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revision 1.3 by dimitri, Mon Nov 24 01:04:28 2003 UTC revision 1.36 by dimitri, Sun Mar 28 09:28:21 2004 UTC
# Line 1  Line 1 
1  Instructions for setting up a cube-sphere integration with sea-ice.  Instructions for setting up a cube-sphere integration with sea-ice.
2  Date last tested: November 21, 2003.  Date last tested: March 28, 2004.
3    Code and input used for integrating cube5.
4    
5    
6    ##########################################################################
7    ##########################################################################
8    # getting the code from anonymous CVS server
9    
10  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack
11  cvs login ( CVS password: cvsanon )  cvs login ( CVS password: cvsanon )
12    cvs co -r hrcube5 MITgcm_contrib/high_res_cube/README_ice
13    cvs co -r hrcube5 MITgcm_contrib/high_res_cube/code-mods
14    cvs co -r hrcube5 MITgcm_contrib/high_res_cube/input
15    cvs co -r hrcube5 MITgcm_contrib/high_res_cube/results
16    cvs co -r hrcube5 MITgcm_code
17    cvs co -r hrcube5 MITgcm/verification/global_ocean.cs32x15
18    
 cvs co MITgcm_contrib/high_res_cube/README_ice  
 cvs co MITgcm_contrib/high_res_cube/code-mods  
 cvs co MITgcm_contrib/high_res_cube/matlab-grid-converter  
 cvs co MITgcm_contrib/high_res_cube/input  
 cvs co MITgcm_contrib/high_res_cube/results  
19    
20  cvs co -r checkpoint52a_post MITgcm_code  ##########################################################################
21  cvs co -r checkpoint52a_post MITgcm/verification/global_ocean.cs32x15  ##########################################################################
22    # 32*32*6*15, 1-cpu cube sphere
23    
24  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
25  cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
26  cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
 \rm mdsio_readfield.F  
27    
28  cd ..  cd ../build
29  mkdir build  ../../../tools/genmake2 -mods=../code
 cd build  
 ../code/genmake2 -mods=../code  
30  make depend  make depend
31  make  make
32    
33  cd ..  cd ..
34  mkdir run  mkdir run
35  cd run  cd run
36  cp ../input/* .  \cp ../input/* .
37  cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
 cp ../../../../MITgcm_contrib/high_res_cube/input/* .  
38  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
39    
40  comparison output is in:  comparison output is in:
41  ../../../../MITgcm_contrib/high_res_cube/results/output.txt  ../../../../MITgcm_contrib/high_res_cube/results/output.txt
42    
   
43  to use matlab to look at the output  to use matlab to look at the output
44  matlab  matlab
45  eta=permute(readbin('Eta.0000072020.data',[32,6,32]),[1 3 2]);  
46  cx=[-1 1]; clf  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}
47  subplot(3,4, 9);imagesc(flipud(eta(:,:,1)'));caxis(cx);colorbar      tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);
48  subplot(3,4,10);imagesc(flipud(eta(:,:,2)'));caxis(cx);colorbar      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
49  subplot(3,4, 6);imagesc(flipud(eta(:,:,3)'));caxis(cx);colorbar  end
50  subplot(3,4, 7);imagesc(flipud(eta(:,:,4)'));caxis(cx);colorbar  
51  subplot(3,4, 3);imagesc(flipud(eta(:,:,5)'));caxis(cx);colorbar  heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);
52  subplot(3,4, 4);imagesc(flipud(eta(:,:,6)'));caxis(cx);colorbar  mask=0*heff; mask(find(heff>.001))=1;
53    uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]);
54    vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]);
55    clf
56    subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')
57    subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')
58    subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')
59    subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')
60    
61    
62    ##########################################################################
63    ##########################################################################
64    # 32*32*6*15, 2-cpu cube sphere on the altices with efc
65    
66    cd MITgcm/verification/global_ocean.cs32x15/code
67    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
68    \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
69    \cp SIZE.h_mpi SIZE.h
70    
71    cd ../build
72    \rm *
73    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
74    make depend
75    make
76    
77    cd ..
