDIF
496	IF (ln_pno3) THEN
497	jtype = jtype + 1
498	cobstypesprof(jtype) = 'pno3'
499	clproffiles(jtype,:) = cn_pno3fbfiles
500	ENDIF
501	IF (ln_psi4) THEN
502	jtype = jtype + 1
503	cobstypesprof(jtype) = 'psi4'
504	clproffiles(jtype,:) = cn_psi4fbfiles
505	ENDIF
506	IF (ln_ppo4) THEN
507	jtype = jtype + 1
508	cobstypesprof(jtype) = 'ppo4'
509	clproffiles(jtype,:) = cn_ppo4fbfiles
510	ENDIF
511	IF (ln_pdic) THEN
512	jtype = jtype + 1
513	cobstypesprof(jtype) = 'pdic'
514	clproffiles(jtype,:) = cn_pdicfbfiles
515	ENDIF
516	IF (ln_palk) THEN
517	jtype = jtype + 1
518	cobstypesprof(jtype) = 'palk'
519	clproffiles(jtype,:) = cn_palkfbfiles
520	ENDIF
521	IF (ln_pph) THEN
522	jtype = jtype + 1
523	cobstypesprof(jtype) = 'pph'
524	clproffiles(jtype,:) = cn_pphfbfiles
525	ENDIF
526	IF (ln_po2) THEN
527	jtype = jtype + 1
528	cobstypesprof(jtype) = 'po2'
529	clproffiles(jtype,:) = cn_po2fbfiles
530	ENDIF
531
532	CALL obs_settypefiles( nproftypes, jpmaxnfiles, ifilesprof, cobstypesprof, clproffiles )
533
534	ENDIF
535
536	IF(lwp) WRITE(numout,*)' Number of surface obs types: ',nsurftypes
537	IF ( nsurftypes > 0 ) THEN
538
539	ALLOCATE( cobstypessurf(nsurftypes) )
540	ALLOCATE( ifilessurf(nsurftypes) )
541	ALLOCATE( clsurffiles(nsurftypes, jpmaxnfiles) )
542	ALLOCATE(n2dintsurf(nsurftypes))
543	ALLOCATE(ravglamscl(nsurftypes))
544	ALLOCATE(ravgphiscl(nsurftypes))
545	ALLOCATE(lfpindegs(nsurftypes))
546	ALLOCATE(llnightav(nsurftypes))
547
548	jtype = 0
549	IF (ln_sla) THEN
550	jtype = jtype + 1
551	cobstypessurf(jtype) = 'sla'
552	clsurffiles(jtype,:) = cn_slafbfiles
553	ENDIF
554	IF (ln_sst) THEN
555	jtype = jtype + 1
556	cobstypessurf(jtype) = 'sst'
557	clsurffiles(jtype,:) = cn_sstfbfiles
558	ENDIF
559	IF (ln_sic) THEN
560	jtype = jtype + 1
561	cobstypessurf(jtype) = 'sic'
562	clsurffiles(jtype,:) = cn_sicfbfiles
563	ENDIF
564	IF (ln_sss) THEN
565	jtype = jtype + 1
566	cobstypessurf(jtype) = 'sss'
567	clsurffiles(jtype,:) = cn_sssfbfiles
568	ENDIF
569	IF (ln_slchltot) THEN
570	jtype = jtype + 1
571	cobstypessurf(jtype) = 'slchltot'
572	clsurffiles(jtype,:) = cn_slchltotfbfiles
573	ENDIF
574	IF (ln_slchldia) THEN
575	jtype = jtype + 1
576	cobstypessurf(jtype) = 'slchldia'
577	clsurffiles(jtype,:) = cn_slchldiafbfiles
578	ENDIF
579	IF (ln_slchlnon) THEN
580	jtype = jtype + 1
581	cobstypessurf(jtype) = 'slchlnon'
582	clsurffiles(jtype,:) = cn_slchlnonfbfiles
583	ENDIF
584	IF (ln_slchldin) THEN
585	jtype = jtype + 1
586	cobstypessurf(jtype) = 'slchldin'
587	clsurffiles(jtype,:) = cn_slchldinfbfiles
588	ENDIF
589	IF (ln_slchlmic) THEN
590	jtype = jtype + 1
591	cobstypessurf(jtype) = 'slchlmic'
592	clsurffiles(jtype,:) = cn_slchlmicfbfiles
593	ENDIF
594	IF (ln_slchlnan) THEN
595	jtype = jtype + 1
596	cobstypessurf(jtype) = 'slchlnan'
597	clsurffiles(jtype,:) = cn_slchlnanfbfiles
598	ENDIF
599	IF (ln_slchlpic) THEN
600	jtype = jtype + 1
601	cobstypessurf(jtype) = 'slchlpic'
602	clsurffiles(jtype,:) = cn_slchlpicfbfiles
603	ENDIF
604	IF (ln_schltot) THEN
605	jtype = jtype + 1
606	cobstypessurf(jtype) = 'schltot'
607	clsurffiles(jtype,:) = cn_schltotfbfiles
608	ENDIF
609	IF (ln_slphytot) THEN
610	jtype = jtype + 1
611	cobstypessurf(jtype) = 'slphytot'
612	clsurffiles(jtype,:) = cn_slphytotfbfiles
613	ENDIF
614	IF (ln_slphydia) THEN
615	jtype = jtype + 1
616	cobstypessurf(jtype) = 'slphydia'
617	clsurffiles(jtype,:) = cn_slphydiafbfiles
618	ENDIF
619	IF (ln_slphynon) THEN
620	jtype = jtype + 1
621	cobstypessurf(jtype) = 'slphynon'
622	clsurffiles(jtype,:) = cn_slphynonfbfiles
623	ENDIF
624	IF (ln_sspm) THEN
625	jtype = jtype + 1
626	cobstypessurf(jtype) = 'sspm'
627	clsurffiles(jtype,:) = cn_sspmfbfiles
628	ENDIF
629	IF (ln_skd490) THEN
630	jtype = jtype + 1
631	cobstypessurf(jtype) = 'skd490'
632	clsurffiles(jtype,:) = cn_skd490fbfiles
633	ENDIF
634	IF (ln_sfco2) THEN
635	jtype = jtype + 1
636	cobstypessurf(jtype) = 'sfco2'
637	clsurffiles(jtype,:) = cn_sfco2fbfiles
638	ENDIF
639	IF (ln_spco2) THEN
640	jtype = jtype + 1
641	cobstypessurf(jtype) = 'spco2'
642	clsurffiles(jtype,:) = cn_spco2fbfiles
643	ENDIF
644
645	CALL obs_settypefiles( nsurftypes, jpmaxnfiles, ifilessurf, cobstypessurf, clsurffiles )
646
647	DO jtype = 1, nsurftypes
648
649	IF ( TRIM(cobstypessurf(jtype)) == 'sla' ) THEN
650	IF ( nn_2dint_sla == -1 ) THEN
651	n2dint_type = nn_2dint_default
652	ELSE
653	n2dint_type = nn_2dint_sla
654	ENDIF
655	ztype_avglamscl = rn_sla_avglamscl
656	ztype_avgphiscl = rn_sla_avgphiscl
657	ltype_fp_indegs = ln_sla_fp_indegs
658	ltype_night = .FALSE.
659	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sst' ) THEN
660	IF ( nn_2dint_sst == -1 ) THEN
661	n2dint_type = nn_2dint_default
662	ELSE
663	n2dint_type = nn_2dint_sst
664	ENDIF
665	ztype_avglamscl = rn_sst_avglamscl
666	ztype_avgphiscl = rn_sst_avgphiscl
667	ltype_fp_indegs = ln_sst_fp_indegs
668	ltype_night = ln_sstnight
669	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sic' ) THEN
670	IF ( nn_2dint_sic == -1 ) THEN
671	n2dint_type = nn_2dint_default
672	ELSE
673	n2dint_type = nn_2dint_sic
674	ENDIF
675	ztype_avglamscl = rn_sic_avglamscl
676	ztype_avgphiscl = rn_sic_avgphiscl
677	ltype_fp_indegs = ln_sic_fp_indegs
678	ltype_night = .FALSE.
679	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sss' ) THEN
680	IF ( nn_2dint_sss == -1 ) THEN
681	n2dint_type = nn_2dint_default
682	ELSE
683	n2dint_type = nn_2dint_sss
684	ENDIF
685	ztype_avglamscl = rn_sss_avglamscl
686	ztype_avgphiscl = rn_sss_avgphiscl
687	ltype_fp_indegs = ln_sss_fp_indegs
688	ltype_night = .FALSE.
689	ELSE
690	n2dint_type = nn_2dint_default
691	ztype_avglamscl = rn_default_avglamscl
692	ztype_avgphiscl = rn_default_avgphiscl
693	ltype_fp_indegs = ln_default_fp_indegs
694	ltype_night = .FALSE.
