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revision 1.23 by dimitri, Sat Feb 7 23:18:05 2004 UTC revision 1.56 by dimitri, Mon Feb 21 21:53:46 2005 UTC
# Line 1  Line 1 
1  Instructions for setting up a cube-sphere integration with sea-ice.  daInstructions for setting up a cube-sphere integration with sea-ice.
2  Date last tested: January 24, 2004.  Date last updated: February 17, 2005
3  This is the code used for cube2, the second 1992-2002 510x510x6  Code and input used for integrating cube22.
 cube-sphere integration.  
4    
5    
6  ##########################################################################  ##########################################################################
7  ##########################################################################  ##########################################################################
8  # getting the code from anonymous CVS server  # getting the code from anonymous CVS server
9    
10  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  cvs co MITgcm_contrib/high_res_cube/README_ice
11  cvs login ( CVS password: cvsanon )  cvs co MITgcm_contrib/high_res_cube/code-mods
12  cvs co -r hrcube_2 MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/input
13  cvs co -r hrcube_2 MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/results
14  cvs co -r hrcube_2 MITgcm_contrib/high_res_cube/matlab-grid-converter  cvs co MITgcm_code
15  cvs co -r hrcube_2 MITgcm_contrib/high_res_cube/input  cvs co MITgcm/verification/global_ocean.cs32x15
16  cvs co -r hrcube_2 MITgcm_contrib/high_res_cube/results  cvs co MITgcm/verification/testreport
 cvs co -r hrcube_2 MITgcm_code  
 cvs co -r hrcube_2 MITgcm/verification/global_ocean.cs32x15  
17    
18    
19  ##########################################################################  ##########################################################################
# Line 25  cvs co -r hrcube_2 MITgcm/verification/g Line 22  cvs co -r hrcube_2 MITgcm/verification/g
22    
23  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
24  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
25  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
26    cd ../build
27  cd ..  \rm *
 mkdir build  
 cd build  
28  ../../../tools/genmake2 -mods=../code  ../../../tools/genmake2 -mods=../code
29  make depend  make depend
30  make  make
   
31  cd ..  cd ..
32  mkdir run  mkdir run
33  cd run  cd run
34    \rm *
35  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
36  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
37  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
38    
# Line 48  comparison output is in: Line 42  comparison output is in:
42  to use matlab to look at the output  to use matlab to look at the output
43  matlab  matlab
44    
45  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...
46             'QNETtave','FVtave','FUtave','EmPmRtave'}
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]);  heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);
52  mask=0*heff; mask(find(heff>.001))=1;  mask=0*heff; mask(find(heff>.001))=1;
53  uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]);  uice=mask.*permute(readbin(['UICEtave.0000000020.data'],[32,6,32]),[1 3 2]);
54  vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]);  vice=mask.*permute(readbin(['VICEtave.0000000020.data'],[32,6,32]),[1 3 2]);
55  clf  clf
56  subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')
57  subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')
58  subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')  subplot(223), mypcolor(vice(:,:,3)'); colorbar, title('vice, tile 3')
59  subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')  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, 17-tile, 1-cpu cube sphere experiment
65    
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 ../code_alt/code.176t_8x4/* .
69    cd ../build
70    \rm *
71    ../../../tools/genmake2 -mods=../code
72    make depend
73    make
74    cd ..
75    mkdir run
76    cd run
77    \rm *
78    \cp ../input/* .
79    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
80    ../build/mitgcmuv >& output.txt
81    
82    
83    ##########################################################################
84    ##########################################################################
85    # 32*32*6*15, 2-cpu cube sphere on the altices with ifort
86    
87    cd MITgcm/verification/global_ocean.cs32x15/code
88    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
89    \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
90  \cp SIZE.h_mpi SIZE.h  \cp SIZE.h_mpi SIZE.h
91    
92  cd ..  cd ../build
 mkdir build  
 cd build  
93  \rm *  \rm *
94  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
95  make depend  make depend
96  make  make -j
97    
98  cd ..  cd ..
99  mkdir run  mkdir run
100  cd run  cd run
101  \rm *  \rm *
102  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
103  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
104  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
105    
106    
107  ##########################################################################  ##########################################################################
108  ##########################################################################  ##########################################################################
109  # 510*510*6*50, 54-cpu cube sphere on the altices with efc  # 510*510*6*50, 54-tile, 54-cpu cube sphere on the altices with efc
110    # starting with pickup file from end of 1992
111  # requires input files in sudirectories run_template and ncep_rgau  # requires input files in sudirectories run_template and ncep_rgau
112  # presently residing under orion:/tmp1/dmenem/cube  
113    cd MITgcm/verification/global_ocean.cs32x15/code
114    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
115    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
116    \cp packages.conf_hr packages.conf
117    
118    cd ../build
119    \rm *
120    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
121    make depend
122    make -j
123    
124    cd ..
