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revision 1.45 by dimitri, Mon Dec 20 22:40:30 2004 UTC revision 1.61 by dimitri, Wed Dec 14 05:12:19 2005 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: July 9, 2004.  Date last updated: December 13, 2005
3  Code and input used for integrating cube9.  216-CPU code and input used for integrating cube27.
4    
5    
6  ##########################################################################  ##########################################################################
# Line 13  cvs co MITgcm_contrib/high_res_cube/inpu Line 13  cvs co MITgcm_contrib/high_res_cube/inpu
13  cvs co MITgcm_contrib/high_res_cube/results  cvs co MITgcm_contrib/high_res_cube/results
14  cvs co MITgcm_code  cvs co MITgcm_code
15  cvs co MITgcm/verification/global_ocean.cs32x15  cvs co MITgcm/verification/global_ocean.cs32x15
 cvs co MITgcm/verification/testreport  
16    
17    
18  ##########################################################################  ##########################################################################
# Line 42  comparison output is in: Line 41  comparison output is in:
41  to use matlab to look at the output  to use matlab to look at the output
42  matlab  matlab
43    
44  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...
45             'QNETtave','FVtave','FUtave','EmPmRtave'}
46      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]);
47      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
48  end  end
49    
50  heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);  heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);
51  mask=0*heff; mask(find(heff>.001))=1;  mask=0*heff; mask(find(heff>.001))=1;
52  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]);
53  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]);
54  clf  clf
55  subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')
56  subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')
57  subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')  subplot(223), mypcolor(vice(:,:,3)'); colorbar, title('vice, tile 3')
58  subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')  subplot(224), mypcolor(vice(:,:,6)'); colorbar, title('vice, tile 6')
59    
60    
61  ##########################################################################  ##########################################################################
# Line 78  cd run Line 78  cd run
78  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
79  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
80    
 comparison output is in:  
 ../../../../MITgcm_contrib/high_res_cube/results/output.txt  
   
 to use matlab to look at the output  
 matlab  
   
 for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  
     tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);  
     cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause  
 end  
   
 heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);  
 mask=0*heff; mask(find(heff>.001))=1;  
 uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]);  
 vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]);  
 clf  
 subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')  
 subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')  
 subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')  
 subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')  
   