695	ENDIF
696
697	CALL obs_setinterpopts( nsurftypes, jtype, TRIM(cobstypessurf(jtype)), &
698	& nn_2dint_default, n2dint_type, &
699	& ztype_avglamscl, ztype_avgphiscl, &
700	& ltype_fp_indegs, ltype_night, &
701	& n2dintsurf, ravglamscl, ravgphiscl, &
702	& lfpindegs, llnightav )
703
704	END DO
705
706	ENDIF
707
708	IF(lwp) WRITE(numout,*) '~~~~~~~~~~~~'
709
710
711	!-----------------------------------------------------------------------
712	! Obs operator parameter checking and initialisations
713	!-----------------------------------------------------------------------
714
715	IF ( ln_vel3d .AND. ( .NOT. ln_grid_global ) ) THEN
716	CALL ctl_stop( 'Velocity data only works with ln_grid_global=.true.' )
717	RETURN
718	ENDIF
719
720	IF ( ( nn_1dint < 0 ) .OR. ( nn_1dint > 1 ) ) THEN
721	CALL ctl_stop(' Choice of vertical (1D) interpolation method', &
722	& ' is not available')
723	ENDIF
724
725	IF ( ( nn_2dint_default < 0 ) .OR. ( nn_2dint_default > 6 ) ) THEN
726	CALL ctl_stop(' Choice of default horizontal (2D) interpolation method', &
727	& ' is not available')
728	ENDIF
729
730	CALL obs_typ_init
731
732	CALL mppmap_init
733
734	CALL obs_grid_setup( )
735
736	!-----------------------------------------------------------------------
737	! Depending on switches read the various observation types
738	!-----------------------------------------------------------------------
739
740	IF ( nproftypes > 0 ) THEN
741
742	ALLOCATE(profdata(nproftypes))
743	ALLOCATE(profdataqc(nproftypes))
744	ALLOCATE(nvarsprof(nproftypes))
745	ALLOCATE(nextrprof(nproftypes))
746
747	DO jtype = 1, nproftypes
748
749	ltype_clim = .FALSE.
750
751	IF ( TRIM(cobstypesprof(jtype)) == 'prof' ) THEN
752	nvarsprof(jtype) = 2
753	nextrprof(jtype) = 1
754	IF ( ln_output_clim ) ltype_clim = .TRUE.
755	ALLOCATE(llvar(nvarsprof(jtype)))
756	ALLOCATE(clvars(nvarsprof(jtype)))
757	CALL wrk_alloc( jpi, jpj, nvarsprof(jtype), zglam )
758	CALL wrk_alloc( jpi, jpj, nvarsprof(jtype), zgphi )
759	CALL wrk_alloc( jpi, jpj, jpk, nvarsprof(jtype), zmask )
760	llvar(1) = ln_t3d
761	llvar(2) = ln_s3d
762	clvars(1) = 'POTM'
763	clvars(2) = 'PSAL'
764	zglam(:,:,1) = glamt(:,:)
765	zglam(:,:,2) = glamt(:,:)
766	zgphi(:,:,1) = gphit(:,:)
767	zgphi(:,:,2) = gphit(:,:)
768	zmask(:,:,:,1) = tmask(:,:,:)
769	zmask(:,:,:,2) = tmask(:,:,:)
770	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'vel' ) THEN
771	nvarsprof(jtype) = 2
772	nextrprof(jtype) = 2
773	ALLOCATE(llvar(nvarsprof(jtype)))
774	ALLOCATE(clvars(nvarsprof(jtype)))
775	CALL wrk_alloc( jpi, jpj, nvarsprof(jtype), zglam )
776	CALL wrk_alloc( jpi, jpj, nvarsprof(jtype), zgphi )
777	CALL wrk_alloc( jpi, jpj, jpk, nvarsprof(jtype), zmask )
778	llvar(1) = ln_vel3d
779	llvar(2) = ln_vel3d
780	clvars(1) = 'UVEL'
781	clvars(2) = 'VVEL'
782	zglam(:,:,1) = glamu(:,:)
783	zglam(:,:,2) = glamv(:,:)
784	zgphi(:,:,1) = gphiu(:,:)
785	zgphi(:,:,2) = gphiv(:,:)
786	zmask(:,:,:,1) = umask(:,:,:)
787	zmask(:,:,:,2) = vmask(:,:,:)
788	ELSE
789	nvarsprof(jtype) = 1
790	nextrprof(jtype) = 0
791	ALLOCATE(llvar(nvarsprof(jtype)))
792	ALLOCATE(clvars(nvarsprof(jtype)))
793	CALL wrk_alloc( jpi, jpj, nvarsprof(jtype), zglam )
794	CALL wrk_alloc( jpi, jpj, nvarsprof(jtype), zgphi )
795	CALL wrk_alloc( jpi, jpj, jpk, nvarsprof(jtype), zmask )
796	llvar(1) = .TRUE.
797	zglam(:,:,1) = glamt(:,:)
798	zgphi(:,:,1) = gphit(:,:)
799	zmask(:,:,:,1) = tmask(:,:,:)
800	IF ( TRIM(cobstypesprof(jtype)) == 'plchltot' ) THEN
801	clvars(1) = 'PLCHLTOT'
802	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'pchltot' ) THEN
803	clvars(1) = 'PCHLTOT'
804	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'pno3' ) THEN
805	clvars(1) = 'PNO3'
806	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'psi4' ) THEN
807	clvars(1) = 'PSI4'
808	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'ppo4' ) THEN
809	clvars(1) = 'PPO4'
810	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'pdic' ) THEN
811	clvars(1) = 'PDIC'
812	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'palk' ) THEN
813	clvars(1) = 'PALK'
814	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'pph' ) THEN
815	clvars(1) = 'PPH'
816	ELSE IF ( TRIM(cobstypesprof(jtype)) == 'po2' ) THEN
817	clvars(1) = 'PO2'
818	ENDIF
819	ENDIF
820
821	!Read in profile or profile obs types
822	CALL obs_rea_prof( profdata(jtype), ifilesprof(jtype), &
823	& clproffiles(jtype,1:ifilesprof(jtype)), &
824	& nvarsprof(jtype), nextrprof(jtype), nitend-nit000+2, &
825	& rn_dobsini, rn_dobsend, llvar, &
826	& ln_ignmis, ln_s_at_t, .FALSE., ltype_clim, clvars, &
827	& kdailyavtypes = nn_profdavtypes )
828
829	DO jvar = 1, nvarsprof(jtype)
830	CALL obs_prof_staend( profdata(jtype), jvar )
831	END DO
832
833	CALL obs_pre_prof( profdata(jtype), profdataqc(jtype), &
834	& llvar, &
835	& jpi, jpj, jpk, &
836	& zmask, zglam, zgphi, &
837	& ln_nea, ln_bound_reject, &
838	& kdailyavtypes = nn_profdavtypes )
839
840	DEALLOCATE( llvar, clvars )
841	CALL wrk_dealloc( jpi, jpj, nvarsprof(jtype), zglam )
842	CALL wrk_dealloc( jpi, jpj, nvarsprof(jtype), zgphi )
843	CALL wrk_dealloc( jpi, jpj, jpk, nvarsprof(jtype), zmask )
844
845	END DO
846
847	DEALLOCATE( ifilesprof, clproffiles )
848
849	ENDIF
850
851	IF ( nsurftypes > 0 ) THEN
852
853	ALLOCATE(surfdata(nsurftypes))
854	ALLOCATE(surfdataqc(nsurftypes))
855	ALLOCATE(nvarssurf(nsurftypes))
856	ALLOCATE(nextrsurf(nsurftypes))
857
858	DO jtype = 1, nsurftypes
859
860	ltype_clim = .FALSE.
861	IF ( ln_output_clim .AND. &
862	& ( ( TRIM(cobstypessurf(jtype)) == 'sst' ) .OR. &
863	& ( TRIM(cobstypessurf(jtype)) == 'sss' ) ) ) &
864	& ltype_clim = .TRUE.
