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revision 1.8 by dimitri, Fri Dec 12 10:20:05 2003 UTC revision 1.41 by dimitri, Fri Jul 9 23:54:52 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 -r checkpoint54b_post MITgcm_code
16    cvs co -r checkpoint54b_post MITgcm/verification/global_ocean.cs32x15
17    cvs co -r checkpoint54b_post 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, 216-tile, 54-cpu cube sphere on the altices with efc
131    # requires input files in sudirectories run_template and ncep_rgau
132  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  # presently residing under orion:/tmp1/dmenem/cube
 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  
133    
134  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
135  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
136  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
137  \cp SIZE.h_54 SIZE.h  \cp SIZE.h_54 SIZE.h
138  \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  \cp packages.conf_hr packages.conf
139  \rm mdsio_readfield.F  
140    cd ../build
141    \rm *
142    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
143    make depend
144    make -j
145    
146  cd ..  cd ..
147  mkdir build  mkdir run
148  cd build  cd run
149  ../code/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  \rm *
150    \cp ../input/* .
151    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
152    qsub job_orion
153    
154    
155    ##########################################################################
156    ##########################################################################
157    # 510*510*6*50, 54-tile, 54-cpu cube sphere on the altices with efc
158    # starting with pickup file from end of 1992
159    # requires input files in sudirectories run_template and ncep_rgau
160    
161    cd MITgcm/verification/global_ocean.cs32x15/code
162    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
163    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
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  make depend
170  make  make -j
171    
172  cd ..  cd ..
173  mkdir run  mkdir run
174  cd run  cd run
175  \cp ../inp_thsice/* .  \rm *
176    \cp ../input/* .
177    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
178    qsub job_altix92_54t
179    
180    
181    ##########################################################################
182    ##########################################################################
183    # 510*510*6*50, 216-cpu cube sphere on altix with efc
184    # requires input files in sudirectories run_template and ncep_rgau
185    # these can be obained from lou:/u/menemenl/cube
186    
187    cd MITgcm/verification/global_ocean.cs32x15/code
188    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
189    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
190    \cp SIZE.h_216 SIZE.h
191    \cp packages.conf_hr packages.conf
192    
193    cd ../build
194    \rm *
195    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
196    make depend
197    make -j
198    
199    cd ..
200    mkdir run
201    cd run
202    \rm *
203    \cp ../input/* .
204    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
205    qsub job_altix92
206    
207    
208    
209    
210    
211    
212    
213    
214    
215    
216    
217    
218    
219    
220    
221    
222    
223    
224    
225    
226    
227    
228    
229    
230    
231    
232    
233    ##########################################################################
234    ##########################################################################
235    # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
236    # requires input files in sudirectories run_template and ncep_rgau
237    # presently residing under orion:/tmp1/dmenem/cube
238    
239    cd MITgcm/verification/global_ocean.cs32x15/code
240    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
241    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
242    \cp SIZE.h_41 SIZE.h
243    \cp packages.conf_hr packages.conf
244    
245    cd ../build
246    \rm *
247    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
248    make depend
249    make -j
250    
251    cd ..
252    mkdir run
253    cd run
254    \rm *
255    \cp ../input/* .
256    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
257    qsub job_orion41
258    
259    
260    ##########################################################################
261    ##########################################################################
262    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
263    # requires input files in sudirectories run_template and ncep_rgau
264    # presently residing under orion:/tmp1/dmenem/cube
265    
266    cd MITgcm/verification/global_ocean.cs32x15/code
267    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
268    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
269    \cp SIZE.h_50 SIZE.h
270    \cp packages.conf_hr packages.conf
271    
272    cd ../build
273    \rm *
274    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
275    make depend
276    make -j
277    
278    cd ..
279    mkdir run
280    cd run
281    \rm *
282  \cp ../input/* .  \cp ../input/* .
283  \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 .  
284  qsub job_orion  qsub job_orion
285    
286    
287    ##########################################################################
288    ##########################################################################
289    # matlab script for generating pChkptFreq
290    
291    nTimeSteps=26352;
292    for niter0=216:26352:(26352*12)
293     pChkptFreq=(niter0+nTimeSteps)*1200;
294     day=pChkptFreq/24/60/60;
295     disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...
296     datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])
297    end
298    
299    niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600
300    niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000
301    niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400
302    niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800
303    niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200
304    niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600
305    niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000
306    niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400
307    niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800
308    niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200
309    niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600
310    niter0 = 290088, day = 4395, 13-Jan-2004, pChkptFreq = 379728000
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