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revision 1.55 by dimitri, Mon Feb 21 19:15:01 2005 UTC revision 1.75 by dimitri, Fri Nov 3 23:17:42 2006 UTC
# Line 1  Line 1 
1  daInstructions for setting up a cube-sphere integration with sea-ice.  Instructions for setting up a cube-sphere integration with sea-ice.
2  Date last updated: February 17, 2005  
3  Code and input used for integrating cube22.  =================
4    UPDATES
5    
6    November 3, 2006: 216-CPU code for cube43
7    Martin's growth.F routine and Patrick's pkg/seaice diagnostics
8    
9    October 15, 2006: 216-CPU code for cube40
10    
11    September 28, 2006: 216-CPU code for cube38
12    
13    September 4, 2006
14    Modified 32*32*6*15 experiments to use grid_cs32.* files from
15     verification/tutorial_held_suarez_cs/input instead of
16     tile* files from verification/global_ocean.cs32x15/input
17    
18    August 8, 2006: 216-CPU code and input used for cube37
19    using "June 10, 2006" MITgcm code.
20    
21    for online T/S profile diagnostics all that is needed is
22      profiles_init_fixed
23      profiles_inloop
24    see pkg/ecco/ecco_cost_init_fixed.F
25        pkg/ecco/cost_averagesfields.F
26    
27    
28  ##########################################################################  ##########################################################################
29  ##########################################################################  ##########################################################################
30  # getting the code from anonymous CVS server  # getting the code from anonymous CVS server
31    #
32    
33      bash or sh shell:
34        $ export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack'
35        $ cvs login
36          ( enter the CVS password: "cvsanon" )
37    
38      tcsh or csh shell:
39        $ setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack'
40        $ cvs login
41          ( enter the CVS password: "cvsanon" )
42    
43  cvs co MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/README_ice
44  cvs co MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/code-mods
# Line 13  cvs co MITgcm_contrib/high_res_cube/inpu Line 46  cvs co MITgcm_contrib/high_res_cube/inpu
46  cvs co MITgcm_contrib/high_res_cube/results  cvs co MITgcm_contrib/high_res_cube/results
47  cvs co MITgcm_code  cvs co MITgcm_code
48  cvs co MITgcm/verification/global_ocean.cs32x15  cvs co MITgcm/verification/global_ocean.cs32x15
49  cvs co MITgcm/verification/testreport  cvs co MITgcm/verification/tutorial_held_suarez_cs/input
50    
51    
52    ##########################################################################
53    ##########################################################################
54    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
55    # requires input files in sudirectories run_template and ncep_rgau
56    # these can be obained from lou:/u/menemenl/cube
57    
58    cd MITgcm/verification/global_ocean.cs32x15/code
59    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
60    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
61    \cp SIZE.h_216 SIZE.h
62    \cp packages.conf_hr packages.conf
63    
64    cd ../build
65    \rm *
66    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
67    make depend
68    make -j
69    
70    cd ..
71    mkdir run
72    cd run
73    \rm *
74    \cp ../input/* .
75    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
76    ln -sf ../../../../run_template/* .
77    \rm pickup* eedata.mth data.pkg data.seaice data.exf_clim data.exf data.mnc data pr*
78    \rm bathy_Hmin50.bin *192_94* *cs32* *.m lev* tren* job_c* job_altix150 job_altix92_54t
79    ln -sf ../../../../run_template/pickup.0000000216.cube38 pickup.0000000216
80    ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube38 pickup_seaice.0000000216
81    \cp ../build/mitgcmuv .
82    qsub job_altix
83    
84    
85  ##########################################################################  ##########################################################################
# Line 32  cd .. Line 98  cd ..
98  mkdir run  mkdir run
99  cd run  cd run
100  \rm *  \rm *
101    \cp ../../tutorial_held_suarez_cs/input/grid* .
102  \cp ../input/* .  \cp ../input/* .
103  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
104  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 75  cd .. Line 142  cd ..
142  mkdir run  mkdir run
143  cd run  cd run
144  \rm *  \rm *
145    \cp ../../tutorial_held_suarez_cs/input/grid* .
146  \cp ../input/* .  \cp ../input/* .
147  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
148  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 82  cd run Line 150  cd run
150    
151  ##########################################################################  ##########################################################################
152  ##########################################################################  ##########################################################################
153  # 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
154    
155  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
156  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
# Line 99  cd .. Line 167  cd ..
167  mkdir run  mkdir run
168  cd run  cd run
169  \rm *  \rm *
170    \cp ../../tutorial_held_suarez_cs/input/grid* .
171  \cp ../input/* .  \cp ../input/* .
172  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
173  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
# Line 132  qsub job_altix92_54t Line 201  qsub job_altix92_54t
201    
202  ##########################################################################  ##########################################################################
203  ##########################################################################  ##########################################################################
204  # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics  # 510*510*6*50, 1500-tile, 150-cpu, excludes land
205  # requires input files in sudirectories run_template and ncep_rgau  # uses s1500t_17x51 configuration
 # these can be obained from lou:/u/menemenl/cube  
206    