865
866	IF ( TRIM(cobstypessurf(jtype)) == 'sla' ) THEN
867	nvarssurf(jtype) = 1
868	nextrsurf(jtype) = 2
869	ELSE
870	nvarssurf(jtype) = 1
871	nextrsurf(jtype) = 0
872	ENDIF
873
874	ALLOCATE( clvars( nvarssurf(jtype) ) )
875
876	IF ( TRIM(cobstypessurf(jtype)) == 'sla' ) THEN
877	clvars(1) = 'SLA'
878	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sst' ) THEN
879	clvars(1) = 'SST'
880	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sic' ) THEN
881	clvars(1) = 'ICECONC'
882	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sss' ) THEN
883	clvars(1) = 'SSS'
884	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchltot' ) THEN
885	clvars(1) = 'SLCHLTOT'
886	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchldia' ) THEN
887	clvars(1) = 'SLCHLDIA'
888	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchlnon' ) THEN
889	clvars(1) = 'SLCHLNON'
890	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchldin' ) THEN
891	clvars(1) = 'SLCHLDIN'
892	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchlmic' ) THEN
893	clvars(1) = 'SLCHLMIC'
894	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchlnan' ) THEN
895	clvars(1) = 'SLCHLNAN'
896	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slchlpic' ) THEN
897	clvars(1) = 'SLCHLPIC'
898	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'schltot' ) THEN
899	clvars(1) = 'SCHLTOT'
900	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slphytot' ) THEN
901	clvars(1) = 'SLPHYTOT'
902	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slphydia' ) THEN
903	clvars(1) = 'SLPHYDIA'
904	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'slphynon' ) THEN
905	clvars(1) = 'SLPHYNON'
906	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sspm' ) THEN
907	clvars(1) = 'SSPM'
908	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'skd490' ) THEN
909	clvars(1) = 'SKD490'
910	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'sfco2' ) THEN
911	clvars(1) = 'SFCO2'
912	ELSE IF ( TRIM(cobstypessurf(jtype)) == 'spco2' ) THEN
913	clvars(1) = 'SPCO2'
914	ENDIF
915
916	!Read in surface obs types
917	CALL obs_rea_surf( surfdata(jtype), ifilessurf(jtype), &
918	& clsurffiles(jtype,1:ifilessurf(jtype)), &
919	& nvarssurf(jtype), nextrsurf(jtype), nitend-nit000+2, &
920	& rn_dobsini, rn_dobsend, MeanPeriodHours, ln_ignmis, .FALSE., &
921	& llnightav(jtype), ltype_clim, clvars )
922
923	CALL obs_pre_surf( surfdata(jtype), surfdataqc(jtype), ln_nea, ln_bound_reject )
924
925	IF ( TRIM(cobstypessurf(jtype)) == 'sla' ) THEN
926	CALL obs_rea_mdt( surfdataqc(jtype), n2dintsurf(jtype) )
927	IF ( ln_altbias ) &
928	& CALL obs_rea_altbias ( surfdataqc(jtype), n2dintsurf(jtype), cn_altbiasfile )
929	ENDIF
930
931	IF ( TRIM(cobstypessurf(jtype)) == 'sst' .AND. ln_sstbias ) THEN
932	jnumsstbias = 0
933	DO jfile = 1, jpmaxnfiles
934	IF ( TRIM(cn_sstbiasfiles(jfile)) /= '' ) &
935	& jnumsstbias = jnumsstbias + 1
936	END DO
937	IF ( jnumsstbias == 0 ) THEN
938	CALL ctl_stop("ln_sstbias set but no bias files to read in")
939	ENDIF
940
941	CALL obs_app_sstbias( surfdataqc(jtype), n2dintsurf(jtype), &
942	& jnumsstbias, cn_sstbiasfiles(1:jnumsstbias) )
943
944	ENDIF
945
946	DEALLOCATE( clvars )
947
948	END DO
949
950	DEALLOCATE( ifilessurf, clsurffiles )
951
952	ENDIF
953
954	END SUBROUTINE dia_obs_init
955
956	SUBROUTINE dia_obs( kstp )
957	!!----------------------------------------------------------------------
958	!! * ROUTINE dia_obs *
959	!!
960	!! ** Purpose : Call the observation operators on each time step
961	!!
962	!! ** Method : Call the observation operators on each time step to
963	!! compute the model equivalent of the following data:
964	!! - Profile data, currently T/S or U/V
965	!! - Surface data, currently SST, SLA or sea-ice concentration.
966	!!
967	!! ** Action :
968	!!
969	!! History :
970	!! ! 06-03 (K. Mogensen) Original code
971	!! ! 06-05 (K. Mogensen) Reformatted
972	!! ! 06-10 (A. Weaver) Cleaning
973	!! ! 07-03 (K. Mogensen) General handling of profiles
974	!! ! 07-04 (G. Smith) Generalized surface operators
975	!! ! 08-10 (M. Valdivieso) obs operator for velocity profiles
976	!! ! 15-08 (M. Martin) Combined surface/profile routines.
977	!!----------------------------------------------------------------------
978	!! * Modules used
979	USE phycst, ONLY : & ! Physical constants
980	#if defined key_fabm
981	& rt0, &
982	#endif
983	& rday
984	USE oce, ONLY : & ! Ocean dynamics and tracers variables
985	& tsn, &
986	& un, &
987	& vn, &
988	& sshn
989	#if defined key_lim3
990	USE ice, ONLY : & ! LIM3 Ice model variables
991	& frld
992	#endif
993	#if defined key_lim2
994	USE ice_2, ONLY : & ! LIM2 Ice model variables
995	& frld
996	#endif
997	#if defined key_cice
998	USE sbc_oce, ONLY : fr_i ! ice fraction
999	#endif
1000	#if defined key_top
1001	USE trc, ONLY : & ! Biogeochemical state variables
1002	& trn
1003	#endif
1004	#if defined key_hadocc
1005	USE par_hadocc ! HadOCC parameters
1006	USE trc, ONLY : &
1007	& HADOCC_CHL, &
1008	& HADOCC_FCO2, &
1009	& HADOCC_PCO2, &
1010	& HADOCC_FILL_FLT
1011	USE had_bgc_const, ONLY: c2n_p
1012	#elif defined key_medusa
1013	USE par_medusa ! MEDUSA parameters
1014	USE sms_medusa, ONLY: &
1015	& xthetapn, &
1016	& xthetapd
1017	#if defined key_roam
1018	USE sms_medusa, ONLY: &
1019	& f2_pco2w, &
1020	& f2_fco2w, &
1021	& f3_pH
1022	#endif
1023	#elif defined key_fabm
1024	USE par_fabm ! FABM parameters
1025	USE fabm, ONLY: &
1026	& fabm_get_interior_diagnostic_data
1027	#endif
1028	#if defined key_spm
1029	USE par_spm, ONLY: & ! Sediment parameters
1030	& jp_spm
1031	#endif
1032
1033	IMPLICIT NONE
1034
1035	!! * Arguments
1036	INTEGER, INTENT(IN) :: kstp ! Current timestep
1037	!! * Local declarations
1038	INTEGER :: idaystp ! Number of timesteps per day
1039	INTEGER :: imeanstp ! Number of timesteps for sla averaging
1040	INTEGER :: jtype ! Data loop variable
1041	INTEGER :: jvar ! Variable number
1042	INTEGER :: ji, jj, jk ! Loop counters
1043	REAL(wp) :: tiny ! small number
1044	REAL(wp), POINTER, DIMENSION(:,:,:,:) :: &
1045	& zprofvar, & ! Model values for variables in a prof ob
1046	& zprofclim ! Climatology values for variables in a prof ob
1047	REAL(wp), POINTER, DIMENSION(:,:,:,:) :: &
1048	& zprofmask ! Mask associated with zprofvar
1049	REAL(wp), POINTER, DIMENSION(:,:) :: &
1050	& zsurfvar, & ! Model values equivalent to surface ob.
1051	& zsurfclim, & ! Climatology values for variables in a surface ob.
1052	& zsurfmask ! Mask associated with surface variable
1053	REAL(wp), POINTER, DIMENSION(:,:,:) :: &
1054	& zglam, & ! Model longitudes for prof variables
1055	& zgphi ! Model latitudes for prof variables
1056	LOGICAL :: llog10 ! Perform log10 transform of variable
1057	#if defined key_fabm
1058	REAL(wp), POINTER, DIMENSION(:,:,:) :: &
1059	& fabm_3d ! 3D variable from FABM
1060	#endif
1061
1062	IF(lwp) THEN
1063	WRITE(numout,*)
1064	WRITE(numout,*) 'dia_obs : Call the observation operators', kstp
1065	WRITE(numout,*) '~~~~~~~'
1066	CALL FLUSH(numout)
1067	ENDIF
1068
1069	idaystp = NINT( rday / rdt )
1070
1071	!-----------------------------------------------------------------------
1072	! Call the profile and surface observation operators
1073	!-----------------------------------------------------------------------
1074
1075	IF ( nproftypes > 0 ) THEN
1076
1077	DO jtype = 1, nproftypes
1078
1079	! Allocate local work arrays
1080	CALL wrk_alloc( jpi, jpj, jpk, profdataqc(jtype)%nvar, zprofvar )
1081	CALL wrk_alloc( jpi, jpj, jpk, profdataqc(jtype)%nvar, zprofmask )
1082	CALL wrk_alloc( jpi, jpj, profdataqc(jtype)%nvar, zglam )
1083	CALL wrk_alloc( jpi, jpj, profdataqc(jtype)%nvar, zgphi )
1084	CALL wrk_alloc( jpi, jpj, jpk, profdataqc(jtype)%nvar, zprofclim )
1085
1086	! Defaults which might change
1087	DO jvar = 1, profdataqc(jtype)%nvar
1088	zprofmask(:,:,:,jvar) = tmask(:,:,:)
1089	zglam(:,:,jvar) = glamt(:,:)
1090	zgphi(:,:,jvar) = gphit(:,:)
