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revision 1.3 by dimitri, Mon Nov 24 01:04:28 2003 UTC revision 1.60 by dimitri, Thu Sep 15 22:00:15 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: November 21, 2003.  Date last updated: February 17, 2005
3    Code and input used for integrating cube22.
4    
5  setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack  
6  cvs login ( CVS password: cvsanon )  ##########################################################################
7    ##########################################################################
8    # getting the code from anonymous CVS server
9    
10  cvs co MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/README_ice
11  cvs co MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/code-mods
 cvs co MITgcm_contrib/high_res_cube/matlab-grid-converter  
12  cvs co MITgcm_contrib/high_res_cube/input  cvs co MITgcm_contrib/high_res_cube/input
13  cvs co MITgcm_contrib/high_res_cube/results  cvs co MITgcm_contrib/high_res_cube/results
14    cvs co MITgcm_code
15    cvs co MITgcm/verification/global_ocean.cs32x15
16    cvs co MITgcm/verification/testreport
17    
 cvs co -r checkpoint52a_post MITgcm_code  
 cvs co -r checkpoint52a_post MITgcm/verification/global_ocean.cs32x15  
18    
19  cd MITgcm/verification/global_ocean.cs32x15/code  ##########################################################################
20  cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  ##########################################################################
21  cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* .  # 32*32*6*15, 1-cpu cube sphere
 \rm mdsio_readfield.F  
22    
23  cd ..  cd MITgcm/verification/global_ocean.cs32x15/code
24  mkdir build  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
25  cd build  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
26  ../code/genmake2 -mods=../code  cd ../build
27    \rm *
28    ../../../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  cp ../input/* .  \rm *
35  cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* .  \cp ../input/* .
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    
39  comparison output is in:  comparison output is in:
40  ../../../../MITgcm_contrib/high_res_cube/results/output.txt  ../../../../MITgcm_contrib/high_res_cube/results/output.txt
41    
   
42  to use matlab to look at the output  to use matlab to look at the output
43  matlab  matlab
44  eta=permute(readbin('Eta.0000072020.data',[32,6,32]),[1 3 2]);  
45  cx=[-1 1]; clf  for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...
46  subplot(3,4, 9);imagesc(flipud(eta(:,:,1)'));caxis(cx);colorbar           'QNETtave','FVtave','FUtave','EmPmRtave'}
47  subplot(3,4,10);imagesc(flipud(eta(:,:,2)'));caxis(cx);colorbar      tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);
48  subplot(3,4, 6);imagesc(flipud(eta(:,:,3)'));caxis(cx);colorbar      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
49  subplot(3,4, 7);imagesc(flipud(eta(:,:,4)'));caxis(cx);colorbar  end
50  subplot(3,4, 3);imagesc(flipud(eta(:,:,5)'));caxis(cx);colorbar  
51  subplot(3,4, 4);imagesc(flipud(eta(:,:,6)'));caxis(cx);colorbar  heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);
52    mask=0*heff; mask(find(heff>.001))=1;
53    uice=mask.*permute(readbin(['UICEtave.0000000020.data'],[32,6,32]),[1 3 2]);
54    vice=mask.*permute(readbin(['VICEtave.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, 17-tile, 1-cpu cube sphere experiment
65    
66    cd MITgcm/verification/global_ocean.cs32x15/code
67    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
68    \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
91    
92    cd ../build
93    \rm *
94    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
95    make depend
96    make -j
97    
98    cd ..
99    mkdir run
100    cd run
101    \rm *
102    \cp ../input/* .
103    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
104    mpirun -np 2 ../build/mitgcmuv
105    
106    
107    ##########################################################################
108    ##########################################################################
109    # 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
112    
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
140    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
141    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
142    \cp SIZE.h_216 SIZE.h
143    \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 ..
152    mkdir run
153    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_altix
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.data
190    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data
191    \cp ../build/mitgcmuv mitgcmuv150
192    qsub job_altix150
193    
194    
195    
196    
197    
198    
199    
200    
201    
202    
203    
204    
205    
206    
207    
208    ##########################################################################
209    ##########################################################################
210    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
211    # uses s1500t_17x51 configuration
212    # example for running on c17-c20 using arrayd
213    
214    cd MITgcm/verification/global_ocean.cs32x15/code
215    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
216    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
217    \cp SIZE.h_375 SIZE.h
218    \cp packages.conf_hr packages.conf
219    
220    cd ../build
221    \rm *
222    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
223    make depend
224    make -j
225    
226    cd ..
