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revision 1.60 by dimitri, Thu Sep 15 22:00:15 2005 UTC revision 1.85 by dimitri, Sat Dec 30 19:33:35 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 updated: February 17, 2005  
3  Code and input used for integrating cube22.  Forcing fields and other input files needed for the CS510
4    configuration can be obtained from
5    http://ecco2.org/products/model_setups/cs510.html
6    
7    =================
8    UPDATES
9    
10    December 30, 2006: updates for cube49, the first
11    "blend" integration.
12    
13    December 11, 2006: preparing for cube47, same as cube43
14    but with Arctic monthly river runoff climatology.
15    
16    December 5, 2006: 216-CPU code for cube46
17    Changed diagnostics to accomodate JMCs latest and some
18    changes to code-mods/CPP_EEOPTIONS.h and W2_OPTIONS.h
19    to speed up code.
20    
21    November 7, 2006: 216-CPU code for cube43
22    Bug fixes in growth.F routine and new set of diagnostics
23    
24    October 15, 2006: 216-CPU code for cube40
25    
26    September 28, 2006: 216-CPU code for cube38
27    
28    September 4, 2006
29    Modified 32*32*6*15 experiments to use grid_cs32.* files from
30     verification/tutorial_held_suarez_cs/input instead of
31     tile* files from verification/global_ocean.cs32x15/input
32    
33    August 8, 2006: 216-CPU code and input used for cube37
34    using "June 10, 2006" MITgcm code.
35    
36    for online T/S profile diagnostics all that is needed is
37      profiles_init_fixed
38      profiles_inloop
39    see pkg/ecco/ecco_cost_init_fixed.F
40        pkg/ecco/cost_averagesfields.F
41    
42    ##########################################################################
43    ##########################################################################
44    # Get forcing files, etc.
45    # Example below is for cube46 on /nobackup2a/menemenl
46    
47    cd /nobackup2a/menemenl
48    mkdir cube47
49    cd cube47
50    ln -sf ../run_template .
51    ln -sf ../ncep_rgau .
52    
53    
54  ##########################################################################  ##########################################################################
55  ##########################################################################  ##########################################################################
56  # getting the code from anonymous CVS server  # getting the code from anonymous CVS server
57    
58      bash or sh shell:
59        $ export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack'
60        $ cvs login
61          ( enter the CVS password: "cvsanon" )
62    
63      tcsh or csh shell:
64        $ setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack'
65        $ cvs login
66          ( enter the CVS password: "cvsanon" )
67    
68  cvs co MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/README_ice
69  cvs co MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/code-mods
70  cvs co MITgcm_contrib/high_res_cube/input  cvs co MITgcm_contrib/high_res_cube/input
71  cvs co MITgcm_contrib/high_res_cube/results  cvs co MITgcm_contrib/high_res_cube/results
72  cvs co MITgcm_code  cvs co MITgcm_code
73  cvs co MITgcm/verification/global_ocean.cs32x15  cvs co MITgcm/verification/global_ocean.cs32x15
74  cvs co MITgcm/verification/testreport  cvs co MITgcm/verification/tutorial_held_suarez_cs/input
75    
76    
77    ##########################################################################
78    ##########################################################################
79    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
80    
81    cd MITgcm/verification/global_ocean.cs32x15/code
82    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
83    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
84    \cp SIZE.h_216 SIZE.h
85    \cp packages.conf_hr packages.conf
86    
87    cd ../build
88    \rm *
89    ../../../tools/genmake2 -mods=../code -of ../code/linux_ia64_ifort+mpi_altix_nas
90    make depend
91    make -j
92    
93    cd ..
94    mkdir run
95    cd run
96    \rm *
97    \cp ../input/* .
98    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
99    ln -sf ../../../../run_template/* .
100    \rm pickup* eedata.mth data.pkg data.seaice data.exf_clim data.exf data.mnc data pr*
101    \rm bathy_Hmin50.bin *192_94* *cs32* *.m lev* tren* job_c* job_altix150 job_altix92_54t
102    ln -sf ../../../../run_template/pickup.0000000216.cube49 pickup.0000000216
103    ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube49 pickup_seaice.0000000216
104    \cp ../build/mitgcmuv .
105    qsub job_altix
106    
107    
108  ##########################################################################  ##########################################################################
# Line 32  cd .. Line 121  cd ..
121  mkdir run  mkdir run
122  cd run  cd run
123  \rm *  \rm *
124    \cp ../../tutorial_held_suarez_cs/input/grid* .
125  \cp ../input/* .  \cp ../input/* .
126  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
127  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 42  comparison output is in: Line 132  comparison output is in:
132  to use matlab to look at the output  to use matlab to look at the output
133  matlab  matlab
134    
135  for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...  for fld={'SIuice','SIvice','SIheff','SIarea','oceQsw', ...
136           'QNETtave','FVtave','FUtave','EmPmRtave'}           'surForcT','oceTAUX','oceTAUY','surForcS'}
137      tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]);      tmp=permute(readbin([fld{1} '.0000000072.data'],[32,6,32]),[1 3 2]);
138      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
139  end  end
140    
141  heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);  heff=permute(readbin(['SIheff.0000000072.data'],[32,6,32]),[1 3 2]);
142  mask=0*heff; mask(find(heff>.001))=1;  mask=0*heff; mask(find(heff>.001))=1;
143  uice=mask.*permute(readbin(['UICEtave.0000000020.data'],[32,6,32]),[1 3 2]);  uice=mask.*permute(readbin(['SIuice.0000000072.data'],[32,6,32]),[1 3 2]);
144  vice=mask.*permute(readbin(['VICEtave.0000000020.data'],[32,6,32]),[1 3 2]);  vice=mask.*permute(readbin(['SIvice.0000000072.data'],[32,6,32]),[1 3 2]);
145  clf  clf
146  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')
147  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')
# Line 75  cd .. Line 165  cd ..
165  mkdir run  mkdir run
166  cd run  cd run
167  \rm *  \rm *
168    \cp ../../tutorial_held_suarez_cs/input/grid* .
169  \cp ../input/* .  \cp ../input/* .
170  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
171  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 99  cd .. Line 190  cd ..
190  mkdir run  mkdir run
191  cd run  cd run
192  \rm *  \rm *
193    \cp ../../tutorial_held_suarez_cs/input/grid* .
194  \cp ../input/* .  \cp ../input/* .
195  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
196  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
# Line 132  qsub job_altix92_54t Line 224  qsub job_altix92_54t
224    
225  ##########################################################################  ##########################################################################
226  ##########################################################################  ##########################################################################
227  # 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
228  # requires input files in sudirectories run_template and ncep_rgau  # uses s1500t_17x51 configuration
 # these can be obained from lou:/u/menemenl/cube  
229    
230  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
231  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
232  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
233  \cp SIZE.h_216 SIZE.h  \cp SIZE.h_150 SIZE.h
234  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
235    
236  cd ../build  cd ../build
# Line 156  cd run Line 247  cd run
247  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
248  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
249  \rm pickup*  \rm pickup*
250  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
251  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
252  \cp ../build/mitgcmuv .  \cp ../build/mitgcmuv mitgcmuv150
253  qsub job_altix  qsub job_altix150
254    
255    
256  ##########################################################################  ##########################################################################
257  ##########################################################################  ##########################################################################
258  # 510*510*6*50, 1500-tile, 150-cpu, excludes land  # 510*510*6*50, 1500-tile, 375-cpu, excludes land
259  # uses s1500t_17x51 configuration  # uses s1500t_17x51 configuration
260    # example for running on c17-c20 using arrayd
261    
262  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
263  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
264  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* .
265  \cp SIZE.h_150 SIZE.h  \cp SIZE.h_375 SIZE.h
266  \cp packages.conf_hr packages.conf  \cp packages.conf_hr packages.conf
267    
268  cd ../build  cd ../build
# Line 186  cd run Line 279  cd run
279  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
280  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
281  \rm pickup*  \rm pickup*
282  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
283  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
284  \cp ../build/mitgcmuv mitgcmuv150  \cp ../build/mitgcmuv .
285  qsub job_altix150  job_c20_375cpu < /dev/null >&! output.run &
   