1091	zprofclim(:,:,:,jvar) = 0._wp
1092	END DO
1093
1094	SELECT CASE ( TRIM(cobstypesprof(jtype)) )
1095
1096	CASE('prof')
1097	zprofvar(:,:,:,1) = tsn(:,:,:,jp_tem)
1098	zprofvar(:,:,:,2) = tsn(:,:,:,jp_sal)
1099	IF ( ln_output_clim ) THEN
1100	zprofclim(:,:,:,1) = tclim(:,:,:)
1101	zprofclim(:,:,:,2) = sclim(:,:,:)
1102	ENDIF
1103
1104	CASE('vel')
1105	zprofvar(:,:,:,1) = un(:,:,:)
1106	zprofvar(:,:,:,2) = vn(:,:,:)
1107	zprofmask(:,:,:,1) = umask(:,:,:)
1108	zprofmask(:,:,:,2) = vmask(:,:,:)
1109	zglam(:,:,1) = glamu(:,:)
1110	zglam(:,:,2) = glamv(:,:)
1111	zgphi(:,:,1) = gphiu(:,:)
1112	zgphi(:,:,2) = gphiv(:,:)
1113
1114	CASE('plchltot')
1115	#if defined key_hadocc
1116	! Chlorophyll from HadOCC
1117	zprofvar(:,:,:,1) = HADOCC_CHL(:,:,:)
1118	#elif defined key_medusa
1119	! Add non-diatom and diatom chlorophyll from MEDUSA
1120	zprofvar(:,:,:,1) = trn(:,:,:,jpchn) + trn(:,:,:,jpchd)
1121	#elif defined key_fabm
1122	! Add all chlorophyll groups from ERSEM
1123	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_chl1) + trn(:,:,:,jp_fabm_m1+jp_fabm_chl2) + &
1124	& trn(:,:,:,jp_fabm_m1+jp_fabm_chl3) + trn(:,:,:,jp_fabm_m1+jp_fabm_chl4)
1125	#else
1126	CALL ctl_stop( ' Trying to run plchltot observation operator', &
1127	& ' but no biogeochemical model appears to have been defined' )
1128	#endif
1129	! Take the log10 where we can, otherwise exclude
1130	tiny = 1.0e-20
1131	WHERE(zprofvar(:,:,:,:) > tiny .AND. zprofvar(:,:,:,:) /= obfillflt )
1132	zprofvar(:,:,:,:) = LOG10(zprofvar(:,:,:,:))
1133	ELSEWHERE
1134	zprofvar(:,:,:,:) = obfillflt
1135	zprofmask(:,:,:,:) = 0
1136	END WHERE
1137	! Mask out model below any excluded values,
1138	! to avoid interpolation issues
1139	DO jvar = 1, profdataqc(jtype)%nvar
1140	DO jj = 1, jpj
1141	DO ji = 1, jpi
1142	depth_loop: DO jk = 1, jpk
1143	IF ( zprofmask(ji,jj,jk,jvar) == 0 ) THEN
1144	zprofmask(ji,jj,jk:jpk,jvar) = 0
1145	EXIT depth_loop
1146	ENDIF
1147	END DO depth_loop
1148	END DO
1149	END DO
1150	END DO
1151
1152	CASE('pchltot')
1153	#if defined key_hadocc
1154	! Chlorophyll from HadOCC
1155	zprofvar(:,:,:,1) = HADOCC_CHL(:,:,:)
1156	#elif defined key_medusa
1157	! Add non-diatom and diatom chlorophyll from MEDUSA
1158	zprofvar(:,:,:,1) = trn(:,:,:,jpchn) + trn(:,:,:,jpchd)
1159	#elif defined key_fabm
1160	! Add all chlorophyll groups from ERSEM
1161	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_chl1) + trn(:,:,:,jp_fabm_m1+jp_fabm_chl2) + &
1162	& trn(:,:,:,jp_fabm_m1+jp_fabm_chl3) + trn(:,:,:,jp_fabm_m1+jp_fabm_chl4)
1163	#else
1164	CALL ctl_stop( ' Trying to run pchltot observation operator', &
1165	& ' but no biogeochemical model appears to have been defined' )
1166	#endif
1167
1168	CASE('pno3')
1169	#if defined key_hadocc
1170	! Dissolved inorganic nitrogen from HadOCC
1171	zprofvar(:,:,:,1) = trn(:,:,:,jp_had_nut)
1172	#elif defined key_medusa
1173	! Dissolved inorganic nitrogen from MEDUSA
1174	zprofvar(:,:,:,1) = trn(:,:,:,jpdin)
1175	#elif defined key_fabm
1176	! Nitrate from ERSEM
1177	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_n3n)
1178	#else
1179	CALL ctl_stop( ' Trying to run pno3 observation operator', &
1180	& ' but no biogeochemical model appears to have been defined' )
1181	#endif
1182
1183	CASE('psi4')
1184	#if defined key_hadocc
1185	CALL ctl_stop( ' Trying to run psi4 observation operator', &
1186	& ' but HadOCC does not simulate silicate' )
1187	#elif defined key_medusa
1188	! Silicate from MEDUSA
1189	zprofvar(:,:,:,1) = trn(:,:,:,jpsil)
1190	#elif defined key_fabm
1191	! Silicate from ERSEM
1192	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_n5s)
1193	#else
1194	CALL ctl_stop( ' Trying to run psi4 observation operator', &
1195	& ' but no biogeochemical model appears to have been defined' )
1196	#endif
1197
1198	CASE('ppo4')
1199	#if defined key_hadocc
1200	CALL ctl_stop( ' Trying to run ppo4 observation operator', &
1201	& ' but HadOCC does not simulate phosphate' )
1202	#elif defined key_medusa
1203	CALL ctl_stop( ' Trying to run ppo4 observation operator', &
1204	& ' but MEDUSA does not simulate phosphate' )
1205	#elif defined key_fabm
1206	! Phosphate from ERSEM
1207	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_n1p)
1208	#else
1209	CALL ctl_stop( ' Trying to run ppo4 observation operator', &
1210	& ' but no biogeochemical model appears to have been defined' )
1211	#endif
1212
1213	CASE('pdic')
1214	#if defined key_hadocc
1215	! Dissolved inorganic carbon from HadOCC
1216	zprofvar(:,:,:,1) = trn(:,:,:,jp_had_dic)
1217	#elif defined key_medusa
1218	! Dissolved inorganic carbon from MEDUSA
1219	zprofvar(:,:,:,1) = trn(:,:,:,jpdic)
1220	#elif defined key_fabm
1221	! Dissolved inorganic carbon from ERSEM
1222	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_o3c)
1223	#else
1224	CALL ctl_stop( ' Trying to run pdic observation operator', &
1225	& ' but no biogeochemical model appears to have been defined' )
1226	#endif
1227
1228	CASE('palk')
1229	#if defined key_hadocc
1230	! Alkalinity from HadOCC
1231	zprofvar(:,:,:,1) = trn(:,:,:,jp_had_alk)
1232	#elif defined key_medusa
1233	! Alkalinity from MEDUSA
1234	zprofvar(:,:,:,1) = trn(:,:,:,jpalk)
1235	#elif defined key_fabm
1236	! Alkalinity from ERSEM
1237	zprofvar(:,:,:,1) = fabm_get_interior_diagnostic_data(model, jp_fabm_o3ta)
1238	#else
1239	CALL ctl_stop( ' Trying to run palk observation operator', &
1240	& ' but no biogeochemical model appears to have been defined' )
1241	#endif
1242
1243	CASE('pph')
1244	#if defined key_hadocc
1245	CALL ctl_stop( ' Trying to run pph observation operator', &
1246	& ' but HadOCC has no pH diagnostic defined' )
1247	#elif defined key_medusa && defined key_roam
1248	! pH from MEDUSA
1249	zprofvar(:,:,:,1) = f3_pH(:,:,:)
1250	#elif defined key_fabm
1251	! pH from ERSEM
1252	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_o3ph)
1253	#else
1254	CALL ctl_stop( ' Trying to run pph observation operator', &
1255	& ' but no biogeochemical model appears to have been defined' )
1256	#endif
1257
1258	CASE('po2')
1259	#if defined key_hadocc
1260	CALL ctl_stop( ' Trying to run po2 observation operator', &
1261	& ' but HadOCC does not simulate oxygen' )
1262	#elif defined key_medusa
1263	! Oxygen from MEDUSA
1264	zprofvar(:,:,:,1) = trn(:,:,:,jpoxy)
1265	#elif defined key_fabm
1266	! Oxygen from ERSEM
1267	zprofvar(:,:,:,1) = trn(:,:,:,jp_fabm_m1+jp_fabm_o2o)
1268	#else
1269	CALL ctl_stop( ' Trying to run po2 observation operator', &
1270	& ' but no biogeochemical model appears to have been defined' )
1271	#endif
1272
1273	CASE DEFAULT
1274	CALL ctl_stop( 'Unknown profile observation type '//TRIM(cobstypesprof(jtype))//' in dia_obs' )
1275
1276	END SELECT
1277
1278	DO jvar = 1, profdataqc(jtype)%nvar
1279	CALL obs_prof_opt( profdataqc(jtype), kstp, jpi, jpj, jpk, &
1280	& nit000, idaystp, jvar, &
1281	& zprofvar(:,:,:,jvar), &
1282	& zprofclim(:,:,:,jvar), &
1283	& fsdept(:,:,:), fsdepw(:,:,:), &
1284	& zprofmask(:,:,:,jvar), &
1285	& zglam(:,:,jvar), zgphi(:,:,jvar), &
1286	& nn_1dint, nn_2dint_default, &
1287	& kdailyavtypes = nn_profdavtypes )
1288	END DO
1289
1290	CALL wrk_dealloc( jpi, jpj, jpk, profdataqc(jtype)%nvar, zprofvar )
1291	CALL wrk_dealloc( jpi, jpj, jpk, profdataqc(jtype)%nvar, zprofmask )
1292	CALL wrk_dealloc( jpi, jpj, profdataqc(jtype)%nvar, zglam )
1293	CALL wrk_dealloc( jpi, jpj, profdataqc(jtype)%nvar, zgphi )
1294	CALL wrk_dealloc( jpi, jpj, jpk, profdataqc(jtype)%nvar, zprofclim )
1295
1296	END DO
1297
1298	ENDIF
1299
1300	IF ( nsurftypes > 0 ) THEN
1301
1302	!Allocate local work arrays
1303	CALL wrk_alloc( jpi, jpj, zsurfvar )
1304	CALL wrk_alloc( jpi, jpj, zsurfclim )
1305	CALL wrk_alloc( jpi, jpj, zsurfmask )
1306	#if defined key_fabm
1307	CALL wrk_alloc( jpi, jpj, jpk, fabm_3d )
1308	#endif
1309
1310	DO jtype = 1, nsurftypes
1311
1312	!Defaults which might be changed
1313	zsurfmask(:,:) = tmask(:,:,1)
1314	zsurfclim(:,:) = 0._wp
1315	llog10 = .FALSE.
