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revision 1.14 by dimitri, Sat Jan 10 17:32:30 2004 UTC revision 1.62 by dimitri, Sat Feb 25 16:59:00 2006 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: January 9, 2004.  Date last updated: February 25, 2005
3  This is the code used for first multi-year 510x510x6  216-CPU code and input used for integrating cube29.
 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  
17  cvs co -r hr_cube1 MITgcm_code  # remove check in config_check.F
18  cvs co -r hr_cube1 MITgcm/verification/global_ocean.cs32x15  > C-TRM     IF ( highOrderVorticity .AND. useCubedSphereExchange ) THEN
19    > C-TRM       WRITE(msgBuf,'(2A)')
20    > C-TRM    &   'CONFIG_CHECK: highOrderVorticity Scheme does not work',
21    > C-TRM    &   ' on CubedSphere grid'
22    > C-TRM       CALL PRINT_ERROR( msgBuf , myThid)
23    > C-TRM       STOP 'ABNORMAL END: S/R CONFIG_CHECK'
24    > C-TRM     ENDIF
25    
26    
27  ##########################################################################  ##########################################################################
# Line 25  cvs co -r hr_cube1 MITgcm/verification/g Line 30  cvs co -r hr_cube1 MITgcm/verification/g
30    
31  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
32  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
33  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
34  \rm mdsio_readfield.F  cd ../build
35    \rm *
 cd ..  
 mkdir build  
 cd build  
36  ../../../tools/genmake2 -mods=../code  ../../../tools/genmake2 -mods=../code
37  make depend  make depend
38  make  make
   
39  cd ..  cd ..
40  mkdir run  mkdir run
41  cd run  cd run
42    \rm *
43  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
44  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
45  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
46    
# Line 48  comparison output is in: Line 49  comparison output is in:
49    
50  to use matlab to look at the output  to use matlab to look at the output
51  matlab  matlab
52  for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'}  
53    for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...
54             'QNETtave','FVtave','FUtave','EmPmRtave'}
55      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]);
56      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
57  end  end
58    
59    heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);
60    mask=0*heff; mask(find(heff>.001))=1;
61    uice=mask.*permute(readbin(['UICEtave.0000000020.data'],[32,6,32]),[1 3 2]);
62    vice=mask.*permute(readbin(['VICEtave.0000000020.data'],[32,6,32]),[1 3 2]);
63    clf
64    subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')
65    subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')
66    subplot(223), mypcolor(vice(:,:,3)'); colorbar, title('vice, tile 3')
67    subplot(224), mypcolor(vice(:,:,6)'); colorbar, title('vice, tile 6')
68    
69    
70  ##########################################################################  ##########################################################################
71  ##########################################################################  ##########################################################################
72  # 32*32*6*15, 2-cpu cube sphere on the altices with efc  # 32*32*6*15, 17-tile, 1-cpu cube sphere experiment
73    
74  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
75  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
76  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  \cp ../code_alt/code.176t_8x4/* .
77    cd ../build
78    \rm *
79    ../../../tools/genmake2 -mods=../code
80    make depend
81    make
82    cd ..
83    mkdir run
84    cd run
85    \rm *
86    \cp ../input/* .
87    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
88    ../build/mitgcmuv >& output.txt
89    
90    
91    ##########################################################################
92    ##########################################################################
93    # 32*32*6*15, 2-cpu cube sphere on the altices with ifort
94    
95    cd MITgcm/verification/global_ocean.cs32x15/code
96    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
97    \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
98  \cp SIZE.h_mpi SIZE.h  \cp SIZE.h_mpi SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
 \rm mdsio_readfield.F  
99    
100  cd ..  cd ../build
 mkdir build  
 cd build  
101  \rm *  \rm *
102  ../../../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
103  make depend  make depend
104  make  make -j
105    
106  cd ..  cd ..
107  mkdir run  mkdir run
108  cd run  cd run
109  \rm *  \rm *
110  \cp ../input/* .  \cp ../input/* .
 \cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  
111  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
112  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
113    
114    
115  ##########################################################################  ##########################################################################
116  ##########################################################################  ##########################################################################
117  # 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
118    # starting with pickup file from end of 1992
119  # requires input files in sudirectories run_template and ncep_rgau  # requires input files in sudirectories run_template and ncep_rgau
120  # presently residing under orion:/tmp1/dmenem/cube  
121    cd MITgcm/verification/global_ocean.cs32x15/code
122    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
123    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* .
