1 |
gmaze |
1.1 |
% |
2 |
gmaze |
1.3 |
% [OMEGA] = B_compute_relative_vorticity(SNAPSHOT) |
3 |
gmaze |
1.1 |
% |
4 |
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% For a time snapshot, this program computes the |
5 |
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% 3D relative vorticity field from 3D |
6 |
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% horizontal speed fields U,V (x,y,z) as: |
7 |
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% OMEGA = ( -dVdz ; dUdz ; dVdx - dUdy ) |
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% = ( Ox ; Oy ; ZETA ) |
9 |
gmaze |
1.4 |
% 3 outputs files are created. |
10 |
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% |
11 |
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% (U,V) must have same dimensions and by default are defined on |
12 |
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% a C-grid. |
13 |
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% If (U,V) are defined on an A-grid (coming from a cube-sphere |
14 |
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% to lat/lon grid interpolation for example), ie at the same points |
15 |
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% as THETA, SALTanom, ... the global variable 'griddef' must |
16 |
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% be set to 'A-grid'. Then (U,V) are moved to a C-grid for the computation. |
17 |
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% |
18 |
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% ZETA is computed at the upper-right corner of the C-grid. |
19 |
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% OMEGAX and OMEGAY are computed at V and U locations but shifted downward |
20 |
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% by 1/2 grid. In case of a A-grid for (U,V), OMEGAX and OMEGAY are moved |
21 |
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% to a C-grid according to the ZETA computation. |
22 |
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% |
23 |
gmaze |
1.1 |
% |
24 |
gmaze |
1.2 |
% Files names are: |
25 |
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% INPUT: |
26 |
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% ./netcdf-files/<SNAPSHOT>/<netcdf_UVEL>.<netcdf_domain>.<netcdf_suff> |
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% ./netcdf-files/<SNAPSHOT>/<netcdf_VVEL>.<netcdf_domain>.<netcdf_suff> |
28 |
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% OUPUT: |
29 |
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% ./netcdf-files/<SNAPSHOT>/OMEGAX.<netcdf_domain>.<netcdf_suff> |
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% ./netcdf-files/<SNAPSHOT>/OMEGAY.<netcdf_domain>.<netcdf_suff> |
31 |
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% ./netcdf-files/<SNAPSHOT>/ZETA.<netcdf_domain>.<netcdf_suff> |
32 |
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% |
33 |
gmaze |
1.4 |
% 2006/06/07 |
34 |
gmaze |
1.1 |
% gmaze@mit.edu |
35 |
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% |
36 |
gmaze |
1.4 |
% Last update: |
37 |
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% 2007/02/01 (gmaze) : Fix bug in ZETA grid and add compatibility with A-grid |
38 |
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% |
39 |
gmaze |
1.1 |
|
40 |
gmaze |
1.4 |
% On the C-grid, U and V are supposed to have the same dimensions and are |
41 |
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% defined like this: |
42 |
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% |
43 |
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% y |
44 |
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% ^ ------------------------- |
45 |
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% | | | | | | |
46 |
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% | ny U * U * U * U * | |
47 |
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% | | | | | | |
48 |
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% | ny -- V --- V --- V --- V -- |
49 |
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% | | | | | | |
50 |
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% | U * U * U * U * | |
51 |
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% | | | | | | |
52 |
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% | -- V --- V --- V --- V -- |
53 |
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% | | | | | | |
54 |
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% | U * U * U * U * | |
55 |
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% | | | | | | |
56 |
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% | -- V --- V --- V --- V -- |
57 |
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% | | | | | | |
58 |
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% | 1 U * U * U * U * | |
59 |
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% | | | | | | |
60 |
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% | 1 -- V --- V --- V --- V -- |
61 |
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% | |
62 |
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% | 1 nx |
63 |
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% | 1 nx |
64 |
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%--|-------------------------------------> x |
65 |
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% | |