1316
1317	SELECT CASE ( TRIM(cobstypessurf(jtype)) )
1318	CASE('sst')
1319	zsurfvar(:,:) = tsn(:,:,1,jp_tem)
1320	IF ( ln_output_clim ) zsurfclim(:,:) = tclim(:,:,1)
1321	CASE('sla')
1322	zsurfvar(:,:) = sshn(:,:)
1323	CASE('sss')
1324	zsurfvar(:,:) = tsn(:,:,1,jp_sal)
1325	IF ( ln_output_clim ) zsurfclim(:,:) = sclim(:,:,1)
1326	CASE('sic')
1327	IF ( kstp == 0 ) THEN
1328	IF ( lwp .AND. surfdataqc(jtype)%nsstpmpp(1) > 0 ) THEN
1329	CALL ctl_warn( 'Sea-ice not initialised on zeroth '// &
1330	& 'time-step but some obs are valid then.' )
1331	WRITE(numout,*)surfdataqc(jtype)%nsstpmpp(1), &
1332	& ' sea-ice obs will be missed'
1333	ENDIF
1334	surfdataqc(jtype)%nsurfup = surfdataqc(jtype)%nsurfup + &
1335	& surfdataqc(jtype)%nsstp(1)
1336	CYCLE
1337	ELSE
1338	#if defined key_cice
1339	zsurfvar(:,:) = fr_i(:,:)
1340	#elif defined key_lim2 \|\| defined key_lim3
1341	zsurfvar(:,:) = 1._wp - frld(:,:)
1342	#else
1343	CALL ctl_stop( ' Trying to run sea-ice observation operator', &
1344	& ' but no sea-ice model appears to have been defined' )
1345	#endif
1346	ENDIF
1347
1348	CASE('slchltot')
1349	#if defined key_hadocc
1350	! Surface chlorophyll from HadOCC
1351	zsurfvar(:,:) = HADOCC_CHL(:,:,1)
1352	#elif defined key_medusa
1353	! Add non-diatom and diatom surface chlorophyll from MEDUSA
1354	zsurfvar(:,:) = trn(:,:,1,jpchn) + trn(:,:,1,jpchd)
1355	#elif defined key_fabm
1356	! Add all surface chlorophyll groups from ERSEM
1357	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl1) + trn(:,:,1,jp_fabm_m1+jp_fabm_chl2) + &
1358	& trn(:,:,1,jp_fabm_m1+jp_fabm_chl3) + trn(:,:,1,jp_fabm_m1+jp_fabm_chl4)
1359	#else
1360	CALL ctl_stop( ' Trying to run slchltot observation operator', &
1361	& ' but no biogeochemical model appears to have been defined' )
1362	#endif
1363	llog10 = .TRUE.
1364
1365	CASE('slchldia')
1366	#if defined key_hadocc
1367	CALL ctl_stop( ' Trying to run slchldia observation operator', &
1368	& ' but HadOCC does not explicitly simulate diatoms' )
1369	#elif defined key_medusa
1370	! Diatom surface chlorophyll from MEDUSA
1371	zsurfvar(:,:) = trn(:,:,1,jpchd)
1372	#elif defined key_fabm
1373	! Diatom surface chlorophyll from ERSEM
1374	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl1)
1375	#else
1376	CALL ctl_stop( ' Trying to run slchldia observation operator', &
1377	& ' but no biogeochemical model appears to have been defined' )
1378	#endif
1379	llog10 = .TRUE.
1380
1381	CASE('slchlnon')
1382	#if defined key_hadocc
1383	CALL ctl_stop( ' Trying to run slchlnon observation operator', &
1384	& ' but HadOCC does not explicitly simulate non-diatoms' )
1385	#elif defined key_medusa
1386	! Non-diatom surface chlorophyll from MEDUSA
1387	zsurfvar(:,:) = trn(:,:,1,jpchn)
1388	#elif defined key_fabm
1389	! Add all non-diatom surface chlorophyll groups from ERSEM
1390	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl2) + &
1391	& trn(:,:,1,jp_fabm_m1+jp_fabm_chl3) + trn(:,:,1,jp_fabm_m1+jp_fabm_chl4)
1392	#else
1393	CALL ctl_stop( ' Trying to run slchlnon observation operator', &
1394	& ' but no biogeochemical model appears to have been defined' )
1395	#endif
1396	llog10 = .TRUE.
1397
1398	CASE('slchldin')
1399	#if defined key_hadocc
1400	CALL ctl_stop( ' Trying to run slchldin observation operator', &
1401	& ' but HadOCC does not explicitly simulate dinoflagellates' )
1402	#elif defined key_medusa
1403	CALL ctl_stop( ' Trying to run slchldin observation operator', &
1404	& ' but MEDUSA does not explicitly simulate dinoflagellates' )
1405	#elif defined key_fabm
1406	! Dinoflagellate surface chlorophyll from ERSEM
1407	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl4)
1408	#else
1409	CALL ctl_stop( ' Trying to run slchldin observation operator', &
1410	& ' but no biogeochemical model appears to have been defined' )
1411	#endif
1412	llog10 = .TRUE.
1413
1414	CASE('slchlmic')
1415	#if defined key_hadocc
1416	CALL ctl_stop( ' Trying to run slchlmic observation operator', &
1417	& ' but HadOCC does not explicitly simulate microphytoplankton' )
1418	#elif defined key_medusa
1419	CALL ctl_stop( ' Trying to run slchlmic observation operator', &
1420	& ' but MEDUSA does not explicitly simulate microphytoplankton' )
1421	#elif defined key_fabm
1422	! Add diatom and dinoflagellate surface chlorophyll from ERSEM
1423	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl1) + trn(:,:,1,jp_fabm_m1+jp_fabm_chl4)
1424	#else
1425	CALL ctl_stop( ' Trying to run slchlmic observation operator', &
1426	& ' but no biogeochemical model appears to have been defined' )
1427	#endif
1428	llog10 = .TRUE.
1429
1430	CASE('slchlnan')
1431	#if defined key_hadocc
1432	CALL ctl_stop( ' Trying to run slchlnan observation operator', &
1433	& ' but HadOCC does not explicitly simulate nanophytoplankton' )
1434	#elif defined key_medusa
1435	CALL ctl_stop( ' Trying to run slchlnan observation operator', &
1436	& ' but MEDUSA does not explicitly simulate nanophytoplankton' )
1437	#elif defined key_fabm
1438	! Nanophytoplankton surface chlorophyll from ERSEM
1439	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl2)
1440	#else
1441	CALL ctl_stop( ' Trying to run slchlnan observation operator', &
1442	& ' but no biogeochemical model appears to have been defined' )
1443	#endif
1444	llog10 = .TRUE.
1445
1446	CASE('slchlpic')
1447	#if defined key_hadocc
1448	CALL ctl_stop( ' Trying to run slchlpic observation operator', &
1449	& ' but HadOCC does not explicitly simulate picophytoplankton' )
1450	#elif defined key_medusa
1451	CALL ctl_stop( ' Trying to run slchlpic observation operator', &
1452	& ' but MEDUSA does not explicitly simulate picophytoplankton' )
1453	#elif defined key_fabm
1454	! Picophytoplankton surface chlorophyll from ERSEM
1455	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl3)
1456	#else
1457	CALL ctl_stop( ' Trying to run slchlpic observation operator', &
1458	& ' but no biogeochemical model appears to have been defined' )
1459	#endif
1460	llog10 = .TRUE.
1461
1462	CASE('schltot')
1463	#if defined key_hadocc
1464	! Surface chlorophyll from HadOCC
1465	zsurfvar(:,:) = HADOCC_CHL(:,:,1)
1466	#elif defined key_medusa
1467	! Add non-diatom and diatom surface chlorophyll from MEDUSA
1468	zsurfvar(:,:) = trn(:,:,1,jpchn) + trn(:,:,1,jpchd)
1469	#elif defined key_fabm
1470	! Add all surface chlorophyll groups from ERSEM
1471	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_chl1) + trn(:,:,1,jp_fabm_m1+jp_fabm_chl2) + &
1472	& trn(:,:,1,jp_fabm_m1+jp_fabm_chl3) + trn(:,:,1,jp_fabm_m1+jp_fabm_chl4)
1473	#else
1474	CALL ctl_stop( ' Trying to run schltot observation operator', &
1475	& ' but no biogeochemical model appears to have been defined' )
1476	#endif
1477
1478	CASE('slphytot')
1479	#if defined key_hadocc
1480	! Surface phytoplankton nitrogen from HadOCC multiplied by C:N ratio
1481	zsurfvar(:,:) = trn(:,:,1,jp_had_phy) * c2n_p
1482	#elif defined key_medusa
1483	! Add non-diatom and diatom surface phytoplankton nitrogen from MEDUSA
1484	! multiplied by C:N ratio for each
1485	zsurfvar(:,:) = (trn(:,:,1,jpphn) * xthetapn) + (trn(:,:,1,jpphd) * xthetapd)
1486	#elif defined key_fabm
1487	! Add all surface phytoplankton carbon groups from ERSEM
1488	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_p1c) + trn(:,:,1,jp_fabm_m1+jp_fabm_p2c) + &
1489	& trn(:,:,1,jp_fabm_m1+jp_fabm_p3c) + trn(:,:,1,jp_fabm_m1+jp_fabm_p4c)
1490	#else
1491	CALL ctl_stop( ' Trying to run slphytot observation operator', &
1492	& ' but no biogeochemical model appears to have been defined' )
1493	#endif
1494	llog10 = .TRUE.
