1 | ### =========================================================================== |
---|
2 | ### |
---|
3 | ### Build coordnates mask |
---|
4 | ### |
---|
5 | ### =========================================================================== |
---|
6 | # creates file coordinates_mask.nc used by mosaix from NEMO netcdf files |
---|
7 | # coordinates.nc and bathymetry.nc (on the same grid as coordinates.nc) |
---|
8 | |
---|
9 | import numpy as np |
---|
10 | import xarray as xr |
---|
11 | import nemo |
---|
12 | import datetime, os, platform, argparse |
---|
13 | |
---|
14 | ## SVN information |
---|
15 | __Author__ = "$Author$" |
---|
16 | __Date__ = "$Date$" |
---|
17 | __Revision__ = "$Revision$" |
---|
18 | __Id__ = "$Id$" |
---|
19 | __HeadURL__ = "$HeadURL: http://forge.ipsl.jussieu.fr/igcmg/svn/TOOLS/MOSAIX/Build_coordinates_mask.py $" |
---|
20 | __SVN_Date__ = "$SVN_Date: $" |
---|
21 | ### |
---|
22 | |
---|
23 | ### ===== Handling command line parameters ================================================== |
---|
24 | # Creating a parser |
---|
25 | parser = argparse.ArgumentParser ( |
---|
26 | description = """Read coordinates and bathymetry to build masks, grid bounds and areas for MOSAIX""", |
---|
27 | epilog='-------- End of the help message --------') |
---|
28 | |
---|
29 | # Adding arguments |
---|
30 | parser.add_argument ('--model' , help='oce model name', type=str, default='eORCA1.2', choices=('paleORCA', 'ORCA2.3', 'ORCA2.4', 'eORCA1.2', 'eORCA025', 'eORCA025.1') ) |
---|
31 | parser.add_argument ('--bathy' , help='bathymetry file name', type=str, default='bathy_meter.nc' ) |
---|
32 | parser.add_argument ('--coord' , help='coordinates file name', type=str, default='coordinates.nc' ) |
---|
33 | parser.add_argument ('--fout' , help='output file name (given as an input to MOSAIX)', type=str, default='coordinates_mask.nc' ) |
---|
34 | parser.add_argument ('--ocePerio', help='periodicity of ocean grid', type=int, default=0, choices=range(1, 7) ) |
---|
35 | parser.add_argument ('--nemo4Ubug',help='reproduce NEMO lbc_lnk bug for U grid and periodicity 4', type=bool, default=False, choices=(True, False) ) |
---|
36 | parser.add_argument ('--straits' , help='modify grid metrics for selected strait points (depends on model name)', type=bool, default=False, choices=(True, False) ) |
---|
37 | parser.add_argument ('--coordPerio', help='impose periodicity of coordinates and areas through lbc', type=bool, default=False, choices=(True, False) ) |
---|
38 | parser.add_argument ('--maskbathy', help='use the same formula as in NEMO to compute mask_T from the bathymetry file. Does not always give the same result as NEMO ???', type=bool, default=False, choices=(True, False) ) |
---|
39 | |
---|
40 | # Parse command line |
---|
41 | myargs = parser.parse_args() |
---|
42 | |
---|
43 | # ocean model name |
---|
44 | model = myargs.model |
---|
