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revision 1.15 by dimitri, Sat Jan 10 18:09:09 2004 UTC revision 1.52 by dimitri, Sat Feb 19 06:28:28 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 9, 2004.  Date last updated: February 17, 2005
3  This is the code used for first multi-year 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 hr_cube1 MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/input
13  cvs co -r hr_cube1 MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/results
14  cvs co -r hr_cube1 MITgcm_contrib/high_res_cube/matlab-grid-converter  cvs co MITgcm_code
15  cvs co -r hr_cube1 MITgcm_contrib/high_res_cube/input  cvs co MITgcm/verification/global_ocean.cs32x15
16  cvs co -r hr_cube1 MITgcm_contrib/high_res_cube/results  cvs co MITgcm/verification/testreport
 cvs co -r hr_cube1 MITgcm_code  
 cvs co -r hr_cube1 MITgcm/verification/global_ocean.cs32x15  
17    
18    
19  ##########################################################################  ##########################################################################
# Line 25  cvs co -r hr_cube1 MITgcm/verification/g Line 22  cvs co -r hr_cube1 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  \rm mdsio_readfield.F  cd ../build
27    \rm *
 cd ..  
 mkdir build  
 cd build  
28  ../../../tools/genmake2 -mods=../code  ../../../tools/genmake2 -mods=../code
29  make depend  make depend
30  make  make
31    cd ..
32    mkdir run
33    cd run
34    \rm *
35    \cp ../input/* .
36    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
37    ../build/mitgcmuv >& output.txt
38    
39    comparison output is in:
40    ../../../../MITgcm_contrib/high_res_cube/results/output.txt
41    
42    to use matlab to look at the output
43    matlab
44    
45    for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}
46        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
48    end
49    
50    heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);
51    mask=0*heff; mask(find(heff>.001))=1;
52    uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]);
53    vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]);
54    clf
55    subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')
56    subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')
57    subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')
58    subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')
59    
60    
61    ##########################################################################
62    ##########################################################################
63    # 32*32*6*15, 17-tile, 1-cpu cube sphere experiment
64    
65    cd MITgcm/verification/global_ocean.cs32x15/code
66    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
67    \cp ../code_alt/code.176t_8x4/* .
68    cd ../build
69    \rm *
70    ../../../tools/genmake2 -mods=../code
71    make depend
72    make
73  cd ..  cd ..
74  mkdir run  mkdir run
75  cd run  cd run
76    \rm *
77  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
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    
# Line 48  comparison output is in: Line 83  comparison output is in:
83    
84  to use matlab to look at the output  to use matlab to look at the output
85  matlab  matlab
86    
87  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}
88      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]);
89      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
90  end  end
91    
92    heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]);
93    mask=0*heff; mask(find(heff>.001))=1;
94    uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]);
95    vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]);
96    clf
97    subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3')
98    subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6')
99    subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3')
100    subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6')
101    
102    
103  ##########################################################################  ##########################################################################
104  ##########################################################################  ##########################################################################
# Line 60  end Line 106  end
106    
107  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
108  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
109  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
110  \cp SIZE.h_mpi SIZE.h  \cp SIZE.h_mpi SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
 \rm mdsio_readfield.F  
111    
112  cd ..  cd ../build
 mkdir build  
 cd build  
113  \rm *  \rm *
114  ../../../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
115  make depend  make depend
116  make  make -j
117    
118  cd ..  cd ..
119  mkdir run  mkdir run
120  cd run  cd run
121  \rm *  \rm *
122  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
123  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
124  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
125    
126    
127  ##########################################################################  ##########################################################################
128  ##########################################################################  ##########################################################################
129  # 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
130    # starting with pickup file from end of 1992
131    # requires input files in sudirectories run_template and ncep_rgau
132    
133    cd MITgcm/verification/global_ocean.cs32x15/code
134    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
135    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
136    \cp packages.conf_hr packages.conf
137    
138    cd ../build
139    \rm *
140    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
141    make depend
142    make -j
143    
144    cd ..
145    mkdir run
146    cd run
147    \rm *
148    \cp ../input/* .
149    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
150    qsub job_altix92_54t
151    
152    
153    ##########################################################################
154    ##########################################################################
155    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
156    # requires input files in sudirectories run_template and ncep_rgau
157    # these can be obained from lou:/u/menemenl/cube
158    
159    cd MITgcm/verification/global_ocean.cs32x15/code
160    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
161    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
162    \cp SIZE.h_216 SIZE.h
163    \cp packages.conf_hr packages.conf
164    
165    cd ../build
166    \rm *
167    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
168    make depend
169    make -j
170    
171    cd ..
172    mkdir run
173    cd run
174    \rm *
175    \cp ../input/* .
176    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
177    ln -sf ../../../../run_template/* .
178    \rm pickup*
179    ln -sf ../../../../run_template/pickup.0000316440.cube20 pickup.0000000216.data
180    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube20 pickup_seaice.0000000216.data
181    \cp ../build/mitgcmuv .
182    qsub job_altix92
183    
184    
185    
186    
187    
188    
189    
190    
191    
192    
193    
194    
195    
196    
197    
198    
199    
200    
201    
202    
203    
204    
205    
206    ##########################################################################
207    ##########################################################################
208    # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
209  # requires input files in sudirectories run_template and ncep_rgau  # requires input files in sudirectories run_template and ncep_rgau
210  # presently residing under orion:/tmp1/dmenem/cube  # presently residing under orion:/tmp1/dmenem/cube
211    
# Line 93  cd MITgcm/verification/global_ocean.cs32 Line 213  cd MITgcm/verification/global_ocean.cs32
213  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
214  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
215  \cp SIZE.h_54 SIZE.h  \cp SIZE.h_54 SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
216  \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  
217    
218  cd ..  cd ../build
 mkdir build  
 cd build  
219  \rm *  \rm *
220  ../../../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
221  make depend  make depend
222  make  make -j
223    
224  cd ..  cd ..
225  mkdir run  mkdir run
# Line 117  qsub job_orion Line 232  qsub job_orion
232    
233  ##########################################################################  ##########################################################################
234  ##########################################################################  ##########################################################################
235  # 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
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  cd MITgcm/verification/global_ocean.cs32x15/code
240  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
241  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
242  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_41 SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
243  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
244  \cp mom_vi_hdissip.F_hr mom_vi_hdissip.F  
245  \rm mdsio_readfield.F  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 ..  cd ..
252  mkdir build  mkdir run
253  cd build  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 *  \rm *
274  ../../../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
275  make depend  make depend
276  make  make -j
277    
278  cd ..  cd ..
279  mkdir run  mkdir run
# Line 142  cd run Line 281  cd run
281  \rm *  \rm *
282  \cp ../input/* .  \cp ../input/* .
283  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
284  qsub job_altix  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
311    
312    
313    
314    
315    
316    
317    #!/bin/csh
318    \cp data.pkg_hr data.pkg
319    \cp data.seaice_hr data.seaice
320    \cp data.exf_clim_hr data.exf_clim
321    
322    \cp data_hr92 data
323    ./modpickup
324    \cp data.exf_hr92 data.exf
325    /opt/sgi/mpt/1.11-85/bin/mpirun.real -v -a a2k c20 216 runon 221-436 mitgcmuv
326    mkdir out.1992
327    \mv STDOUT.0000 *.data pickup*.meta out.1992
328    \cp data* out.1992
329    \rm STD* *.meta
330    
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