   
   
   
   
   
   
   
   
   
   
   
   
286    
287    
288  ##########################################################################  ##########################################################################
# Line 231  cd run Line 311  cd run
311  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
312  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
313  \rm pickup*  \rm pickup*
314  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
315  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
316  \cp ../build/mitgcmuv .  \cp ../build/mitgcmuv .
317  job_c20_375cpu < /dev/null >&! output.run &  job_c20_375cpu < /dev/null >&! output.run &
318    
# Line 263  cd run Line 343  cd run
343  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
344  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
345  \rm pickup*  \rm pickup*
346  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
347  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
348  \cp ../build/mitgcmuv .  \cp ../build/mitgcmuv .
349  job_c19_500cpu < /dev/null >&! output.run &  job_c19_500cpu < /dev/null >&! output.run &
350    
351    
   
   
   
352  ##########################################################################  ##########################################################################
353  ##########################################################################  ##########################################################################
354  # 510*510*6*50, 216-cpu cube sphere on cosmos  # 510*510*6*50, 216-cpu cube sphere on cosmos
# Line 301  cd run Line 378  cd run
378  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
379  ln -sf ../../../../run_template/* .  ln -sf ../../../../run_template/* .
380  \rm pickup*  \rm pickup*
381  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216.data  ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216
382  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216.data  ln -sf  ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216
383  \cp ../build/mitgcmuv .  \cp ../build/mitgcmuv .
384  bsub < job_cosmos  bsub < job_cosmos
385    
386    
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
387  ##########################################################################  ##########################################################################
388  ##########################################################################  ##########################################################################
389  # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc  # 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc
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