45 | |
---|
46 | # bathymetry input file |
---|
47 | n_bathy = myargs.bathy |
---|
48 | # coordinates input file |
---|
49 | n_coord = myargs.coord |
---|
50 | # coordinates and mask output file |
---|
51 | n_out = myargs.fout |
---|
52 | |
---|
53 | # reproduce periodicity lbclnk bug for U and nperio = 4 |
---|
54 | nemoUbug = myargs.nemo4Ubug |
---|
55 | # change metrics (and bathymetry) for straits |
---|
56 | straits = myargs.straits |
---|
57 | # periodicity imposed on coordinates, metrics and areas |
---|
58 | coordperio = myargs.coordPerio |
---|
59 | # function used to compute mask_T from bathymetry |
---|
60 | maskbathynemo = myargs.maskbathy |
---|
61 | |
---|
62 | # type of grid periodicity |
---|
63 | nperio = myargs.ocePerio |
---|
64 | |
---|
65 | # check of periodicity with type of grid |
---|
66 | if model in ('eORCA1.2', 'paleORCA', 'ORCA025', 'eORCA025', 'eORCA025.1') : |
---|
67 | if nperio != 0 : |
---|
68 | if nperio != 6 : |
---|
69 | print(f'Warning ! model = {model} and ocePerio = {nperio} instead of 6 !') |
---|
70 | else : |
---|
71 | nperio = 6 |
---|
72 | |
---|
73 | if model in ('ORCA2.3', 'ORCA2.4') : |
---|
74 | if nperio != 0 : |
---|
75 | if nperio != 4 : |
---|
76 | print(f'Attention ! model = {model} and ocePerio = {nperio} instead of 4 !') |
---|
77 | else : |
---|
78 | nperio = 4 |
---|
79 | |
---|
80 | print(f' model = {model}\n ocePerio = {nperio}\n bathy = {n_bathy}\n coord = {n_coord}\n fout = {n_out}') |
---|
81 | print(f' Switchs : nemo4Ubug = {nemoUbug}, straits = {straits}, coordPerio = {coordperio}, maskbathy = {maskbathynemo}') |
---|
82 | |
---|
83 | ## |
---|
84 | #!!! bathymetry and coordinates files |
---|
85 | ## |
---|
86 | |
---|
87 | # open input files while removing the time dimension |
---|
88 | f_coord = xr.open_dataset (n_coord, decode_times=False).squeeze() |
---|
89 | f_bathy = xr.open_dataset (n_bathy, decode_times=False).squeeze() |
---|
90 | |
---|
91 | # Suppress time if necessary |
---|
92 | try : |
---|
93 | del f_coord['time'] |
---|
94 | print ('time successfully removed') |
---|
95 | except : |
---|
96 | pass |
---|
97 | print ('failed to suppress time') |
---|
98 | |
---|
99 | # rename latitude, longitude and grid variables in bathymetry |
---|
100 | Bathymetry = f_bathy['Bathymetry'].copy() |
---|
101 | |
---|
102 | try : |
---|
103 | Bathymetry = Bathymetry.rename ({'nav_lat':'nav_lat_grid_T', 'nav_lon':'nav_lon_grid_T'}) |
---|
104 | print ('Bathymetry file: Normal case') |
---|
105 | except : |
---|
106 | print ('Bathymetry file: Exception') |
---|
107 | nav_lon_grid_T = f_bathy ['nav_lon'] |
---|
108 | nav_lat_grid_T = f_bathy ['nav_lat'] |
---|
109 | Bathymetry = xr.DataArray (Bathymetry, coords = { "nav_lat_grid_T": (["y", "x"], nav_lat_grid_T), |
---|
110 | "nav_lon_grid_T": (["y", "x"], nav_lon_grid_T) } ) |
---|
111 | |
---|
112 | Bathymetry = Bathymetry.rename ({'y':'y_grid_T', 'x':'x_grid_T'}) |
