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revision 1.8 by dimitri, Fri Dec 12 10:20:05 2003 UTC revision 1.43 by dimitri, Tue Sep 7 08:26:05 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: December 11, 2003.  Date last tested: July 9, 2004.
3    Code and input used for integrating cube9.
4    
5    
6  ##########################################################################  ##########################################################################
7  ##########################################################################  ##########################################################################
8  # 32*32*6*15, 1-cpu cube sphere  # getting the code from anonymous CVS server
9    
10    cvs co MITgcm_contrib/high_res_cube/README_ice
11    cvs co MITgcm_contrib/high_res_cube/code-mods
12    cvs co MITgcm_contrib/high_res_cube/input
13    cvs co MITgcm_contrib/high_res_cube/results
14    cvs co MITgcm_contrib/edge_problem
15    cvs co MITgcm_code
16    cvs co MITgcm/verification/global_ocean.cs32x15
17    cvs co MITgcm/verification/testreport
18    
19  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  
20  cvs login ( CVS password: cvsanon )  ##########################################################################
21  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  ##########################################################################
22  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  # 32*32*6*15, 1-cpu cube sphere
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/results  
 cvs co -r checkpoint52d_pre MITgcm_code  
 cvs co -r checkpoint52d_pre MITgcm/verification/global_ocean.cs32x15  
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/* .
27  \rm mdsio_readfield.F  cd ../build
28    \rm *
29  cd ..  ../../../tools/genmake2 -mods=../code
 mkdir build  
 cd build  
 ../code/genmake2 -mods=../code  
30  make depend  make depend
31  make  make
32    cd ..
33    mkdir run
34    cd run
35    \rm *
36    \cp ../input/* .
37    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
38    ../build/mitgcmuv >& output.txt
39    
40    comparison output is in:
41    ../../../../MITgcm_contrib/high_res_cube/results/output.txt
42    
43    to use matlab to look at the output
44    matlab
45    
46    for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}
47        tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);
48        cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
49    end
50    
51    heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);
52    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, 17-tile, 1-cpu cube sphere experiment
65    
66    cd MITgcm/verification/global_ocean.cs32x15/code
67    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
68    \cp ../code_alt/code.176t_8x4/* .
69    cd ../build
70    \rm *
71    ../../../tools/genmake2 -mods=../code
72    make depend
73    make
74  cd ..  cd ..
75  mkdir run  mkdir run
76  cd run  cd run
77  \cp ../inp_thsice/* .  \rm *
78  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
79  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
80  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
81    
# Line 42  comparison output is in: Line 84  comparison output is in:
84    
85  to use matlab to look at the output  to use matlab to look at the output
86  matlab  matlab
87    
88  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}
89      tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);      tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);
90      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
91  end  end
92    
93    heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);
94    mask=0*heff; mask(find(heff>.001))=1;
95    uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]);
96    vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]);
97    clf
98    subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')
99    subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')
100    subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')
101    subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')
102    
103    
104  ##########################################################################  ##########################################################################
105  ##########################################################################  ##########################################################################
106  # 32*32*6*15, 2-cpu cube sphere on the altices with efc  # 32*32*6*15, 2-cpu cube sphere on the altices with efc
107    
 setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  
 cvs login ( CVS password: cvsanon )  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  
 cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/results  
 cvs co -r checkpoint52d_pre MITgcm_code  
 cvs co -r checkpoint52d_pre MITgcm/verification/global_ocean.cs32x15  
   
108  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
109  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
110  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
111  \cp SIZE.h_mpi SIZE.h  \cp SIZE.h_mpi SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
 \rm mdsio_readfield.F  
112    
113  cd ..  cd ../build
114  mkdir build  \rm *
115  cd build  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
 ../code/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  
116  make depend  make depend
117  make  make -j
118    
119  cd ..  cd ..
120  mkdir run  mkdir run
121  cd run  cd run
122  \cp ../inp_thsice/* .  \rm *
123  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
124  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
125  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
126    
127    
128  ##########################################################################  ##########################################################################
129  ##########################################################################  ##########################################################################
130  # 32*32*6*15, 2-cpu cube sphere on the altices with efc  # 510*510*6*50, 54-tile, 54-cpu cube sphere on the altices with efc
131    # starting with pickup file from end of 1992
132    # requires input files in sudirectories run_template and ncep_rgau
133    
134    cd MITgcm/verification/global_ocean.cs32x15/code
135    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
136    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
137    \cp packages.conf_hr packages.conf
138    
139    cd ../build
140    \rm *
141    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
142    make depend
143    make -j
144    
145    cd ..