1495
1496	CASE('slphydia')
1497	#if defined key_hadocc
1498	CALL ctl_stop( ' Trying to run slphydia observation operator', &
1499	& ' but HadOCC does not explicitly simulate diatoms' )
1500	#elif defined key_medusa
1501	! Diatom surface phytoplankton nitrogen from MEDUSA multiplied by C:N ratio
1502	zsurfvar(:,:) = trn(:,:,1,jpphd) * xthetapd
1503	#elif defined key_fabm
1504	! Diatom surface phytoplankton carbon from ERSEM
1505	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_p1c)
1506	#else
1507	CALL ctl_stop( ' Trying to run slphydia observation operator', &
1508	& ' but no biogeochemical model appears to have been defined' )
1509	#endif
1510	llog10 = .TRUE.
1511
1512	CASE('slphynon')
1513	#if defined key_hadocc
1514	CALL ctl_stop( ' Trying to run slphynon observation operator', &
1515	& ' but HadOCC does not explicitly simulate non-diatoms' )
1516	#elif defined key_medusa
1517	! Non-diatom surface phytoplankton nitrogen from MEDUSA multiplied by C:N ratio
1518	zsurfvar(:,:) = trn(:,:,1,jpphn) * xthetapn
1519	#elif defined key_fabm
1520	! Add all non-diatom surface phytoplankton carbon groups from ERSEM
1521	zsurfvar(:,:) = trn(:,:,1,jp_fabm_m1+jp_fabm_p2c) + &
1522	& trn(:,:,1,jp_fabm_m1+jp_fabm_p3c) + trn(:,:,1,jp_fabm_m1+jp_fabm_p4c)
1523	#else
1524	CALL ctl_stop( ' Trying to run slphynon observation operator', &
1525	& ' but no biogeochemical model appears to have been defined' )
1526	#endif
1527	llog10 = .TRUE.
1528
1529	CASE('sspm')
1530	#if defined key_spm
1531	zsurfvar(:,:) = 0.0
1532	DO jn = 1, jp_spm
1533	zsurfvar(:,:) = zsurfvar(:,:) + trn(:,:,1,jn) ! sum SPM sizes
1534	END DO
1535	#else
1536	CALL ctl_stop( ' Trying to run sspm observation operator', &
1537	& ' but no spm model appears to have been defined' )
1538	#endif
1539
1540	CASE('skd490')
1541	#if defined key_hadocc
1542	CALL ctl_stop( ' Trying to run skd490 observation operator', &
1543	& ' but HadOCC does not explicitly simulate Kd490' )
1544	#elif defined key_medusa
1545	CALL ctl_stop( ' Trying to run skd490 observation operator', &
1546	& ' but MEDUSA does not explicitly simulate Kd490' )
1547	#elif defined key_fabm
1548	! light_xEPS diagnostic variable
1549	fabm_3d(:,:,:) = fabm_get_interior_diagnostic_data(model, jp_fabm_xeps)
1550	zsurfvar(:,:) = fabm_3d(:,:,1)
1551	#else
1552	CALL ctl_stop( ' Trying to run skd490 observation operator', &
1553	& ' but no biogeochemical model appears to have been defined' )
1554	#endif
1555
1556	CASE('sfco2')
1557	#if defined key_hadocc
1558	zsurfvar(:,:) = HADOCC_FCO2(:,:) ! fCO2 from HadOCC
1559	IF ( ( MINVAL( HADOCC_FCO2 ) == HADOCC_FILL_FLT ) .AND. &
1560	& ( MAXVAL( HADOCC_FCO2 ) == HADOCC_FILL_FLT ) ) THEN
1561	zsurfvar(:,:) = obfillflt
1562	zsurfmask(:,:) = 0
1563	CALL ctl_warn( ' HadOCC fCO2 values masked out for observation operator', &
1564	& ' as HADOCC_FCO2(:,:) == HADOCC_FILL_FLT' )
1565	ENDIF
1566	#elif defined key_medusa && defined key_roam
1567	zsurfvar(:,:) = f2_fco2w(:,:)
1568	#elif defined key_fabm
1569	! First, get pCO2 from FABM
1570	fabm_3d(:,:,:) = fabm_get_interior_diagnostic_data(model, jp_fabm_o3pc)
1571	zsurfvar(:,:) = fabm_3d(:,:,1)
1572	! Now, convert pCO2 to fCO2, based on SST in K. This follows the standard methodology of:
1573	! Pierrot et al. (2009), Recommendations for autonomous underway pCO2 measuring systems
1574	! and data reduction routines, Deep-Sea Research II, 56: 512-522.
1575	! and
1576	! Weiss (1974), Carbon dioxide in water and seawater: the solubility of a non-ideal gas,
1577	! Marine Chemistry, 2: 203-215.
1578	! In the implementation below, atmospheric pressure has been assumed to be 1 atm and so
1579	! not explicitly included - atmospheric pressure is not necessarily available so this is
1580	! the best assumption.
1581	! Further, the (1-xCO2)^2 term has been neglected. This is common practice
1582	! (see e.g. Zeebe and Wolf-Gladrow (2001), CO2 in Seawater: Equilibrium, Kinetics, Isotopes)
1583	! because xCO2 in atm is ~0, and so this term will only affect the result to the 3rd decimal
1584	! place for typical values, and xCO2 would need to be approximated from pCO2 anyway.
1585	zsurfvar(:,:) = zsurfvar(:,:) * EXP((-1636.75 + &
1586	& 12.0408 * (tsn(:,:,1,jp_tem)+rt0) - &
1587	& 0.0327957 * (tsn(:,:,1,jp_tem)+rt0)*(tsn(:,:,1,jp_tem)+rt0) + &
1588	& 0.0000316528 * (tsn(:,:,1,jp_tem)+rt0)(tsn(:,:,1,jp_tem)+rt0)(tsn(:,:,1,jp_tem)+rt0) + &
1589	& 2.0 * (57.7 - 0.118 * (tsn(:,:,1,jp_tem)+rt0))) / &
1590	& (82.0578 * (tsn(:,:,1,jp_tem)+rt0)))
1591	#else
1592	CALL ctl_stop( ' Trying to run sfco2 observation operator', &
1593	& ' but no biogeochemical model appears to have been defined' )
1594	#endif
1595
1596	CASE('spco2')
1597	#if defined key_hadocc
1598	zsurfvar(:,:) = HADOCC_PCO2(:,:) ! pCO2 from HadOCC
1599	IF ( ( MINVAL( HADOCC_PCO2 ) == HADOCC_FILL_FLT ) .AND. &
1600	& ( MAXVAL( HADOCC_PCO2 ) == HADOCC_FILL_FLT ) ) THEN
1601	zsurfvar(:,:) = obfillflt
1602	zsurfmask(:,:) = 0
1603	CALL ctl_warn( ' HadOCC pCO2 values masked out for observation operator', &
1604	& ' as HADOCC_PCO2(:,:) == HADOCC_FILL_FLT' )
1605	ENDIF
1606	#elif defined key_medusa && defined key_roam
1607	zsurfvar(:,:) = f2_pco2w(:,:)
1608	#elif defined key_fabm
1609	fabm_3d(:,:,:) = fabm_get_interior_diagnostic_data(model, jp_fabm_o3pc)
1610	zsurfvar(:,:) = fabm_3d(:,:,1)
1611	#else
1612	CALL ctl_stop( ' Trying to run spco2 observation operator', &
1613	& ' but no biogeochemical model appears to have been defined' )
1614	#endif
1615
1616	CASE DEFAULT
1617
1618	CALL ctl_stop( 'Unknown surface observation type '//TRIM(cobstypessurf(jtype))//' in dia_obs' )
1619
1620	END SELECT
1621
1622	IF ( llog10 ) THEN
1623	! Take the log10 where we can, otherwise exclude
1624	tiny = 1.0e-20
1625	WHERE(zsurfvar(:,:) > tiny .AND. zsurfvar(:,:) /= obfillflt )
1626	zsurfvar(:,:) = LOG10(zsurfvar(:,:))
1627	ELSEWHERE
1628	zsurfvar(:,:) = obfillflt
1629	zsurfmask(:,:) = 0
1630	END WHERE
1631	ENDIF
1632
1633	IF ( TRIM(cobstypessurf(jtype)) == 'sla' .AND. &
1634	& ln_time_mean_sla_bkg ) THEN
1635	!Number of time-steps in meaning period
1636	imeanstp = NINT( ( MeanPeriodHours * 60. * 60. ) / rdt )
1637	CALL obs_surf_opt( surfdataqc(jtype), kstp, jpi, jpj, &
1638	& nit000, idaystp, zsurfvar, &
1639	& zsurfclim, zsurfmask, &
1640	& n2dintsurf(jtype), llnightav(jtype), &
1641	& ravglamscl(jtype), ravgphiscl(jtype), &
1642	& lfpindegs(jtype), kmeanstp = imeanstp )
1643
1644	ELSE
1645	CALL obs_surf_opt( surfdataqc(jtype), kstp, jpi, jpj, &
1646	& nit000, idaystp, zsurfvar, &
1647	& zsurfclim, zsurfmask, &
1648	& n2dintsurf(jtype), llnightav(jtype), &
1649	& ravglamscl(jtype), ravgphiscl(jtype), &
1650	& lfpindegs(jtype) )
1651	ENDIF
1652
1653	END DO
1654
1655	CALL wrk_dealloc( jpi, jpj, zsurfvar )
1656	CALL wrk_dealloc( jpi, jpj, zsurfmask )
1657	#if defined key_fabm
1658	CALL wrk_dealloc( jpi, jpj, jpk, fabm_3d )
1659	#endif
1660
1661	ENDIF
1662
1663	END SUBROUTINE dia_obs
1664
1665	SUBROUTINE dia_obs_wri
1666	!!----------------------------------------------------------------------
1667	!! * ROUTINE dia_obs_wri *
1668	!!