66 |
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% |
67 |
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% On the A-grid, U and V are defined on *, so we simply shift U westward by 1/2 grid |
68 |
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% and V southward by 1/2 grid. New (U,V) have the same dimensions as original fields |
69 |
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% but with first col for U, and first row for V set to NaN. Values are computed by |
70 |
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% averaging two contiguous values. |
71 |
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% |
72 |
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73 |
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function varargout = B_compute_relative_vorticity(snapshot) |
74 |
gmaze |
1.1 |
|
75 |
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76 |
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%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
77 |
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% Setup |
78 |
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%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
79 |
gmaze |
1.4 |
global sla netcdf_UVEL netcdf_VVEL netcdf_domain netcdf_suff griddef |
80 |
gmaze |
1.1 |
pv_checkpath |
81 |
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82 |
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83 |
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%% U,V files name: |
84 |
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filU = strcat(netcdf_UVEL,'.',netcdf_domain); |
85 |
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filV = strcat(netcdf_VVEL,'.',netcdf_domain); |
86 |
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87 |
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88 |
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%% Path and extension to find them: |
89 |
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pathname = strcat('netcdf-files',sla,snapshot,sla); |
90 |
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ext = strcat('.',netcdf_suff); |
91 |
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92 |
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93 |
gmaze |
1.4 |
%% Load files and axis: |
94 |
gmaze |
1.1 |
ferfile = strcat(pathname,sla,filU,ext); |
95 |
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ncU = netcdf(ferfile,'nowrite'); |
96 |
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[Ulon Ulat Udpt] = coordfromnc(ncU); |
97 |
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98 |
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ferfile = strcat(pathname,sla,filV,ext); |
99 |
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ncV = netcdf(ferfile,'nowrite'); |
100 |
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[Vlon Vlat Vdpt] = coordfromnc(ncV); |
101 |
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102 |
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clear ext ferfile |
103 |
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104 |
gmaze |
1.4 |
%% Load grid definition: |
105 |
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global griddef |
106 |
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if length(griddef) == 0 |
107 |
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griddef = 'C-grid'; % By default |
108 |
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end |
109 |
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switch lower(griddef) |
110 |
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case {'c-grid','cgrid','c'} |
111 |
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% Nothing to do here |
112 |
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case {'a-grid','agrid','a'} |
113 |
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disp('Found (U,V) defined on A-grid') |
114 |
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% Move Ulon westward by 1/2 grid point: |
115 |
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Ulon = [Ulon(1)-abs(diff(Ulon(1:2))/2) ; (Ulon(1:end-1)+Ulon(2:end))/2]; |
116 |
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% Move V southward by 1/2 grid point: |
117 |
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Vlat = [Vlat(1)-abs(diff(Vlat(1:2))/2); (Vlat(1:end-1)+Vlat(2:end))/2]; |
118 |
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% Now, (U,V) axis are defined as if they came from a C-grid |
119 |
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% (U,V) fields are moved to a C-grid during computation... |
120 |
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otherwise |
121 |
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error('The grid must be: C-grid or A-grid'); |
122 |
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return |
123 |
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end %switch griddef |
124 |
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125 |
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126 |
gmaze |
1.1 |
%% Optionnal flags |
127 |
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computeZETA = 1; % Compute ZETA or not ? |
128 |
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global toshow % Turn to 1 to follow the computing process |
129 |
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130 |