146    mkdir run
147    cd run
148    \rm *
149    \cp ../input/* .
150    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
151    qsub job_altix92_54t
152    
153    
154    ##########################################################################
155    ##########################################################################
156    # 510*510*6*50, 216-cpu cube sphere on altix with efc
157    # requires input files in sudirectories run_template and ncep_rgau
158    # these can be obained from lou:/u/menemenl/cube
159    
160    cd MITgcm/verification/global_ocean.cs32x15/code
161    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
162    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
163    \cp SIZE.h_216 SIZE.h
164    \cp packages.conf_hr packages.conf
165    
166    cd ../build
167    \rm *
168    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
169    make depend
170    make -j 16
171    
172    cd ..
173    mkdir run
174    cd run
175    \rm *
176    \cp ../input/* .
177    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
178    qsub job_altix92
179    
180    
181    
182    
183    
184    
185    
186    
187    
188    
189    
190  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  
191  cvs login ( CVS password: cvsanon )  
192  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  
193  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  
194  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  
195  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  
196  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/results  
197  cvs co -r checkpoint52d_pre MITgcm_code  ##########################################################################
198  cvs co -r checkpoint52d_pre MITgcm/verification/global_ocean.cs32x15  ##########################################################################
199    # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
200    # requires input files in sudirectories run_template and ncep_rgau
201    # presently residing under orion:/tmp1/dmenem/cube
202    
203  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
204  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
205  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
206  \cp SIZE.h_54 SIZE.h  \cp SIZE.h_54 SIZE.h
207  \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  \cp packages.conf_hr packages.conf
208  \rm mdsio_readfield.F  
209    cd ../build
210    \rm *
211    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
212    make depend
213    make -j
214    
215  cd ..  cd ..
216  mkdir build  mkdir run
217  cd build  cd run
218  ../code/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  \rm *
219    \cp ../input/* .
220    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
221    qsub job_orion
222    
223    
224    ##########################################################################
225    ##########################################################################
226    # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
227    # requires input files in sudirectories run_template and ncep_rgau
228    # presently residing under orion:/tmp1/dmenem/cube
229    
230    cd MITgcm/verification/global_ocean.cs32x15/code
231    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
232    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
233    \cp SIZE.h_41 SIZE.h
234    \cp packages.conf_hr packages.conf
235    
236    cd ../build
237    \rm *
238    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
239  make depend  make depend
240  make  make -j
241    
242    cd ..
243    mkdir run
244    cd run
245    \rm *
246    \cp ../input/* .
247    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
248    qsub job_orion41
249    
250    
251    ##########################################################################
252    ##########################################################################
253    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
254    # requires input files in sudirectories run_template and ncep_rgau
255    # presently residing under orion:/tmp1/dmenem/cube
256    
257    cd MITgcm/verification/global_ocean.cs32x15/code
258    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
259    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
260    \cp SIZE.h_50 SIZE.h
261    \cp packages.conf_hr packages.conf
262    
263    cd ../build
264    \rm *
265    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
266    make depend
267    make -j
268    
269  cd ..  cd ..
270  mkdir run  mkdir run
271  cd run  cd run
272  \cp ../inp_thsice/* .  \rm *
273  \cp ../input/* .  \cp ../input/* .
274  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
 \cp data_hr data  
 \ln -sf ../../../../run_template/tile00* .  
 \ln -sf ../../../../run_template/LEV* .  
 \ln -sf ../../../../run_template/BATHY_18360x85_filled.bin .  
275  qsub job_orion  qsub job_orion
276    
277    
278    ##########################################################################
279    ##########################################################################
280    # matlab script for generating pChkptFreq
281    
282    nTimeSteps=26352;
283    for niter0=216:26352:(26352*12)
284     pChkptFreq=(niter0+nTimeSteps)*1200;
285     day=pChkptFreq/24/60/60;
286     disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...
287     datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])
288    end
289    
290    niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600
291    niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000
292    niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400
293    niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800
294    niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200
295    niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600
296    niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000
297    niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400
298    niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800
299    niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200
300    niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600
301    niter0 = 290088, day = 4395, 13-Jan-2004, pChkptFreq = 379728000
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