---|
113 | |
---|
114 | # modify Bathymetry in straits for select grids (might change computed mask_T) |
---|
115 | if straits : |
---|
116 | # Open straits for usual grids |
---|
117 | if model == 'ORCA2.3' : |
---|
118 | # orca_r2: Gibraltar strait open |
---|
119 | Bathymetry[101,139] = 284. |
---|
120 | # orca_r2: Bab el Mandeb strait open |
---|
121 | Bathymetry[87,159] = 137. |
---|
122 | |
---|
123 | # impose periodicity of bathymetry |
---|
124 | Bathymetry = nemo.lbc (Bathymetry, nperio=nperio, cd_type='T') |
---|
125 | # suppress ocean points at southernmost position only if nperio in {3, 4, 5, 6} |
---|
126 | if nperio in (3, 4, 5, 6) : |
---|
127 | Bathymetry[0,:] = 0.0 |
---|
128 | |
---|
129 | ## |
---|
130 | #!!! Create masks from bathymetry |
---|
131 | ## |
---|
132 | |
---|
133 | # Creation of mask_T following choosed option maskbathy |
---|
134 | if maskbathynemo : |
---|
135 | # Use same formula as domzgr. |
---|
136 | mask_T = xr.where (Bathymetry - 1. + 0.1 >= 0.0, 1, 0).astype (dtype='f4') |
---|
137 | else : |
---|
138 | mask_T = xr.where (Bathymetry > 0.0, 1, 0).astype (dtype='f4') |
---|
139 | |
---|
140 | # Creation of U, V, W, F masks from mask_T |
---|
141 | mask_U = mask_T * mask_T.shift (x_grid_T=-1) |
---|
142 | mask_V = mask_T * mask_T.shift (y_grid_T=-1) |
---|
143 | mask_F = mask_T * mask_T.shift (y_grid_T=-1) * mask_T.shift (x_grid_T=-1) * mask_T.shift (y_grid_T=-1, x_grid_T=-1) |
---|
144 | mask_W = mask_T |
---|
145 | |
---|
146 | # loop on TUVFW to modify coordinates and attributes of mask_[TUVFW] and maskutil_[TUVFW] |
---|
147 | for cd_type in ['T', 'U', 'V', 'F', 'W'] : |
---|
148 | MaskName = 'mask_' + cd_type |
---|
149 | UtilName = 'maskutil_' + cd_type |
---|
150 | # impose periodicity of chosen grid model on masks |
---|
151 | locals()[MaskName] = nemo.lbc (locals()[MaskName], nperio=nperio, cd_type=cd_type, nemo_4U_bug=nemoUbug).astype (dtype='f4') |
---|
152 | # rename masks coordinates |
---|
153 | if cd_type != 'T' : |
---|
154 | locals()[MaskName] = locals()[MaskName].rename \ |
---|
155 | ( {'y_grid_T' : 'y_grid_'+cd_type, 'x_grid_T' : 'x_grid_'+cd_type, |
---|
156 | 'nav_lat_grid_T': 'nav_lat_grid_'+cd_type, 'nav_lon_grid_T': 'nav_lon_grid_'+cd_type} ) |
---|
157 | |
---|
158 | # create masks without duplicate points : maskutil_[TUVWF] |
---|
159 | locals()[UtilName] = nemo.lbc_mask (locals()[MaskName].copy(), nperio=nperio, cd_type=cd_type) |
---|
160 | |
---|
161 | #set name attribute of mask dataset |
---|
162 | locals()[MaskName].name = MaskName |
---|
163 | locals()[UtilName].name = UtilName |
---|
164 | |
---|
165 | # remove _FillVallue from mskutil |
---|
166 | locals()[MaskName].encoding['_FillValue'] = None |
---|
167 | locals()[UtilName].encoding['_FillValue'] = None |
---|
168 | |
---|
169 | # add masks attributes |
---|
170 | locals()[MaskName].attrs['cell_measures'] = 'area: area_grid_'+cd_type |