125    mkdir run
126    cd run
127    \rm *
128    \cp ../input/* .
129    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
130    qsub job_altix92_54t
131    
132    
133    ##########################################################################
134    ##########################################################################
135    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
136    # requires input files in sudirectories run_template and ncep_rgau
137    # these can be obained from lou:/u/menemenl/cube
138    
139  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
140  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
141  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
142  \cp SIZE.h_54 SIZE.h  \cp SIZE.h_216 SIZE.h
143  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
144    
145    cd ../build
146    \rm *
147    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
148    make depend
149    make -j
150    
151  cd ..  cd ..
152  mkdir build  mkdir run
153  cd build  cd run
154    \rm *
155    \cp ../input/* .
156    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
157    ln -sf ../../../../run_template/* .
158    \rm pickup*
159    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data
160    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data
161    \cp ../build/mitgcmuv .
162    qsub job_altix92
163    
164    
165    ##########################################################################
166    ##########################################################################
167    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
168    # uses s1500t_17x51 configuration
169    # example for running on c17-c20 using arrayd
170    
171    cd MITgcm/verification/global_ocean.cs32x15/code
172    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
173    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
174    \cp SIZE.h_375 SIZE.h
175    \cp packages.conf_hr packages.conf
176    
177    cd ../build
178  \rm *  \rm *
179  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
180  make depend  make depend
181  make  make -j
182    
183  cd ..  cd ..
184  mkdir run  mkdir run
# Line 117  cd run Line 186  cd run
186  \rm *  \rm *
187  \cp ../input/* .  \cp ../input/* .
188  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
189  qsub job_orion  ln -sf ../../../../run_template/* .
190    \rm pickup*
191    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data
192    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data
193    \cp ../build/mitgcmuv .
194    job_c17_c20 < /dev/null >&! output.run &
195    
196    
197    
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213    
214    
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216    
217    
218    
219  ##########################################################################  ##########################################################################
220  ##########################################################################  ##########################################################################
221  # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc  # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
222  # requires input files in sudirectories run_template and ncep_rgau  # requires input files in sudirectories run_template and ncep_rgau
223  # presently residing under orion:/tmp1/dmenem/cube  # presently residing under orion:/tmp1/dmenem/cube
224    
225  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
226  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
227  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
228  \cp SIZE.h_41 SIZE.h  \cp SIZE.h_54 SIZE.h
229  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
230    
231  cd ..  cd ../build
 mkdir build  
 cd build  
232  \rm *  \rm *
233  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
234  make depend  make depend
235  make  make -j
236    
237  cd ..  cd ..
238  mkdir run  mkdir run
# Line 151  qsub job_orion Line 245  qsub job_orion
245    
246  ##########################################################################  ##########################################################################
247  ##########################################################################  ##########################################################################
248  # 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
249  # requires input files in sudirectories run_template and ncep_rgau  # requires input files in sudirectories run_template and ncep_rgau
250  # these can be obained from lou:/u/menemenl/cube  # presently residing under orion:/tmp1/dmenem/cube
251    
252  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
253  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
254  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
255  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_41 SIZE.h
256  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
257    
258  cd ..  cd ../build
 mkdir build  
 cd build  
259  \rm *  \rm *
260  ../../../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
261  make depend  make depend
262  make  make -j
263    
264  cd ..  cd ..
265  mkdir run  mkdir run
# Line 175  cd run Line 267  cd run
267  \rm *  \rm *
268  \cp ../input/* .  \cp ../input/* .
269  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
270  qsub job_altix  qsub job_orion41
271    
272    
273  ##########################################################################  ##########################################################################
274  ##########################################################################  ##########################################################################
275  # matlab script for generating pChkptFreq  # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
276    # requires input files in sudirectories run_template and ncep_rgau
277    # presently residing under orion:/tmp1/dmenem/cube
278    
279  nTimeSteps=26352;  cd MITgcm/verification/global_ocean.cs32x15/code
280  for niter0=216:26352:(26352*11)  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
281   pChkptFreq=(niter0+nTimeSteps)*1200;  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
282   day=pChkptFreq/24/60/60;  \cp SIZE.h_50 SIZE.h
283   disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...  \cp packages.conf_hr packages.conf
284   datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])  
285  end  cd ../build
286    \rm *
287    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
288    make depend
289    make -j
290    
291  niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600  cd ..
292  niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000  mkdir run
293  niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400  cd run
294  niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800  \rm *
295  niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200  \cp ../input/* .
296  niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
297  niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000  qsub job_orion
 niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400  
 niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800  
 niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200  
 niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600  
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