81    
82  ##########################################################################  ##########################################################################
83  ##########################################################################  ##########################################################################
84  # 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 ifort
85    
86  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
87  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
# Line 111  cd MITgcm/verification/global_ocean.cs32 Line 90  cd MITgcm/verification/global_ocean.cs32
90    
91  cd ../build  cd ../build
92  \rm *  \rm *
93  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
94  make depend  make depend
95  make -j  make -j
96    
# Line 152  qsub job_altix92_54t Line 131  qsub job_altix92_54t
131    
132  ##########################################################################  ##########################################################################
133  ##########################################################################  ##########################################################################
134  # 510*510*6*50, 216-cpu cube sphere on altix with efc  # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
135  # requires input files in sudirectories run_template and ncep_rgau  # requires input files in sudirectories run_template and ncep_rgau
136  # these can be obained from lou:/u/menemenl/cube  # these can be obained from lou:/u/menemenl/cube
137    
# Line 164  cd MITgcm/verification/global_ocean.cs32 Line 143  cd MITgcm/verification/global_ocean.cs32
143    
144  cd ../build  cd ../build
145  \rm *  \rm *
146  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/llinux_ia64_ifort+mpi_altix_nas  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
147  make depend  make depend
148  make -j 4  make -j
149    
150  cd ..  cd ..
151  mkdir run  mkdir run
# Line 175  cd run Line 154  cd run
154  \cp ../input/* .  \cp ../input/* .
155  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
156  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
157  ln -sf pickup.0000290088.data.cube10 pickup.0000000216.data  \rm pickup*
158  ln -sf pickup_seaice.0000290088.data.cube10 pickup_seaice.0000000216.data  ln -sf ../../../../run_template/pickup.0000000216.cube27 pickup.0000000216
159    ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube27 pickup_seaice.0000000216
160  \cp ../build/mitgcmuv .  \cp ../build/mitgcmuv .
161  qsub job_altix92  qsub job_altix
162    
163    
164    ##########################################################################
165    ##########################################################################
166    # 510*510*6*50, 1500-tile, 150-cpu, excludes land
167    # uses s1500t_17x51 configuration
168    
169    cd MITgcm/verification/global_ocean.cs32x15/code
170    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
171    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
172    \cp SIZE.h_150 SIZE.h
173    \cp packages.conf_hr packages.conf
174    
175    cd ../build
176    \rm *
177    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
178    make depend
179    make -j
180    
181    cd ..
182    mkdir run
183    cd run
184    \rm *
185    \cp ../input/* .
186    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
187    ln -sf ../../../../run_template/* .
188    \rm pickup*
189    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
190    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
191    \cp ../build/mitgcmuv mitgcmuv150
192    qsub job_altix150
193    
194    
195    
196    
197    ##########################################################################
198    ##########################################################################
199    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
200    # uses s1500t_17x51 configuration
201    # example for running on c17-c20 using arrayd
202    
203    cd MITgcm/verification/global_ocean.cs32x15/code
204    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
205    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
206    \cp SIZE.h_375 SIZE.h
207    \cp packages.conf_hr packages.conf
208    
209    cd ../build
210    \rm *
211    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
212    make depend
213    make -j
214    
215    cd ..
216    mkdir run
217    cd run
218    \rm *
219    \cp ../input/* .
220    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
221    ln -sf ../../../../run_template/* .
222    \rm pickup*
223    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
224    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
225    \cp ../build/mitgcmuv .
226    job_c20_375cpu < /dev/null >&! output.run &
227    
228    
229    
230    
231    
232    
233    
234    
235    
236    
237    
238    
239    ##########################################################################
240    ##########################################################################
241    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
242    # uses s1500t_17x51 configuration
243    # example for running on c17-c20 using arrayd
244    
245    cd MITgcm/verification/global_ocean.cs32x15/code
246    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
247    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
248    \cp SIZE.h_375 SIZE.h
249    \cp packages.conf_hr packages.conf
250    
251    cd ../build
252    \rm *
253    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
254    make depend
255    make -j
256    
257    cd ..
258    mkdir run
259    cd run
260    \rm *
261    \cp ../input/* .
262    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
263    ln -sf ../../../../run_template/* .
264    \rm pickup*
265    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
266    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
267    \cp ../build/mitgcmuv .
268    job_c20_375cpu < /dev/null >&! output.run &
269    
270    
271    ##########################################################################
272    ##########################################################################
273    # 510*510*6*50, 1500-tile, 500-cpu, excludes land
274    # uses s1500t_17x51 configuration
275    # example for running on c17-c20 using arrayd
276    
277    cd MITgcm/verification/global_ocean.cs32x15/code
278    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
279    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
280    \cp SIZE.h_500 SIZE.h
281    \cp packages.conf_hr packages.conf
282    
283    cd ../build
284    \rm *
285    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
286    make depend
287    make -j
288    
289    cd ..
290    mkdir run
291    cd run
292    \rm *
293    \cp ../input/* .
294    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
295    ln -sf ../../../../run_template/* .
296    \rm pickup*
297    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
298    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
299    \cp ../build/mitgcmuv .
300    job_c19_500cpu < /dev/null >&! output.run &
301    
302    
303    
304    
305    
306    ##########################################################################
307    ##########################################################################
308    # 510*510*6*50, 216-cpu cube sphere on cosmos
309    
310    cd MITgcm/verification/global_ocean.cs32x15/code
311    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
312    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
313    \cp SIZE.h_216 SIZE.h
314    \cp packages.conf_hr packages.conf
315    
316    module unload latest_intel80
317    module unload mpich-gm-intel80
318    module load latest_intel81
319    module load mpich-gm-intel81
320    
321    cd ../build
322    \rm *
323    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia32_ifort+mpi_cosmos
324    make depend
325    make -j
326    
327    cd ..
328    mkdir run
329    cd run
330    \rm *
331    \cp ../input/* .
332    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
333    ln -sf ../../../../run_template/* .
334    \rm pickup*
335    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
336    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
337    \cp ../build/mitgcmuv .
338    bsub < job_cosmos
339    
340    
341    
342    
343    
# Line 276  cd run Line 435  cd run
435  \cp ../input/* .  \cp ../input/* .
436  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
437  qsub job_orion  qsub job_orion
   
   
 ##########################################################################  
 ##########################################################################  
 # matlab script for generating pChkptFreq  
   
 nTimeSteps=26352;  
 for niter0=216:26352:(26352*12)  
  pChkptFreq=(niter0+nTimeSteps)*1200;  
  day=pChkptFreq/24/60/60;  
  disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ...  
  datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)])  
 end  
   
 niter0 = 216   , day = 369 , 04-Jan-1993, pChkptFreq = 31881600  
 niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000  
 niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400  
 niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800  
 niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200  
 niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600  
 niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000  
 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  
 niter0 = 290088, day = 4395, 13-Jan-2004, pChkptFreq = 379728000  
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