---|
171 | locals()[UtilName].attrs['cell_measures'] = 'area: area_grid_'+cd_type |
---|
172 | |
---|
173 | ## |
---|
174 | #!!! create grid coordinates from NEMO coordinates.nc file |
---|
175 | ## |
---|
176 | |
---|
177 | angle = { 'lon' : 'glam', 'lat' : 'gphi' } |
---|
178 | gridv = { 'T' : 't', 'U' : 'u', 'V' : 'v', 'F' : 'f', 'W' : 't' } |
---|
179 | for cd_type in ['T', 'U', 'V', 'F', 'W'] : |
---|
180 | for dir_type in ['lon', 'lat'] : |
---|
181 | coord_name = 'nav_' + dir_type + '_grid_' + cd_type |
---|
182 | dir_name = angle[dir_type]+gridv[cd_type] |
---|
183 | # impose or not periodicity on coordinates read from file |
---|
184 | if coordperio : |
---|
185 | locals()[coord_name] = nemo.lbc (f_coord [dir_name].copy(), nperio=nperio, cd_type=cd_type, nemo_4U_bug=nemoUbug) |
---|
186 | else : |
---|
187 | locals()[coord_name] = f_coord [dir_name].copy() |
---|
188 | |
---|
189 | locals()[coord_name] = locals()[coord_name].rename( {'y':'y_grid_'+cd_type, 'x':'x_grid_'+cd_type} ) |
---|
190 | |
---|
191 | # remove _FillValue and missing_value |
---|
192 | locals()[coord_name].encoding['_FillValue'] = None |
---|
193 | locals()[coord_name].encoding['missing_value'] = None |
---|
194 | |
---|
195 | # define name attribute |
---|
196 | locals()[coord_name].name = coord_name |
---|
197 | |
---|
198 | # add coordinates attributes |
---|
199 | locals()[coord_name].attrs['bounds'] ='bounds_' + dir_type + '_grid_' + cd_type |
---|
200 | |
---|
201 | locals()['nav_lon_grid_'+cd_type].attrs['standard_name'] = 'longitude' |
---|
202 | locals()['nav_lon_grid_'+cd_type].attrs['long_name'] = 'Longitude' |
---|
203 | locals()['nav_lon_grid_'+cd_type].attrs['units'] = 'degrees_east' |
---|
204 | locals()['nav_lat_grid_'+cd_type].attrs['standard_name'] = 'latitude' |
---|
205 | locals()['nav_lat_grid_'+cd_type].attrs['long_name'] = 'Latitude' |
---|
206 | locals()['nav_lat_grid_'+cd_type].attrs['units'] = 'degrees_north' |
---|
207 | |
---|
208 | ## |
---|
209 | #!!! compute areas of cells at coordinate points |
---|
210 | ## |
---|
211 | |
---|
212 | # create areas variables for grid cells from NEMO coordinates.nc file |
---|
213 | # create new variables e1 e2 to keep f_coord the same |
---|
214 | for cd_type in ['t', 'u', 'v', 'f'] : |
---|
215 | for axis in ['1', '2'] : |
---|
216 | coordName = 'e' + axis + cd_type |
---|
217 | locals()[coordName]=f_coord[coordName].copy() |
---|
218 | # remove zero values from areas |
---|
219 | # need to be define for the extended grid south of -80S |
---|
220 | # some point are undefined but you need to have e1 and e2 .NE. 0 |
---|
221 | locals()[coordName]=xr.where(locals()[coordName] == 0.0, 1.0e2, locals()[coordName]) |
---|
222 | |
---|
223 | # Correct areas for straits |
---|
224 | if straits : |
---|
225 | # ORCA R2 configuration |
---|
226 | if model == 'ORCA2.3' : |
---|