1669	!! ** Purpose : Call observation diagnostic output routines
1670	!!
1671	!! ** Method : Call observation diagnostic output routines
1672	!!
1673	!! ** Action :
1674	!!
1675	!! History :
1676	!! ! 06-03 (K. Mogensen) Original code
1677	!! ! 06-05 (K. Mogensen) Reformatted
1678	!! ! 06-10 (A. Weaver) Cleaning
1679	!! ! 07-03 (K. Mogensen) General handling of profiles
1680	!! ! 08-09 (M. Valdivieso) Velocity component (U,V) profiles
1681	!! ! 15-08 (M. Martin) Combined writing for prof and surf types
1682	!!----------------------------------------------------------------------
1683	!! * Modules used
1684	USE obs_rot_vel ! Rotation of velocities
1685
1686	IMPLICIT NONE
1687
1688	!! * Local declarations
1689	INTEGER :: jtype ! Data set loop variable
1690	INTEGER :: jo, jvar, jk
1691	REAL(wp), DIMENSION(:), ALLOCATABLE :: &
1692	& zu, &
1693	& zv
1694
1695	!-----------------------------------------------------------------------
1696	! Depending on switches call various observation output routines
1697	!-----------------------------------------------------------------------
1698
1699	IF ( nproftypes > 0 ) THEN
1700
1701	DO jtype = 1, nproftypes
1702
1703	IF ( TRIM(cobstypesprof(jtype)) == 'vel' ) THEN
1704
1705	! For velocity data, rotate the model velocities to N/S, E/W
1706	! using the compressed data structure.
1707	ALLOCATE( &
1708	& zu(profdataqc(jtype)%nvprot(1)), &
1709	& zv(profdataqc(jtype)%nvprot(2)) &
1710	& )
1711
1712	CALL obs_rotvel( profdataqc(jtype), nn_2dint_default, zu, zv )
1713
1714	DO jo = 1, profdataqc(jtype)%nprof
1715	DO jvar = 1, 2
1716	DO jk = profdataqc(jtype)%npvsta(jo,jvar), profdataqc(jtype)%npvend(jo,jvar)
1717
1718	IF ( jvar == 1 ) THEN
1719	profdataqc(jtype)%var(jvar)%vmod(jk) = zu(jk)
1720	ELSE
1721	profdataqc(jtype)%var(jvar)%vmod(jk) = zv(jk)
1722	ENDIF
1723
1724	END DO
1725	END DO
1726	END DO
1727
1728	DEALLOCATE( zu )
1729	DEALLOCATE( zv )
1730
1731	END IF
1732
1733	CALL obs_prof_decompress( profdataqc(jtype), &
1734	& profdata(jtype), .TRUE., numout )
1735
1736	CALL obs_wri_prof( profdata(jtype) )
1737
1738	END DO
1739
1740	ENDIF
1741
1742	IF ( nsurftypes > 0 ) THEN
1743
1744	DO jtype = 1, nsurftypes
1745
1746	CALL obs_surf_decompress( surfdataqc(jtype), &
1747	& surfdata(jtype), .TRUE., numout )
1748
1749	CALL obs_wri_surf( surfdata(jtype) )
1750
1751	END DO
1752
1753	ENDIF
1754
1755	END SUBROUTINE dia_obs_wri
1756
1757	SUBROUTINE dia_obs_dealloc
1758	IMPLICIT NONE
1759	!!----------------------------------------------------------------------
1760	!! * ROUTINE dia_obs_dealloc *
1761	!!
1762	!! ** Purpose : To deallocate data to enable the obs_oper online loop.
1763	!! Specifically: dia_obs_init --> dia_obs --> dia_obs_wri
1764	!!
1765	!! ** Method : Clean up various arrays left behind by the obs_oper.
1766	!!
1767	!! ** Action :
1768	!!
1769	!!----------------------------------------------------------------------
1770	! obs_grid deallocation
1771	CALL obs_grid_deallocate
1772
1773	! diaobs deallocation
1774	IF ( nproftypes > 0 ) &
1775	& DEALLOCATE( cobstypesprof, profdata, profdataqc, nvarsprof, nextrprof )
1776
1777	IF ( nsurftypes > 0 ) &
1778	& DEALLOCATE( cobstypessurf, surfdata, surfdataqc, nvarssurf, nextrsurf, &
1779	& n2dintsurf, ravglamscl, ravgphiscl, lfpindegs, llnightav )
1780
1781	END SUBROUTINE dia_obs_dealloc
1782
1783	SUBROUTINE ini_date( ddobsini )
1784	!!----------------------------------------------------------------------
1785	!! * ROUTINE ini_date *
1786	!!
1787	!! ** Purpose : Get initial date in double precision YYYYMMDD.HHMMSS format
1788	!!
1789	!! ** Method : Get initial date in double precision YYYYMMDD.HHMMSS format
1790	!!
1791	!! ** Action : Get initial date in double precision YYYYMMDD.HHMMSS format
1792	!!
1793	!! History :
1794	!! ! 06-03 (K. Mogensen) Original code
1795	!! ! 06-05 (K. Mogensen) Reformatted
1796	!! ! 06-10 (A. Weaver) Cleaning
1797	!! ! 06-10 (G. Smith) Calculates initial date the same as method for final date
1798	!! ! 10-05 (D. Lea) Update to month length calculation for NEMO vn3.2
1799	!!----------------------------------------------------------------------
1800	USE phycst, ONLY : & ! Physical constants
1801	& rday
1802	USE dom_oce, ONLY : & ! Ocean space and time domain variables
1803	& rdt
1804
1805	IMPLICIT NONE
1806
1807	!! * Arguments
1808	REAL(dp), INTENT(OUT) :: ddobsini ! Initial date in YYYYMMDD.HHMMSS
1809
1810	!! * Local declarations
1811	INTEGER :: iyea ! date - (year, month, day, hour, minute)
1812	INTEGER :: imon
1813	INTEGER :: iday
1814	INTEGER :: ihou
1815	INTEGER :: imin
1816	INTEGER :: imday ! Number of days in month.
1817	INTEGER, DIMENSION(12) :: &
1818	& imonth_len ! Length in days of the months of the current year
1819	REAL(wp) :: zdayfrc ! Fraction of day
1820
1821	!----------------------------------------------------------------------
1822	! Initial date initialization (year, month, day, hour, minute)
1823	! (This assumes that the initial date is for 00z))
1824	!----------------------------------------------------------------------
1825	iyea = ndate0 / 10000
1826	imon = ( ndate0 - iyea * 10000 ) / 100
1827	iday = ndate0 - iyea * 10000 - imon * 100
1828	ihou = 0
1829	imin = 0
1830
1831	!----------------------------------------------------------------------
1832	! Compute number of days + number of hours + min since initial time
1833	!----------------------------------------------------------------------
1834	iday = iday + ( nit000 -1 ) * rdt / rday
1835	zdayfrc = ( nit000 -1 ) * rdt / rday
1836	zdayfrc = zdayfrc - aint(zdayfrc)
1837	ihou = int( zdayfrc * 24 )
1838	imin = int( (zdayfrc * 24 - ihou) * 60 )
1839
1840	!-----------------------------------------------------------------------
1841	! Convert number of days (iday) into a real date
1842	!----------------------------------------------------------------------
1843
1844	CALL calc_month_len( iyea, imonth_len )
1845
1846	DO WHILE ( iday > imonth_len(imon) )
1847	iday = iday - imonth_len(imon)
1848	imon = imon + 1
1849	IF ( imon > 12 ) THEN
1850	imon = 1
1851	iyea = iyea + 1
1852	CALL calc_month_len( iyea, imonth_len ) ! update month lengths
1853	ENDIF
1854	END DO
1855
1856	!----------------------------------------------------------------------
1857	! Convert it into YYYYMMDD.HHMMSS format.
1858	!----------------------------------------------------------------------
1859	ddobsini = iyea * 10000_dp + imon * 100_dp + &
1860	& iday + ihou * 0.01_dp + imin * 0.0001_dp
1861
1862
1863	END SUBROUTINE ini_date
1864
1865	SUBROUTINE fin_date( ddobsfin )
1866	!!----------------------------------------------------------------------
1867	!! * ROUTINE fin_date *
1868	!!