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131 |
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%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
132 |
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% VERTICAL COMPONENT: ZETA % |
133 |
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%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
134 |
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135 |
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% U field is on the zonal side of the c-grid and |
136 |
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% V field on the meridional one. |
137 |
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% So computing meridional gradient for U and |
138 |
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% zonal gradient for V makes the relative vorticity |
139 |
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% zeta defined on the corner of the c-grid. |
140 |
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141 |
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%%%%%%%%%%%%%% |
142 |
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%% Dimensions of ZETA field: |
143 |
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if toshow,disp('Dim'),end |
144 |
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ny = length(Ulat)-1; |
145 |
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nx = length(Vlon)-1; |
146 |
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nz = length(Udpt); % Note that Udpt=Vdpt |
147 |
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148 |
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%%%%%%%%%%%%%% |
149 |
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%% Pre-allocation: |
150 |
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if toshow,disp('Pre-allocate'),end |
151 |
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ZETA = zeros(nz,ny-1,nx-1).*NaN; |
152 |
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dx = zeros(ny-1,nx-1); |
153 |
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dy = zeros(ny-1,nx-1); |
154 |
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155 |
gmaze |
1.4 |
ZETA_lon = Ulon(2:nx+1); |
156 |
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ZETA_lat = Vlat(2:ny+1); |
157 |
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158 |
gmaze |
1.1 |
%%%%%%%%%%%%%% |
159 |
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%% Compute relative vorticity for each z-level: |
160 |
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if computeZETA |
161 |
gmaze |
1.4 |
for iz = 1 : nz |
162 |
gmaze |
1.1 |
if toshow |
163 |
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disp(strcat('Computing \zeta at depth : ',num2str(Udpt(iz)),... |
164 |
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'm (',num2str(iz),'/',num2str(nz),')' )); |
165 |
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end |
166 |
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167 |
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% Get velocities: |
168 |
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U = ncU{4}(iz,:,:); |
169 |
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V = ncV{4}(iz,:,:); |
170 |
gmaze |
1.4 |
switch lower(griddef) |
171 |
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case {'a-grid','agrid','a'} |
172 |
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% Move U westward by 1/2 grid point: |
173 |
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% (1st col is set to nan, but axis defined) |
174 |
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U = [ones(ny+1,1).*NaN (U(:,1:end-1) + U(:,2:end))/2]; |
175 |
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% Move V southward by 1/2 grid point: |
176 |
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% (1st row is set to nan but axis defined) |
177 |
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V = [ones(1,nx+1).*NaN; (V(1:end-1,:) + V(2:end,:))/2]; |
178 |
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% Now, U and V are defined as if they came from a C-grid |
179 |
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end |
180 |
gmaze |
1.1 |
|
181 |
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% And now compute the vertical component of relative vorticity: |
182 |
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% (TO DO: m_lldist accepts tables as input, so this part may be |
183 |
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% done without x,y loop ...) |
184 |
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for iy = 1 : ny |
185 |
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for ix = 1 : nx |
186 |
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if iz==1 % It's more efficient to make this test each time than |
187 |
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% recomputing distance each time. m_lldist is a slow routine. |
188 |
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% ZETA axis and grid distance: |
189 |
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dx(iy,ix) = m_lldist([Vlon(ix+1) Vlon(ix)],[1 1]*Vlat(iy)); |
190 |
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dy(iy,ix) = m_lldist([1 1]*Vlon(ix),[Ulat(iy+1) Ulat(iy)]); |
191 |
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end %if |