227 | # Gibraltar : e2u reduced to 20 km |
---|
228 | e2u[101,138:140] = 20.e3 |
---|
229 | # Bab el Mandeb : e2u reduced to 30 km |
---|
230 | # e1v reduced to 18 km |
---|
231 | e1v[87,159] = 18.e3 |
---|
232 | e2u[87,159] = 30.e3 |
---|
233 | # Danish Straits: e2u reduced to 10 km |
---|
234 | e2u[115,144:146] = 10.e3 |
---|
235 | # ORCA R1 configuration |
---|
236 | if model == 'eORCA1.2' : |
---|
237 | # Gibraltar : e2u reduced to 20 km |
---|
238 | e2u[240,281:283] = 20.e3 |
---|
239 | # Bhosporus : e2u reduced to 10 km |
---|
240 | e2u[247,313:315] = 10.e3 |
---|
241 | # Lombok : e1v reduced to 13 km |
---|
242 | e1v[163:165,43] = 13.e3 |
---|
243 | # Sumba : e1v reduced to 8 km |
---|
244 | e1v[163:165,47] = 8.e3 |
---|
245 | # Ombai : e1v reduced to 13 km |
---|
246 | e1v[163:165,52] = 13.e3 |
---|
247 | # Timor Passage : e1v reduced to 20 km |
---|
248 | #e1v[163:165,55] = 20.e3 |
---|
249 | # W Halmahera : e1v reduced to 30 km |
---|
250 | e1v[180:182,54] = 30.e3 |
---|
251 | # E Halmahera : e1v reduced to 50 km |
---|
252 | e1v[180:182,57] = 50.e3 |
---|
253 | # ORCA R05 configuration |
---|
254 | if model == 'ORCA.05' : |
---|
255 | # Reduced e2u at the Gibraltar Strait |
---|
256 | e2u[326,562:564] = 20.e3 |
---|
257 | # Reduced e2u at the Bosphore Strait |
---|
258 | e2u[342,626:628] = 10.e3 |
---|
259 | # Reduced e2u at the Sumba Strait |
---|
260 | e2u[231,92:94] = 40.e3 |
---|
261 | # Reduced e2u at the Ombai Strait |
---|
262 | e2u[231,102] = 15.e3 |
---|
263 | # Reduced e2u at the Palk Strait |
---|
264 | e2u[269,14] = 10.e3 |
---|
265 | # Reduced e1v at the Lombok Strait |
---|
266 | e1v[231:233,86] = 10.e3 |
---|
267 | # Reduced e1v at the Bab el Mandeb |
---|
268 | e1v[275,661] = 25.e3 |
---|
269 | |
---|
270 | # compute cells areas |
---|
271 | |
---|
272 | for cd_type in ['T', 'U', 'V', 'F', 'W'] : |
---|
273 | areaName = 'area_grid_' + cd_type |
---|
274 | if coordperio : |
---|
275 | locals()[areaName] = nemo.lbc (locals()['e1'+gridv[cd_type]]*locals()['e2'+gridv[cd_type]], |
---|
276 | nperio=nperio, cd_type=cd_type, nemo_4U_bug=nemoUbug) |
---|
277 | else : |
---|
278 | locals()[areaName] = locals()['e1'+gridv[cd_type]]*locals()['e2'+gridv[cd_type]] |
---|
279 | |
---|
280 | # rename indices |
---|
281 | locals()[areaName] = locals()[areaName].rename ({'y':'y_grid_'+cd_type, 'x':'x_grid_'+cd_type}) |
---|
282 | |
---|
283 | # add attributes |
---|
284 | locals()[areaName].name = areaName |
---|
285 | locals()[areaName].attrs['standard_name'] = 'cell_area' |
---|
286 | locals()[areaName].attrs['units'] = 'm2' |
---|
287 | |
---|
288 | # remove fill values |
---|
289 | locals()[areaName].encoding['_FillValue'] = None |
---|
290 | |
---|
291 | ## |
---|
292 | #!!! compute grid bounds !!! |
---|
293 | ## |
---|
294 | |
---|
295 | #--------------------------------------------------------------- |
---|
