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revision 1.13 by dimitri, Sat Jan 10 00:50:25 2004 UTC revision 1.35 by dimitri, Sun Mar 28 08:49:44 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 9, 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  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 checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  cvs co -r hrcube5 MITgcm_contrib/high_res_cube/README_ice
13  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  cvs co -r hrcube5 MITgcm_contrib/high_res_cube/code-mods
14  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  cvs co -r hrcube5 MITgcm_contrib/high_res_cube/input
15  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  cvs co -r hrcube5 MITgcm_contrib/high_res_cube/results
16  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/results  cvs co -r hrcube5 MITgcm_code
17  cvs co -r checkpoint52d_pre MITgcm_code  cvs co -r hrcube5 MITgcm/verification/global_ocean.cs32x15
18  cvs co -r checkpoint52d_pre MITgcm/verification/global_ocean.cs32x15  
19    
20    ##########################################################################
21    ##########################################################################
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
 mkdir build  
 cd build  
29  ../../../tools/genmake2 -mods=../code  ../../../tools/genmake2 -mods=../code
30  make depend  make depend
31  make  make
# Line 32  cd .. Line 34  cd ..
34  mkdir run  mkdir run
35  cd run  cd run
36  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
37  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
38  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
39    
# Line 41  comparison output is in: Line 42  comparison output is in:
42    
43  to use matlab to look at the output  to use matlab to look at the output
44  matlab  matlab
45    
46  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  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]);      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      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
49  end  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, 2-cpu cube sphere on the altices with efc  # 32*32*6*15, 2-cpu cube sphere on the altices with efc
65    
 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  
   
66  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
67  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
68  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
69  \cp SIZE.h_mpi SIZE.h  \cp SIZE.h_mpi SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
 \rm mdsio_readfield.F  
70    
71  cd ..  cd ../build
72  mkdir build  \rm *
 cd build  
73  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
74  make depend  make depend
75  make  make
# Line 78  make Line 77  make
77  cd ..  cd ..
78  mkdir run  mkdir run
79  cd run  cd run
80    \rm *
81  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
82  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
83  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
84    
85    
86  ##########################################################################  ##########################################################################
87  ##########################################################################  ##########################################################################
88  # 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
89    # requires input files in sudirectories run_template and ncep_rgau
90  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  
91    
92  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
93  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
94  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
95  \cp SIZE.h_54 SIZE.h  \cp SIZE.h_54 SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
96  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
97  \cp mom_vi_hdissip.F_hr mom_vi_hdissip.F  
98  \rm mdsio_readfield.F  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 ..  cd ..
105  mkdir build  mkdir run
106  cd build  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    # requires input files in sudirectories run_template and ncep_rgau
117    # presently residing under orion:/tmp1/dmenem/cube
118    
119    cd MITgcm/verification/global_ocean.cs32x15/code
120    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
121    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
122    \cp packages.conf_hr packages.conf
123    
124    cd ../build
125    \rm *
126  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
127  make depend  make depend
128  make  make
# Line 117  make Line 130  make
130  cd ..  cd ..
131  mkdir run  mkdir run
132  cd run  cd run
133    \rm *
134  \cp ../input/* .  \cp ../input/* .
135  \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 .  
136  qsub job_orion  qsub job_orion
137    
138    
139  ##########################################################################  ##########################################################################
140  ##########################################################################  ##########################################################################
141  # 510*510*6*50, 216-cpu cube sphere on altix with efc  # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
142    # requires input files in sudirectories run_template and ncep_rgau
143    # presently residing under orion:/tmp1/dmenem/cube
144    
145  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  cd MITgcm/verification/global_ocean.cs32x15/code
146  cvs login ( CVS password: cvsanon )  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
147  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
148  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  \cp SIZE.h_41 SIZE.h
149  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  \cp packages.conf_hr packages.conf
150  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  
151  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/results  cd ../build
152  cvs co -r checkpoint52d_pre MITgcm_code  \rm *
153  cvs co -r checkpoint52d_pre MITgcm/verification/global_ocean.cs32x15  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
154    make depend
155    make
156    
157    cd ..
158    mkdir run
159    cd run
160    \rm *
161    \cp ../input/* .
162    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
163    qsub job_orion41
164    
165    
166    ##########################################################################
167    ##########################################################################
168    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
169    # requires input files in sudirectories run_template and ncep_rgau
170    # presently residing under orion:/tmp1/dmenem/cube
171    
172    cd MITgcm/verification/global_ocean.cs32x15/code
173    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
174    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
175    \cp SIZE.h_50 SIZE.h
176    \cp packages.conf_hr packages.conf
177    
178    cd ../build
179    \rm *
180    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi
181    make depend
182    make
183    
184    cd ..
185    mkdir run
186    cd run
187    \rm *
188    \cp ../input/* .
189    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
190    qsub job_orion
191    
192    
193    ##########################################################################
194    ##########################################################################
195    # 510*510*6*50, 216-cpu cube sphere on altix with efc
196    # requires input files in sudirectories run_template and ncep_rgau
197    # these can be obained from lou:/u/menemenl/cube
198    
199  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
200  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
201  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
202  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_216 SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
203  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
 \cp mom_vi_hdissip.F_hr mom_vi_hdissip.F  
 \rm mdsio_readfield.F  
204    
205  cd ..  cd ../build
206  mkdir build  \rm *
 cd build  
207  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
208  make depend  make depend
209  make  make
# Line 160  make Line 211  make
211  cd ..  cd ..
212  mkdir run  mkdir run
213  cd run  cd run
214    \rm *
215    \cp ../input/* .
216    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
217  qsub job_altix  qsub job_altix
218    
219    
220    ##########################################################################
221    ##########################################################################
222    # matlab script for generating pChkptFreq
223    
224    nTimeSteps=26352;
225    for niter0=216:26352:(26352*12)
226     pChkptFreq=(niter0+nTimeSteps)*1200;
227     day=pChkptFreq/24/60/60;
228     disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...
229     datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])
230    end
231    
232    niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600
233    niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000
234    niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400
235    niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800
236    niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200
237    niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600
238    niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000
239    niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400
240    niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800
241    niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200
242    niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600
243    niter0 = 290088, day = 4395, 13-Jan-2004, pChkptFreq = 379728000
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