192 |
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% Horizontal gradients and ZETA: |
193 |
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dVdx = ( V(iy,ix+1)-V(iy,ix) ) / dx(iy,ix) ; |
194 |
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dUdy = ( U(iy+1,ix)-U(iy,ix) ) / dy(iy,ix) ; |
195 |
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ZETA(iz,iy,ix) = dVdx - dUdy; |
196 |
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end %for ix |
197 |
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end %for iy |
198 |
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end %for iz |
199 |
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200 |
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%%%%%%%%%%%%%% |
201 |
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%% Netcdf record: |
202 |
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203 |
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% General informations: |
204 |
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netfil = strcat('ZETA','.',netcdf_domain,'.',netcdf_suff); |
205 |
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units = '1/s'; |
206 |
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ncid = 'ZETA'; |
207 |
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longname = 'Vertical Component of the Relative Vorticity'; |
208 |
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uniquename = 'vertical_relative_vorticity'; |
209 |
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210 |
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% Open output file: |
211 |
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nc = netcdf(strcat(pathname,sla,netfil),'clobber'); |
212 |
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213 |
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% Define axis: |
214 |
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nc('X') = nx; |
215 |
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nc('Y') = ny; |
216 |
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nc('Z') = nz; |
217 |
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218 |
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nc{'X'} = 'X'; |
219 |
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nc{'Y'} = 'Y'; |
220 |
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nc{'Z'} = 'Z'; |
221 |
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222 |
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nc{'X'} = ncfloat('X'); |
223 |
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nc{'X'}.uniquename = ncchar('X'); |
224 |
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nc{'X'}.long_name = ncchar('longitude'); |
225 |
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nc{'X'}.gridtype = nclong(0); |
226 |
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nc{'X'}.units = ncchar('degrees_east'); |
227 |
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nc{'X'}(:) = ZETA_lon; |
228 |
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229 |
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nc{'Y'} = ncfloat('Y'); |
230 |
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nc{'Y'}.uniquename = ncchar('Y'); |
231 |
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nc{'Y'}.long_name = ncchar('latitude'); |
232 |
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nc{'Y'}.gridtype = nclong(0); |
233 |
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nc{'Y'}.units = ncchar('degrees_north'); |
234 |
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nc{'Y'}(:) = ZETA_lat; |
235 |
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236 |
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nc{'Z'} = ncfloat('Z'); |
237 |
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nc{'Z'}.uniquename = ncchar('Z'); |
238 |
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nc{'Z'}.long_name = ncchar('depth'); |
239 |
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nc{'Z'}.gridtype = nclong(0); |
240 |
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nc{'Z'}.units = ncchar('m'); |
241 |
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nc{'Z'}(:) = Udpt; |
242 |
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243 |
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% And main field: |
244 |
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nc{ncid} = ncfloat('Z', 'Y', 'X'); |
245 |
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nc{ncid}.units = ncchar(units); |
246 |
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nc{ncid}.missing_value = ncfloat(NaN); |
247 |
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nc{ncid}.FillValue_ = ncfloat(NaN); |
248 |
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nc{ncid}.longname = ncchar(longname); |
249 |
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nc{ncid}.uniquename = ncchar(uniquename); |
250 |
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nc{ncid}(:,:,:) = ZETA; |
251 |
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252 |
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nc=close(nc); |
253 |
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254 |
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clear x y z U V dx dy nx ny nz DVdx dUdy |
255 |
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256 |