207  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
208  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
209  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
210  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_150 SIZE.h
211  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
212    
213  cd ../build  cd ../build
# Line 156  cd run Line 224  cd run
224  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
225  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
226  \rm pickup*  \rm pickup*
227  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
228  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
229  \cp ../build/mitgcmuv .  \cp ../build/mitgcmuv mitgcmuv150
230  qsub job_altix92  qsub job_altix150
231    
232    
233    ##########################################################################
234    ##########################################################################
235    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
236    # uses s1500t_17x51 configuration
237    # example for running on c17-c20 using arrayd
238    
239    cd MITgcm/verification/global_ocean.cs32x15/code
240    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
241    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
242    \cp SIZE.h_375 SIZE.h
243    \cp packages.conf_hr packages.conf
244    
245    cd ../build
246    \rm *
247    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
248    make depend
249    make -j
250    
251    cd ..
252    mkdir run
253    cd run
254    \rm *
255    \cp ../input/* .
256    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
257    ln -sf ../../../../run_template/* .
258    \rm pickup*
259    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
260    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
261    \cp ../build/mitgcmuv .
262    job_c20_375cpu < /dev/null >&! output.run &
263    
264    
265    ##########################################################################
266    ##########################################################################
267    # 510*510*6*50, 1500-tile, 375-cpu, excludes land
268    # uses s1500t_17x51 configuration
269    # example for running on c17-c20 using arrayd
270    
271    cd MITgcm/verification/global_ocean.cs32x15/code
272    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
273    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
274    \cp SIZE.h_375 SIZE.h
275    \cp packages.conf_hr packages.conf
276    
277    cd ../build
278    \rm *
279    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
280    make depend
281    make -j
282    
283    cd ..
284    mkdir run
285    cd run
286    \rm *
287    \cp ../input/* .
288    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
289    ln -sf ../../../../run_template/* .
290    \rm pickup*
291    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
292    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
293    \cp ../build/mitgcmuv .
294    job_c20_375cpu < /dev/null >&! output.run &
295    
296    
297    ##########################################################################
298    ##########################################################################
299    # 510*510*6*50, 1500-tile, 500-cpu, excludes land
300    # uses s1500t_17x51 configuration
301    # example for running on c17-c20 using arrayd
302    
303    cd MITgcm/verification/global_ocean.cs32x15/code
304    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
305    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
306    \cp SIZE.h_500 SIZE.h
307    \cp packages.conf_hr packages.conf
308    
309    cd ../build
310    \rm *
311    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas
312    make depend
313    make -j
314    
315    cd ..
316    mkdir run
317    cd run
318    \rm *
319    \cp ../input/* .
320    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
321    ln -sf ../../../../run_template/* .
322    \rm pickup*
323    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
324    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
325    \cp ../build/mitgcmuv .
326    job_c19_500cpu < /dev/null >&! output.run &
327    
328    
329    ##########################################################################
330    ##########################################################################
331    # 510*510*6*50, 216-cpu cube sphere on cosmos
332    
333    cd MITgcm/verification/global_ocean.cs32x15/code
334    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
335    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
336    \cp SIZE.h_216 SIZE.h
337    \cp packages.conf_hr packages.conf
338    
339    module unload latest_intel80
340    module unload mpich-gm-intel80
341    module load latest_intel81
342    module load mpich-gm-intel81
343    
344    cd ../build
345    \rm *
346    ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia32_ifort+mpi_cosmos
347    make depend
348    make -j
349    
350    cd ..
351    mkdir run
352    cd run
353    \rm *
354    \cp ../input/* .
355    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
356    ln -sf ../../../../run_template/* .
357    \rm pickup*
358    ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
359    ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
360    \cp ../build/mitgcmuv .
361    bsub < job_cosmos
362    
363    
364  ##########################################################################  ##########################################################################
# Line 262  cd run Line 440  cd run
440  \cp ../input/* .  \cp ../input/* .
441  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
442  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  
   
   
   
   
   
   
 #!/bin/csh  
 \cp data.pkg_hr data.pkg  
 \cp data.seaice_hr data.seaice  
 \cp data.exf_clim_hr data.exf_clim  
   
 \cp data_hr92 data  
 ./modpickup  
 \cp data.exf_hr92 data.exf  
 /opt/sgi/mpt/1.11-85/bin/mpirun.real -v -a a2k c20 216 runon 221-436 mitgcmuv  
 mkdir out.1992  
 \mv STDOUT.0000 *.data pickup*.meta out.1992  
 \cp data* out.1992  
 \rm STD* *.meta  
   
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