296 | # function to generate grid bounds from NEMO coordinates.nc file |
---|
297 | def set_bounds (cdgrd) : |
---|
298 | ''' |
---|
299 | Constructs lon/lat bounds |
---|
300 | Bounds are numerated counter clockwise, from bottom left |
---|
301 | See NEMO file OPA_SRC/IOM/iom.F90, ROUTINE set_grid_bounds, for more details |
---|
302 | ''' |
---|
303 | # Define offset of coordinate representing bottom-left corner |
---|
304 | if cdgrd in ['T', 'W'] : |
---|
305 | icnr = -1 ; jcnr = -1 |
---|
306 | corner_lon = f_coord ['glamf'].copy() ; corner_lat = f_coord ['gphif'].copy() |
---|
307 | center_lon = f_coord ['glamt'].copy() ; center_lat = f_coord ['gphit'].copy() |
---|
308 | if cdgrd == 'U' : |
---|
309 | icnr = 0 ; jcnr = -1 |
---|
310 | corner_lon = f_coord ['glamv'].copy() ; corner_lat = f_coord ['gphiv'].copy() |
---|
311 | center_lon = f_coord ['glamu'].copy() ; center_lat = f_coord ['gphiu'].copy() |
---|
312 | if cdgrd == 'V' : |
---|
313 | icnr = -1 ; jcnr = 0 |
---|
314 | corner_lon = f_coord ['glamu'].copy() ; corner_lat = f_coord ['gphiu'].copy() |
---|
315 | center_lon = f_coord ['glamv'].copy() ; center_lat = f_coord ['gphiv'].copy() |
---|
316 | if cdgrd == 'F' : |
---|
317 | icnr = -1 ; jcnr = -1 |
---|
318 | corner_lon = f_coord ['glamt'].copy() ; corner_lat = f_coord ['gphit'].copy() |
---|
319 | center_lon = f_coord ['glamf'].copy() ; center_lat = f_coord ['gphif'].copy() |
---|
320 | |
---|
321 | jpj, jpi = corner_lon.shape ; |
---|
322 | nvertex = 4 |
---|
323 | dims = ['y_grid_' + cdgrd, 'x_grid_' + cdgrd, 'nvertex_grid_' + cdgrd] |
---|
324 | |
---|
325 | bounds_lon = xr.DataArray (np.zeros ((jpj, jpi, nvertex)), dims=dims) |
---|
326 | bounds_lat = xr.DataArray (np.zeros ((jpj, jpi, nvertex)), dims=dims) |
---|
327 | |
---|
328 | idx = [(jcnr,icnr), (jcnr,icnr+1), (jcnr+1,icnr+1), (jcnr+1,icnr)] |
---|
329 | |
---|
330 | # Compute cell vertices that can be defined, |
---|
331 | # and complete with periodicity |
---|
332 | for nn in range (nvertex) : |
---|
333 | tmp = np.roll (corner_lon, shift=tuple(-1*np.array(idx[nn])), axis=(-2,-1)) |
---|
334 | bounds_lon[1:jpj,1:jpi,nn] = tmp[1:jpj,1:jpi] |
---|
335 | tmp = np.roll (corner_lat, shift=tuple(-1*np.array(idx[nn])), axis=(-2,-1)) |
---|
336 | bounds_lat[1:jpj,1:jpi,nn] = tmp[1:jpj,1:jpi] |
---|
337 | bounds_lon[:,:,nn] = nemo.lbc (bounds_lon[:,:,nn], nperio=nperio, cd_type=cdgrd, nemo_4U_bug=nemoUbug) |
---|
338 | bounds_lat[:,:,nn] = nemo.lbc (bounds_lat[:,:,nn], nperio=nperio, cd_type=cdgrd, nemo_4U_bug=nemoUbug) |
---|
339 | |
---|
340 | # Zero-size cells at closed boundaries if cell points provided, |
---|
341 | # otherwise they are closed cells with unrealistic bounds |
---|
342 | if not (nperio == 1 or nperio == 4 or nperio == 6) : |
---|
343 | for nn in range (nvertex) : |
---|
344 | bounds_lon[:,0,nn] = center_lon[:,0] # (West or jpni = 1), closed E-W |
---|
345 | bounds_lat[:,0,nn] = center_lat[:,0] |