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end %if compute ZETA |
257 |
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258 |
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259 |
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%%%%%%%%%%%%%%%%%%%%%%%%% |
260 |
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% HORIZONTAL COMPONENTS % |
261 |
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%%%%%%%%%%%%%%%%%%%%%%%%% |
262 |
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if toshow, disp('') |
263 |
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disp('Now compute horizontal components of relative vorticity ...'); end |
264 |
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265 |
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% U and V are defined on the same Z grid. |
266 |
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267 |
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%%%%%%%%%%%%%% |
268 |
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%% Dimensions of OMEGA x and y fields: |
269 |
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if toshow,disp('Dim'),end |
270 |
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O_nx = [length(Vlon) length(Ulon)]; |
271 |
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O_ny = [length(Vlat) length(Ulat)]; |
272 |
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O_nz = length(Udpt) - 1; % Idem Vdpt |
273 |
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274 |
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%%%%%%%%%%%%%% |
275 |
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%% Pre-allocations: |
276 |
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if toshow,disp('Pre-allocate'),end |
277 |
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Ox = zeros(O_nz,O_ny(1),O_nx(1)).*NaN; |
278 |
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Oy = zeros(O_nz,O_ny(2),O_nx(2)).*NaN; |
279 |
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280 |
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%%%%%%%%%%%%%% |
281 |
gmaze |
1.4 |
%% Computation: |
282 |
gmaze |
1.1 |
|
283 |
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%% Vertical grid differences: |
284 |
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dZ = diff(Udpt); |
285 |
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Odpt = Udpt(1:O_nz) + dZ/2; |
286 |
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287 |
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%% Zonal component of OMEGA: |
288 |
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if toshow,disp('Zonal direction ...'); end |
289 |
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[a dZ_3D c] = meshgrid(Vlat,dZ,Vlon); clear a c |
290 |
gmaze |
1.4 |
V = ncV{4}(:,:,:); |
291 |
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switch lower(griddef) |
292 |
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case {'a-grid','agrid','a'} |
293 |
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% Move V southward by 1/2 grid point: |
294 |
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% (1st row is set to nan but axis defined) |
295 |
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V = cat(2,ones(O_nz+1,1,O_nx(1)).*NaN,(V(:,1:end-1,:) + V(:,2:end,:))/2); |
296 |
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% Now, V is defined as if it came from a C-grid |
297 |
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end |
298 |
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Ox = - ( V(2:O_nz+1,:,:) - V(1:O_nz,:,:) ) ./ dZ_3D; |
299 |
gmaze |
1.1 |
clear V dZ_3D % For memory use |
300 |
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301 |
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%% Meridional component of OMEGA: |
302 |
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if toshow,disp('Meridional direction ...'); end |
303 |
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[a dZ_3D c] = meshgrid(Ulat,dZ,Ulon); clear a c |
304 |
gmaze |
1.4 |
U = ncU{4}(:,:,:); |
305 |
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switch lower(griddef) |
306 |
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case {'a-grid','agrid','a'} |
307 |
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% Move U westward by 1/2 grid point: |
308 |
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% (1st col is set to nan, but axis defined) |
309 |
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U = cat(3,ones(O_nz+1,O_ny(2),1).*NaN,(U(:,:,1:end-1) + U(:,:,2:end))/2); |
310 |
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% Now, V is defined as if it came from a C-grid |
311 |
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end |
312 |
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Oy = ( U(2:O_nz+1,:,:) - U(1:O_nz,:,:) ) ./ dZ_3D; |
313 |
gmaze |
1.1 |
clear U dZ_3D % For memory use |
314 |
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315 |
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clear dZ |
316 |
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317 |
gmaze |
1.4 |
|
318 |
gmaze |
1.1 |
%%%%%%%%%%%%%% |
319 |
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%% Record Zonal component: |
320 |
|
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if toshow,disp('Records ...'); end |