124    \cp packages.conf_hr packages.conf
125    
126    cd ../build
127    \rm *
128    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
129    make depend
130    make -j
131    
132    cd ..
133    mkdir run
134    cd run
135    \rm *
136    \cp ../input/* .
137    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
138    qsub job_altix92_54t
139    
140    
141    ##########################################################################
142    ##########################################################################
143    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
144    # requires input files in sudirectories run_template and ncep_rgau
145    # these can be obained from lou:/u/menemenl/cube
146    
147  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
148  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
149  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
150  \cp SIZE.h_54 SIZE.h  \cp SIZE.h_216 SIZE.h
151  \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  \cp packages.conf_hr packages.conf
152    
153    cd ../build
154    \rm *
155    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
156    make depend
157    make -j
158    
159    cd ..
160    mkdir run
161    cd run
162    \rm *
163    \cp ../input/* .
164    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
165    ln -sf ../../../../run_template/* .
166    \rm pickup*
167    ln -sf ../../../../run_template/pickup.0000000216.cube27 pickup.0000000216
168    ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube27 pickup_seaice.0000000216
169    \cp ../build/mitgcmuv .
170    qsub job_altix
171    
172    
173    ##########################################################################
174    ##########################################################################
175    # 510*510*6*50, 1500-tile, 150-cpu, excludes land
176    # uses s1500t_17x51 configuration
177    
178    cd MITgcm/verification/global_ocean.cs32x15/code
179    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
180    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
181    \cp SIZE.h_150 SIZE.h
182  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
183  \cp mom_vi_hdissip.F_hr mom_vi_hdissip.F  
184  \rm mdsio_readfield.F  cd ../build
185    \rm *
186    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
187    make depend
188    make -j
189    
190  cd ..  cd ..
191  mkdir build  mkdir run
192  cd build  cd run
193  \rm *  \rm *
194  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi  \cp ../input/* .
195    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
196    ln -sf ../../../../run_template/* .
197    \rm pickup*
198    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
199    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
200    \cp ../build/mitgcmuv mitgcmuv150
201    qsub job_altix150
202    
203    
204    
205    
206    ##########################################################################
207    ##########################################################################
208    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
209    # uses s1500t_17x51 configuration
210    # example for running on c17-c20 using arrayd
211    
212    cd MITgcm/verification/global_ocean.cs32x15/code
213    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
214    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
215    \cp SIZE.h_375 SIZE.h
216    \cp packages.conf_hr packages.conf
217    
218    cd ../build
219    \rm *
220    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
221  make depend  make depend
222  make  make -j
223    
224  cd ..  cd ..
225  mkdir run  mkdir run
# Line 112  cd run Line 227  cd run
227  \rm *  \rm *
228  \cp ../input/* .  \cp ../input/* .
229  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
230  qsub job_orion  ln -sf ../../../../run_template/* .
231    \rm pickup*
232    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
233    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
234    \cp ../build/mitgcmuv .
235    job_c20_375cpu < /dev/null >&! output.run &
236    
237    
238    
239    
240    
241    
242    
243    
244    
245    
246    
247    
248    ##########################################################################
249    ##########################################################################
250    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
251    # uses s1500t_17x51 configuration
252    # example for running on c17-c20 using arrayd
253    
254    cd MITgcm/verification/global_ocean.cs32x15/code
255    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
256    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
257    \cp SIZE.h_375 SIZE.h
258    \cp packages.conf_hr packages.conf
259    
260    cd ../build
261    \rm *
262    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
263    make depend
264    make -j
265    
266    cd ..
267    mkdir run
268    cd run
269    \rm *
270    \cp ../input/* .
271    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
272    ln -sf ../../../../run_template/* .
273    \rm pickup*
274    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
275    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
276    \cp ../build/mitgcmuv .