227    mkdir run
228    cd run
229    \rm *
230    \cp ../input/* .
231    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
232    ln -sf ../../../../run_template/* .
233    \rm pickup*
234    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data
235    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data
236    \cp ../build/mitgcmuv .
237    job_c20_375cpu < /dev/null >&! output.run &
238    
239    
240    ##########################################################################
241    ##########################################################################
242    # 510*510*6*50, 1500-tile, 500-cpu, excludes land
243    # uses s1500t_17x51 configuration
244    # example for running on c17-c20 using arrayd
245    
246    cd MITgcm/verification/global_ocean.cs32x15/code
247    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
248    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
249    \cp SIZE.h_500 SIZE.h
250    \cp packages.conf_hr packages.conf
251    
252    cd ../build
253    \rm *
254    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
255    make depend
256    make -j
257    
258    cd ..
259    mkdir run
260    cd run
261    \rm *
262    \cp ../input/* .
263    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
264    ln -sf ../../../../run_template/* .
265    \rm pickup*
266    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data
267    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data
268    \cp ../build/mitgcmuv .
269    job_c19_500cpu < /dev/null >&! output.run &
270    
271    
272    
273    
274    
275    ##########################################################################
276    ##########################################################################
277    # 510*510*6*50, 216-cpu cube sphere on cosmos
278    
279    cd MITgcm/verification/global_ocean.cs32x15/code
280    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
281    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
282    \cp SIZE.h_216 SIZE.h
283    \cp packages.conf_hr packages.conf
284    
285    module unload latest_intel80
286    module unload mpich-gm-intel80
287    module load latest_intel81
288    module load mpich-gm-intel81
289    
290    cd ../build
291    \rm *
292    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia32_ifort+mpi_cosmos
293    make depend
294    make -j
295    
296    cd ..
297    mkdir run
298    cd run
299    \rm *
300    \cp ../input/* .
301    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
302    ln -sf ../../../../run_template/* .
303    \rm pickup*
304    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data
305    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data
306    \cp ../build/mitgcmuv .
307    bsub < job_cosmos
308    
309    
310    
311    
312    
313    
314    
315    
316    
317    
318    
319    
320    
321    
322    
323    
324    
325    
326    
327    
328    ##########################################################################
329    ##########################################################################
330    # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
331    # requires input files in sudirectories run_template and ncep_rgau
332    # presently residing under orion:/tmp1/dmenem/cube
333    
334    cd MITgcm/verification/global_ocean.cs32x15/code
335    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
336    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
337    \cp SIZE.h_54 SIZE.h
338    \cp packages.conf_hr packages.conf
339    
340    cd ../build
341    \rm *
342    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
343    make depend
344    make -j
345    
346    cd ..
347    mkdir run
348    cd run
349    \rm *
350    \cp ../input/* .
351    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
352    qsub job_orion
353    
354    
355    ##########################################################################
356    ##########################################################################
357    # 510*510*6*50, 205-tile, 41-cpu cube sphere on the altices with efc
358    # requires input files in sudirectories run_template and ncep_rgau
359    # presently residing under orion:/tmp1/dmenem/cube
360    
361    cd MITgcm/verification/global_ocean.cs32x15/code
362    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
363    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s205t_85x85/* .
364    \cp SIZE.h_41 SIZE.h
365    \cp packages.conf_hr packages.conf
366    
367    cd ../build
368    \rm *
369    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
370    make depend
371    make -j
372    
373    cd ..
374    mkdir run
375    cd run
376    \rm *
377    \cp ../input/* .
378    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
379    qsub job_orion41
380    
381    
382    ##########################################################################
383    ##########################################################################
384    # 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc
385    # requires input files in sudirectories run_template and ncep_rgau
386    # presently residing under orion:/tmp1/dmenem/cube
387    
388    cd MITgcm/verification/global_ocean.cs32x15/code
389    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
390    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
391    \cp SIZE.h_50 SIZE.h
392    \cp packages.conf_hr packages.conf
393    
394    cd ../build
395    \rm *
396    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix
397    make depend
398    make -j
399    
400    cd ..
401    mkdir run
402    cd run
403    \rm *
404    \cp ../input/* .
405    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
406    qsub job_orion
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