1869	!! ** Purpose : Get final date in double precision YYYYMMDD.HHMMSS format
1870	!!
1871	!! ** Method : Get final date in double precision YYYYMMDD.HHMMSS format
1872	!!
1873	!! ** Action : Get final date in double precision YYYYMMDD.HHMMSS format
1874	!!
1875	!! History :
1876	!! ! 06-03 (K. Mogensen) Original code
1877	!! ! 06-05 (K. Mogensen) Reformatted
1878	!! ! 06-10 (A. Weaver) Cleaning
1879	!! ! 10-05 (D. Lea) Update to month length calculation for NEMO vn3.2
1880	!!----------------------------------------------------------------------
1881	USE phycst, ONLY : & ! Physical constants
1882	& rday
1883	USE dom_oce, ONLY : & ! Ocean space and time domain variables
1884	& rdt
1885
1886	IMPLICIT NONE
1887
1888	!! * Arguments
1889	REAL(dp), INTENT(OUT) :: ddobsfin ! Final date in YYYYMMDD.HHMMSS
1890
1891	!! * Local declarations
1892	INTEGER :: iyea ! date - (year, month, day, hour, minute)
1893	INTEGER :: imon
1894	INTEGER :: iday
1895	INTEGER :: ihou
1896	INTEGER :: imin
1897	INTEGER :: imday ! Number of days in month.
1898	INTEGER, DIMENSION(12) :: &
1899	& imonth_len ! Length in days of the months of the current year
1900	REAL(wp) :: zdayfrc ! Fraction of day
1901
1902	!-----------------------------------------------------------------------
1903	! Initial date initialization (year, month, day, hour, minute)
1904	! (This assumes that the initial date is for 00z)
1905	!-----------------------------------------------------------------------
1906	iyea = ndate0 / 10000
1907	imon = ( ndate0 - iyea * 10000 ) / 100
1908	iday = ndate0 - iyea * 10000 - imon * 100
1909	ihou = 0
1910	imin = 0
1911
1912	!-----------------------------------------------------------------------
1913	! Compute number of days + number of hours + min since initial time
1914	!-----------------------------------------------------------------------
1915	iday = iday + nitend * rdt / rday
1916	zdayfrc = nitend * rdt / rday
1917	zdayfrc = zdayfrc - AINT( zdayfrc )
1918	ihou = INT( zdayfrc * 24 )
1919	imin = INT( ( zdayfrc * 24 - ihou ) * 60 )
1920
1921	!-----------------------------------------------------------------------
1922	! Convert number of days (iday) into a real date
1923	!----------------------------------------------------------------------
1924
1925	CALL calc_month_len( iyea, imonth_len )
1926
1927	DO WHILE ( iday > imonth_len(imon) )
1928	iday = iday - imonth_len(imon)
1929	imon = imon + 1
1930	IF ( imon > 12 ) THEN
1931	imon = 1
1932	iyea = iyea + 1
1933	CALL calc_month_len( iyea, imonth_len ) ! update month lengths
1934	ENDIF
1935	END DO
1936
1937	!-----------------------------------------------------------------------
1938	! Convert it into YYYYMMDD.HHMMSS format
1939	!-----------------------------------------------------------------------
1940	ddobsfin = iyea * 10000_dp + imon * 100_dp + iday &
1941	& + ihou * 0.01_dp + imin * 0.0001_dp
1942
1943	END SUBROUTINE fin_date
1944
1945	SUBROUTINE obs_settypefiles( ntypes, jpmaxnfiles, ifiles, cobstypes, cfiles )
1946
1947	INTEGER, INTENT(IN) :: ntypes ! Total number of obs types
1948	INTEGER, INTENT(IN) :: jpmaxnfiles ! Maximum number of files allowed for each type
1949	INTEGER, DIMENSION(ntypes), INTENT(OUT) :: &
1950	& ifiles ! Out number of files for each type
1951	CHARACTER(len=8), DIMENSION(ntypes), INTENT(IN) :: &
1952	& cobstypes ! List of obs types
1953	CHARACTER(len=128), DIMENSION(ntypes, jpmaxnfiles), INTENT(IN) :: &
1954	& cfiles ! List of files for all types
1955
1956	!Local variables
1957	INTEGER :: jfile
1958	INTEGER :: jtype
1959
1960	DO jtype = 1, ntypes
1961
1962	ifiles(jtype) = 0
1963	DO jfile = 1, jpmaxnfiles
1964	IF ( trim(cfiles(jtype,jfile)) /= '' ) &
1965	ifiles(jtype) = ifiles(jtype) + 1
1966	END DO
1967
1968	IF ( ifiles(jtype) == 0 ) THEN
1969	CALL ctl_stop( 'Logical for observation type '//TRIM(cobstypes(jtype))// &
1970	& ' set to true but no files available to read' )
1971	ENDIF
1972
1973	IF(lwp) THEN
1974	WRITE(numout,*) ' '//cobstypes(jtype)//' input observation file names:'
1975	DO jfile = 1, ifiles(jtype)
1976	WRITE(numout,*) ' '//TRIM(cfiles(jtype,jfile))
1977	END DO
1978	ENDIF
1979
1980	END DO
1981
1982	END SUBROUTINE obs_settypefiles
1983
1984	SUBROUTINE obs_setinterpopts( ntypes, jtype, ctypein, &
1985	& n2dint_default, n2dint_type, &
1986	& ravglamscl_type, ravgphiscl_type, &
1987	& lfp_indegs_type, lavnight_type, &
1988	& n2dint, ravglamscl, ravgphiscl, &
1989	& lfpindegs, lavnight )
1990
1991	INTEGER, INTENT(IN) :: ntypes ! Total number of obs types
1992	INTEGER, INTENT(IN) :: jtype ! Index of the current type of obs
1993	INTEGER, INTENT(IN) :: n2dint_default ! Default option for interpolation type
1994	INTEGER, INTENT(IN) :: n2dint_type ! Option for interpolation type
1995	REAL(wp), INTENT(IN) :: &
1996	& ravglamscl_type, & !E/W diameter of obs footprint for this type
1997	& ravgphiscl_type !N/S diameter of obs footprint for this type
1998	LOGICAL, INTENT(IN) :: lfp_indegs_type !T=> footprint in degrees, F=> in metres
1999	LOGICAL, INTENT(IN) :: lavnight_type !T=> obs represent night time average
2000	CHARACTER(len=8), INTENT(IN) :: ctypein
2001
2002	INTEGER, DIMENSION(ntypes), INTENT(INOUT) :: &
2003	& n2dint
2004	REAL(wp), DIMENSION(ntypes), INTENT(INOUT) :: &
2005	& ravglamscl, ravgphiscl
2006	LOGICAL, DIMENSION(ntypes), INTENT(INOUT) :: &
2007	& lfpindegs, lavnight
2008
2009	lavnight(jtype) = lavnight_type
2010
2011	IF ( (n2dint_type >= 0) .AND. (n2dint_type <= 6) ) THEN
2012	n2dint(jtype) = n2dint_type
2013	ELSE IF ( n2dint_type == -1 ) THEN
2014	n2dint(jtype) = n2dint_default
2015	ELSE
2016	CALL ctl_stop(' Choice of '//TRIM(ctypein)//' horizontal (2D) interpolation method', &
2017	& ' is not available')
2018	ENDIF
2019
2020	! For averaging observation footprints set options for size of footprint
2021	IF ( (n2dint(jtype) > 4) .AND. (n2dint(jtype) <= 6) ) THEN
2022	IF ( ravglamscl_type > 0._wp ) THEN
2023	ravglamscl(jtype) = ravglamscl_type
2024	ELSE
2025	CALL ctl_stop( 'Incorrect value set for averaging footprint '// &
2026	'scale (ravglamscl) for observation type '//TRIM(ctypein) )
2027	ENDIF
2028
2029	IF ( ravgphiscl_type > 0._wp ) THEN
2030	ravgphiscl(jtype) = ravgphiscl_type
2031	ELSE
2032	CALL ctl_stop( 'Incorrect value set for averaging footprint '// &
2033	'scale (ravgphiscl) for observation type '//TRIM(ctypein) )
2034	ENDIF
2035
2036	lfpindegs(jtype) = lfp_indegs_type
2037
2038	ENDIF
2039
2040	! Write out info
2041	IF(lwp) THEN
2042	IF ( n2dint(jtype) <= 4 ) THEN
2043	WRITE(numout,*) ' '//TRIM(ctypein)// &
2044	& ' model counterparts will be interpolated horizontally'
2045	ELSE IF ( n2dint(jtype) <= 6 ) THEN
2046	WRITE(numout,*) ' '//TRIM(ctypein)// &
2047	& ' model counterparts will be averaged horizontally'
2048	WRITE(numout,*) ' '//' with E/W scale: ',ravglamscl(jtype)
2049	WRITE(numout,*) ' '//' with N/S scale: ',ravgphiscl(jtype)
2050	IF ( lfpindegs(jtype) ) THEN
2051	WRITE(numout,*) ' '//' (in degrees)'
2052	ELSE
2053	WRITE(numout,*) ' '//' (in metres)'
2054	ENDIF
2055	ENDIF
2056	ENDIF
2057
2058	END SUBROUTINE obs_setinterpopts
2059
2060	END MODULE diaobs

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