---|
346 | bounds_lon[:,jpi,nn] = center_lon[:,jpi] # (East or jpni = 1), closed E-W |
---|
347 | bounds_lat[:,jpi,nn] = center_lat[:,jpi] |
---|
348 | if nperio != 2 : |
---|
349 | for nn in range (nvertex) : |
---|
350 | bounds_lon[0,:,nn] = center_lon[0,:] # (South or jpnj = 1), not symmetric |
---|
351 | bounds_lat[0,:,nn] = center_lat[0,:] |
---|
352 | if nperio < 3 : |
---|
353 | for nn in range (nvertex) : |
---|
354 | bounds_lon[jpj,:,nn] = center_lon[jpj,:] # (North or jpnj = 1), no north fold |
---|
355 | bounds_lat[jpj,:,nn] = center_lat[jpj,:] |
---|
356 | |
---|
357 | # Rotate cells at the north fold |
---|
358 | if nperio >= 3 : |
---|
359 | # Working array for location of northfold |
---|
360 | z_fld = nemo.lbc (np.ones ((jpj, jpi)), nperio=nperio, cd_type=cdgrd, psgn=-1., nemo_4U_bug=nemoUbug) |
---|
361 | z_fld = np.repeat((z_fld == -1.0)[...,np.newaxis],4,axis=2) |
---|
362 | # circular shift of 2 indices in bounds third index |
---|
363 | bounds_lon_tmp = np.roll (bounds_lon, shift=-2, axis=2) |
---|
364 | bounds_lat_tmp = np.roll (bounds_lat, shift=-2, axis=2) |
---|
365 | bounds_lon[:,:,:] = np.where (z_fld, bounds_lon_tmp[:,:,:] , bounds_lon[:,:,:] ) |
---|
366 | bounds_lat[:,:,:] = np.where (z_fld, bounds_lat_tmp[:,:,:] , bounds_lat[:,:,:] ) |
---|
367 | |
---|
368 | # Invert cells at the symmetric equator |
---|
369 | if nperio == 2 : |
---|
370 | bounds_lon_tmp = np.roll (bounds_lon, shift=-2, axis=2) |
---|
371 | bounds_lat_tmp = np.roll (bounds_lat, shift=-2, axis=2) |
---|
372 | bounds_lon [0,:,:] = bounds_lon [0,:,:] |
---|
373 | bounds_lat [0,:,:] = bounds_lat [0,:,:] |
---|
374 | |
---|
375 | #bounds_lon.attrs['coordinates'] = 'nav_lat_grid_' + cdgrd + ' nav_lon_grid_' + cdgrd |
---|
376 | #bounds_lat.attrs['coordinates'] = 'nav_lat_grid_' + cdgrd + ' nav_lon_grid_' + cdgrd |
---|
377 | bounds_lon.attrs['units'] = 'degrees_east' |
---|
378 | bounds_lat.attrs['units'] = 'degrees_north' |
---|
379 | bounds_lon.name = 'bounds_lon_grid_' + cdgrd |
---|
380 | bounds_lat.name = 'bounds_lat_grid_' + cdgrd |
---|
381 | # remove _FillValue |
---|
382 | bounds_lon.encoding['_FillValue'] = None |
---|
383 | bounds_lat.encoding['_FillValue'] = None |
---|
384 | |
---|
385 | return bounds_lon, bounds_lat |
---|
386 | #------------------------------------------------------------ |
---|
387 | |
---|
388 | bounds_lon_grid_T, bounds_lat_grid_T = set_bounds ('T') |
---|
389 | bounds_lon_grid_U, bounds_lat_grid_U = set_bounds ('U') |
---|
390 | bounds_lon_grid_V, bounds_lat_grid_V = set_bounds ('V') |
---|
391 | bounds_lon_grid_W, bounds_lat_grid_W = set_bounds ('W') |
---|
392 | bounds_lon_grid_F, bounds_lat_grid_F = set_bounds ('F') |
---|
393 | |
---|
394 | # build xarray dataset to be saved |
---|
395 | ds = xr.Dataset ({ |
---|
396 | 'mask_T' : mask_T , |
---|
397 | 'mask_U' : mask_U , |
---|
398 | 'mask_V' : mask_V , |
