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revision 1.9 by dimitri, Sun Dec 14 02:06:15 2003 UTC revision 1.40 by dimitri, Thu Jul 1 03:52:24 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: March 28, 2004.
3    Code and input used for integrating cube5.
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
 ../code/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  
116  make depend  make depend
117  make  make
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  # 510*510*6*50, 54-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
 \rm mdsio_readfield.F  
139    
140  cd ..  cd ../build
141  mkdir build  \rm *
142  cd build  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
 ../code/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  
143  make depend  make depend
144  make  make
145    
146  cd ..  cd ..
147  mkdir run  mkdir run
148  cd run  cd run
149  \cp ../inp_thsice/* .  \rm *
150  \cp ../input/* .  \cp ../input/* .
151  \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 .  
152  qsub job_orion  qsub job_orion
153    
154    
155  ##########################################################################  ##########################################################################
156  ##########################################################################  ##########################################################################
157  # 510*510*6*50, 216-cpu cube sphere on the altices with efc  # 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
170    make
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_altix93_newIO
179    
180  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  
181  cvs login ( CVS password: cvsanon )  ##########################################################################
182  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  ##########################################################################
183  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
184  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  # requires input files in sudirectories run_template and ncep_rgau
185  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  # presently residing under orion:/tmp1/dmenem/cube
 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  
186    
187  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
188  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
189  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
190  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_41 SIZE.h
191  \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  \cp packages.conf_hr packages.conf
192  \rm mdsio_readfield.F  
193    cd ../build
194    \rm *
195    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
196    make depend
197    make
198    
199  cd ..  cd ..
200  mkdir build  mkdir run
201  cd build  cd run
202    \rm *
203    \cp ../input/* .
204    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
205    qsub job_orion41
206    
207    
208    ##########################################################################
209    ##########################################################################
210    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
211    # requires input files in sudirectories run_template and ncep_rgau
212    # presently residing under orion:/tmp1/dmenem/cube
213    
214    cd MITgcm/verification/global_ocean.cs32x15/code
215    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
216    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
217    \cp SIZE.h_50 SIZE.h
218    \cp packages.conf_hr packages.conf
219    
220    cd ../build
221    \rm *
222  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
223  make depend  make depend
224  make  make
# Line 158  make Line 226  make
226  cd ..  cd ..
227  mkdir run  mkdir run
228  cd run  cd run
229  \cp ../inp_thsice/* .  \rm *
230  \cp ../input/* .  \cp ../input/* .
231  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
 \cp data_hr data  
 \cp data.pkg_hr data.pkg  
 \ln -sf ../../../../run_template/tile00* .  
 \ln -sf ../../../../run_template/LEV* .  
 \ln -sf ../../../../run_template/BATHY_18360x85_filled.bin .  
232  qsub job_orion  qsub job_orion
233    
234    
235    ##########################################################################
236    ##########################################################################
237    # 510*510*6*50, 216-cpu cube sphere on altix with efc
238    # requires input files in sudirectories run_template and ncep_rgau
239    # these can be obained from lou:/u/menemenl/cube
240    
241    cd MITgcm/verification/global_ocean.cs32x15/code
242    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
243    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
244    \cp SIZE.h_216 SIZE.h
245    \cp packages.conf_hr packages.conf
246    
247    cd ../build
248    \rm *
249    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
250    make depend
251    make
252    
253    cd ..
254    mkdir run
255    cd run
256    \rm *
257    \cp ../input/* .
258    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
259    qsub job_altix
260    
261    
262    ##########################################################################
263    ##########################################################################
264    # matlab script for generating pChkptFreq
265    
266    nTimeSteps=26352;
267    for niter0=216:26352:(26352*12)
268     pChkptFreq=(niter0+nTimeSteps)*1200;
269     day=pChkptFreq/24/60/60;
270     disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...
271     datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])
272    end
273    
274    niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600
275    niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000
276    niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400
277    niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800
278    niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200
279    niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600
280    niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000
281    niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400
282    niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800
283    niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200
284    niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600
285    niter0 = 290088, day = 4395, 13-Jan-2004, pChkptFreq = 379728000
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