78    mkdir run
79    cd run
80    \rm *
81    \cp ../input/* .
82    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
83    mpirun -np 2 ../build/mitgcmuv
84    
85    
86    ##########################################################################
87    ##########################################################################
88    # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
89    # requires input files in sudirectories run_template and ncep_rgau
90    # presently residing under orion:/tmp1/dmenem/cube
91    
92    cd MITgcm/verification/global_ocean.cs32x15/code
93    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
94    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
95    \cp SIZE.h_54 SIZE.h
96    \cp packages.conf_hr packages.conf
97    
98    cd ../build
99    \rm *
100    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
101    make depend
102    make
103    
104    cd ..
105    mkdir run
106    cd run
107    \rm *
108    \cp ../input/* .
109    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
110    qsub job_orion
111    
112    
113    ##########################################################################
114    ##########################################################################
115    # 510*510*6*50, 54-tile, 54-cpu cube sphere on the altices with efc
116    # starting with pickup file from end of 1992
117    # requires input files in sudirectories run_template and ncep_rgau
118    # presently residing under orion:/tmp1/dmenem/cube
119    
120    cd MITgcm/verification/global_ocean.cs32x15/code
121    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
122    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
123    \cp packages.conf_hr packages.conf
124    
125    cd ../build
126    \rm *
127    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
128    make depend
129    make
130    
131    cd ..
132    mkdir run
133    cd run
134    \rm *
135    \cp ../input/* .
136    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
137    qsub job_altix93_newIO
138    
139    
140    ##########################################################################
141    ##########################################################################
142    # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
143    # requires input files in sudirectories run_template and ncep_rgau
144    # presently residing under orion:/tmp1/dmenem/cube
145    
146    cd MITgcm/verification/global_ocean.cs32x15/code
147    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
148    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
149    \cp SIZE.h_41 SIZE.h
150    \cp packages.conf_hr packages.conf
151    
152    cd ../build
153    \rm *
154    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
155    make depend
156    make
157    
158    cd ..
159    mkdir run
160    cd run
161    \rm *
162    \cp ../input/* .
163    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
164    qsub job_orion41
165    
166    
167    ##########################################################################
168    ##########################################################################
169    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
170    # requires input files in sudirectories run_template and ncep_rgau
171    # presently residing under orion:/tmp1/dmenem/cube
172    
173    cd MITgcm/verification/global_ocean.cs32x15/code
174    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
175    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
176    \cp SIZE.h_50 SIZE.h
177    \cp packages.conf_hr packages.conf
178    
179    cd ../build
180    \rm *
181    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
182    make depend
183    make
184    
185    cd ..
186    mkdir run
187    cd run
188    \rm *
189    \cp ../input/* .
190    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
191    qsub job_orion
192    
193    
194    ##########################################################################
195    ##########################################################################
196    # 510*510*6*50, 216-cpu cube sphere on altix with efc
197    # requires input files in sudirectories run_template and ncep_rgau
198    # these can be obained from lou:/u/menemenl/cube
199    
200    cd MITgcm/verification/global_ocean.cs32x15/code
201    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
202    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
203    \cp SIZE.h_216 SIZE.h
204    \cp packages.conf_hr packages.conf
205    
206    cd ../build
207    \rm *
208    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
209    make depend
210    make
211    
212    cd ..
213    mkdir run
214    cd run
215    \rm *
216    \cp ../input/* .
217    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
218    qsub job_altix
219    
220    
221    ##########################################################################
222    ##########################################################################
223    # matlab script for generating pChkptFreq
224    
225    nTimeSteps=26352;
226    for niter0=216:26352:(26352*12)
227     pChkptFreq=(niter0+nTimeSteps)*1200;
228     day=pChkptFreq/24/60/60;
229     disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...
230     datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])
231    end
232    
233    niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600
234    niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000
235    niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400
236    niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800
237    niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200
238    niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600
239    niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000
240    niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400
241    niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800
242    niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200
243    niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600
244    niter0 = 290088, day = 4395, 13-Jan-2004, pChkptFreq = 379728000
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