277    job_c20_375cpu < /dev/null >&! output.run &
278    
279    
280  ##########################################################################  ##########################################################################
281  ##########################################################################  ##########################################################################
282  # 510*510*6*50, 216-cpu cube sphere on altix with efc  # 510*510*6*50, 1500-tile, 500-cpu, excludes land
283    # uses s1500t_17x51 configuration
284    # example for running on c17-c20 using arrayd
285    
286  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  cd MITgcm/verification/global_ocean.cs32x15/code
287  cvs login ( CVS password: cvsanon )  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
288  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/README_ice  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
289  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/code-mods  \cp SIZE.h_500 SIZE.h
290  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/matlab-grid-converter  \cp packages.conf_hr packages.conf
291  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/input  
292  cvs co -r checkpoint52d_pre MITgcm_contrib/high_res_cube/results  cd ../build
293  cvs co -r checkpoint52d_pre MITgcm_code  \rm *
294  cvs co -r checkpoint52d_pre MITgcm/verification/global_ocean.cs32x15  ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
295    make depend
296    make -j
297    
298    cd ..
299    mkdir run
300    cd run
301    \rm *
302    \cp ../input/* .
303    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
304    ln -sf ../../../../run_template/* .
305    \rm pickup*
306    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
307    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
308    \cp ../build/mitgcmuv .
309    job_c19_500cpu < /dev/null >&! output.run &
310    
311    
312    
313    
314    
315    ##########################################################################
316    ##########################################################################
317    # 510*510*6*50, 216-cpu cube sphere on cosmos
318    
319  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
320  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
321  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
322  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_216 SIZE.h
 \cp CPP_EEOPTIONS.h_mpi CPP_EEOPTIONS.h  
323  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
324  \cp mom_vi_hdissip.F_hr mom_vi_hdissip.F  
325  \rm mdsio_readfield.F  module unload latest_intel80
326    module unload mpich-gm-intel80
327    module load latest_intel81
328    module load mpich-gm-intel81
329    
330    cd ../build
331    \rm *
332    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia32_ifort+mpi_cosmos
333    make depend
334    make -j
335    
336    cd ..
337    mkdir run
338    cd run
339    \rm *
340    \cp ../input/* .
341    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
342    ln -sf ../../../../run_template/* .
343    \rm pickup*
344    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
345    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
346    \cp ../build/mitgcmuv .
347    bsub < job_cosmos
348    
349    
350    
351    
352    
353    
354    
355    
356    
357    
358    
359    
360    
361    
362    
363    
364    
365    
366    
367    
368    ##########################################################################
369    ##########################################################################
370    # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
371    # requires input files in sudirectories run_template and ncep_rgau
372    # presently residing under orion:/tmp1/dmenem/cube
373    
374    cd MITgcm/verification/global_ocean.cs32x15/code
375    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
376    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
377    \cp SIZE.h_54 SIZE.h
378    \cp packages.conf_hr packages.conf
379    
380    cd ../build
381    \rm *
382    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
383    make depend
384    make -j
385    
386  cd ..  cd ..
387  mkdir build  mkdir run
388  cd build  cd run
389    \rm *
390    \cp ../input/* .
391    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
392    qsub job_orion
393    
394    
395    ##########################################################################
396    ##########################################################################
397    # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
398    # requires input files in sudirectories run_template and ncep_rgau
399    # presently residing under orion:/tmp1/dmenem/cube
400    
401    cd MITgcm/verification/global_ocean.cs32x15/code
402    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
403    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
404    \cp SIZE.h_41 SIZE.h
405    \cp packages.conf_hr packages.conf
406    
407    cd ../build
408    \rm *
409  ../../../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
410  make depend  make depend
411  make  make -j
412    
413  cd ..  cd ..
414  mkdir run  mkdir run
415  cd run  cd run
416  qsub job_altix  \rm *
417    \cp ../input/* .
418    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
419    qsub job_orion41
420    
421    
422    ##########################################################################
423    ##########################################################################
424    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
425    # requires input files in sudirectories run_template and ncep_rgau
426    # presently residing under orion:/tmp1/dmenem/cube
427    
428    cd MITgcm/verification/global_ocean.cs32x15/code
429    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
430    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
431    \cp SIZE.h_50 SIZE.h
432    \cp packages.conf_hr packages.conf
433    
434    cd ../build
435    \rm *
436    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
437    make depend
438    make -j
439    
440    cd ..
441    mkdir run
442    cd run
443    \rm *
444    \cp ../input/* .
445    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
446    qsub job_orion
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