---|
399 | 'mask_W' : mask_W , |
---|
400 | 'mask_F' : mask_F , |
---|
401 | 'area_grid_T' : area_grid_T, |
---|
402 | 'area_grid_U' : area_grid_U, |
---|
403 | 'area_grid_V' : area_grid_V, |
---|
404 | 'area_grid_W' : area_grid_W, |
---|
405 | 'area_grid_F' : area_grid_F, |
---|
406 | 'maskutil_T' : maskutil_T , |
---|
407 | 'maskutil_U' : maskutil_U , |
---|
408 | 'maskutil_V' : maskutil_V , |
---|
409 | 'maskutil_W' : maskutil_W , |
---|
410 | 'maskutil_F' : maskutil_F , |
---|
411 | 'bounds_lon_grid_T': bounds_lon_grid_T, |
---|
412 | 'bounds_lat_grid_T': bounds_lat_grid_T, |
---|
413 | 'bounds_lon_grid_U': bounds_lon_grid_U, |
---|
414 | 'bounds_lat_grid_U': bounds_lat_grid_U, |
---|
415 | 'bounds_lon_grid_V': bounds_lon_grid_V, |
---|
416 | 'bounds_lat_grid_V': bounds_lat_grid_V, |
---|
417 | 'bounds_lon_grid_W': bounds_lon_grid_W, |
---|
418 | 'bounds_lat_grid_W': bounds_lat_grid_W, |
---|
419 | 'bounds_lon_grid_F': bounds_lon_grid_F, |
---|
420 | 'bounds_lat_grid_F': bounds_lat_grid_F, |
---|
421 | }) |
---|
422 | |
---|
423 | #replace nav_lon nav_lat with variables obtained from NEMO coordinates.nc file |
---|
424 | #by construction nav_lon nav_lat come from the bathymetry |
---|
425 | for cd_type in ['T', 'U', 'V', 'F', 'W'] : |
---|
426 | for dir_type in ['lon', 'lat'] : |
---|
427 | coord_name = 'nav_' + dir_type + '_grid_' + cd_type |
---|
428 | ds.coords[coord_name]=locals()[coord_name] |
---|
429 | |
---|
430 | ds.attrs['name'] = 'coordinates_mask' |
---|
431 | ds.attrs['description'] = 'coordinates and mask for MOSAIX' |
---|
432 | ds.attrs['title'] = 'coordinates_mask' |
---|
433 | ds.attrs['source'] = 'IPSL Earth system model' |
---|
434 | ds.attrs['group'] = 'ICMC IPSL Climate Modelling Center' |
---|
435 | ds.attrs['Institution'] = 'IPSL https.//www.ipsl.fr' |
---|
436 | ds.attrs['Model'] = model |
---|
437 | ds.attrs['timeStamp'] = '{:%Y-%b-%d %H:%M:%S}'.format (datetime.datetime.now ()) |
---|
438 | ds.attrs['history'] = 'Build from ' + n_coord + ' and ' + n_bathy |
---|
439 | ds.attrs['directory'] = os.getcwd () |
---|
440 | ds.attrs['user'] = os.getlogin () |
---|
441 | ds.attrs['HOSTNAME'] = platform.node () |
---|
442 | ds.attrs['Python'] = 'Python version: ' + platform.python_version () |
---|
443 | ds.attrs['xarray'] = 'xarray version: ' + xr.__version__ |
---|
444 | ds.attrs['OS'] = platform.system () |
---|
445 | ds.attrs['release'] = platform.release () |
---|
446 | ds.attrs['hardware'] = platform.machine () |
---|
447 | |
---|
448 | ds.attrs['SVN_Author'] = "$Author$" |
---|
449 | ds.attrs['SVN_Date'] = "$Date$" |
---|
450 | ds.attrs['SVN_Revision'] = "$Revision$" |
---|
451 | ds.attrs['SVN_Id'] = "$Id$" |
---|
452 | ds.attrs['SVN_HeadURL'] = "$HeadURL: http://forge.ipsl.jussieu.fr/igcmg/svn/TOOLS/MOSAIX/Build_coordinates_mask.py $" |
---|
453 | |
---|
454 | # save to output file |
---|
455 | ds.to_netcdf (n_out) |
---|