321 |
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322 |
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% General informations: |
323 |
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netfil = strcat('OMEGAX','.',netcdf_domain,'.',netcdf_suff); |
324 |
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units = '1/s'; |
325 |
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ncid = 'OMEGAX'; |
326 |
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longname = 'Zonal Component of the Relative Vorticity'; |
327 |
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uniquename = 'zonal_relative_vorticity'; |
328 |
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329 |
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% Open output file: |
330 |
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nc = netcdf(strcat(pathname,sla,netfil),'clobber'); |
331 |
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332 |
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% Define axis: |
333 |
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nc('X') = O_nx(1); |
334 |
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nc('Y') = O_ny(1); |
335 |
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nc('Z') = O_nz; |
336 |
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337 |
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nc{'X'} = 'X'; |
338 |
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nc{'Y'} = 'Y'; |
339 |
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nc{'Z'} = 'Z'; |
340 |
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341 |
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nc{'X'} = ncfloat('X'); |
342 |
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nc{'X'}.uniquename = ncchar('X'); |
343 |
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nc{'X'}.long_name = ncchar('longitude'); |
344 |
|
|
nc{'X'}.gridtype = nclong(0); |
345 |
|
|
nc{'X'}.units = ncchar('degrees_east'); |
346 |
|
|
nc{'X'}(:) = Vlon; |
347 |
|
|
|
348 |
|
|
nc{'Y'} = ncfloat('Y'); |
349 |
|
|
nc{'Y'}.uniquename = ncchar('Y'); |
350 |
|
|
nc{'Y'}.long_name = ncchar('latitude'); |
351 |
|
|
nc{'Y'}.gridtype = nclong(0); |
352 |
|
|
nc{'Y'}.units = ncchar('degrees_north'); |
353 |
|
|
nc{'Y'}(:) = Vlat; |
354 |
|
|
|
355 |
|
|
nc{'Z'} = ncfloat('Z'); |
356 |
|
|
nc{'Z'}.uniquename = ncchar('Z'); |
357 |
|
|
nc{'Z'}.long_name = ncchar('depth'); |
358 |
|
|
nc{'Z'}.gridtype = nclong(0); |
359 |
|
|
nc{'Z'}.units = ncchar('m'); |
360 |
|
|
nc{'Z'}(:) = Odpt; |
361 |
|
|
|
362 |
|
|
% And main field: |
363 |
|
|
nc{ncid} = ncfloat('Z', 'Y', 'X'); |
364 |
|
|
nc{ncid}.units = ncchar(units); |
365 |
|
|
nc{ncid}.missing_value = ncfloat(NaN); |
366 |
|
|
nc{ncid}.FillValue_ = ncfloat(NaN); |
367 |
|
|
nc{ncid}.longname = ncchar(longname); |
368 |
|
|
nc{ncid}.uniquename = ncchar(uniquename); |
369 |
|
|
nc{ncid}(:,:,:) = Ox; |
370 |
|
|
|
371 |
|
|
nc=close(nc); |
372 |
|
|
|
373 |
|
|
%%%%%%%%%%%%%% |
374 |
|
|
%% Record Meridional component: |
375 |
|
|
% General informations: |
376 |
|
|
netfil = strcat('OMEGAY','.',netcdf_domain,'.',netcdf_suff); |
377 |
|
|
units = '1/s'; |
378 |
|
|
ncid = 'OMEGAY'; |
379 |
|
|
longname = 'Meridional Component of the Relative Vorticity'; |
380 |
|
|
uniquename = 'meridional_relative_vorticity'; |
381 |
|
|
|
382 |
|
|
% Open output file: |
383 |
|
|
nc = netcdf(strcat(pathname,sla,netfil),'clobber'); |
384 |
|
|
|
385 |
|
|
% Define axis: |
386 |
|
|
nc('X') = O_nx(2); |
387 |
|
|
nc('Y') = O_ny(2); |
388 |
|
|
nc('Z') = O_nz; |
389 |
|
|
|
390 |
|
|
nc{'X'} = 'X'; |
391 |
|
|
nc{'Y'} = 'Y'; |
392 |
|
|
nc{'Z'} = 'Z'; |
393 |
|
|
|
394 |
|
|
nc{'X'} = ncfloat('X'); |
395 |
|
|
nc{'X'}.uniquename = ncchar('X'); |
396 |
|
|
nc{'X'}.long_name = ncchar('longitude'); |
397 |
|
|
nc{'X'}.gridtype = nclong(0); |
398 |
|
|
nc{'X'}.units = ncchar('degrees_east'); |
399 |
|
|
nc{'X'}(:) = Ulon; |
400 |
|
|
|
401 |
|
|
nc{'Y'} = ncfloat('Y'); |
402 |
|
|
nc{'Y'}.uniquename = ncchar('Y'); |
403 |
|
|
nc{'Y'}.long_name = ncchar('latitude'); |
404 |
|
|
nc{'Y'}.gridtype = nclong(0); |
405 |
|
|
nc{'Y'}.units = ncchar('degrees_north'); |
406 |
|
|
nc{'Y'}(:) = Ulat; |
407 |
|
|
|
408 |
|
|
nc{'Z'} = ncfloat('Z'); |
409 |
|
|
nc{'Z'}.uniquename = ncchar('Z'); |
410 |
|
|
nc{'Z'}.long_name = ncchar('depth'); |
411 |
|
|
nc{'Z'}.gridtype = nclong(0); |
412 |
|
|
nc{'Z'}.units = ncchar('m'); |
413 |
|
|
nc{'Z'}(:) = Odpt; |
414 |
|
|
|
415 |
|
|
% And main field: |
416 |
|
|
nc{ncid} = ncfloat('Z', 'Y', 'X'); |
417 |
|
|
nc{ncid}.units = ncchar(units); |
418 |
|
|
nc{ncid}.missing_value = ncfloat(NaN); |
419 |
|
|
nc{ncid}.FillValue_ = ncfloat(NaN); |
420 |
|
|
nc{ncid}.longname = ncchar(longname); |
421 |
|
|
nc{ncid}.uniquename = ncchar(uniquename); |
422 |
|
|
nc{ncid}(:,:,:) = Oy; |
423 |
|
|
|
424 |
|
|
nc=close(nc); |
425 |
gmaze |
1.4 |
close(ncU); |
426 |
|
|
close(ncV); |
427 |
gmaze |
1.3 |
|
428 |
|
|
% Outputs: |
429 |
|
|
OMEGA = struct(... |
430 |
|
|
'Ox',struct('value',Ox,'dpt',Odpt,'lat',Vlat,'lon',Vlon),... |
431 |
|
|
'Oy',struct('value',Oy,'dpt',Odpt,'lat',Ulat,'lon',Vlon),... |
432 |
|
|
'Oz',struct('value',ZETA,'dpt',Udpt,'lat',ZETA_lat,'lon',ZETA_lon)... |
433 |
|
|
); |
434 |
|
|
switch nargout |
435 |
|
|
case 1 |
436 |
gmaze |
1.4 |
varargout(1) = {OMEGA}; |
437 |
gmaze |
1.3 |
end |