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revision 1.63 by dimitri, Sat Jun 10 15:47:23 2006 UTC revision 1.87 by dimitri, Sat Jan 6 07:09:50 2007 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: June 10, 2006  
3  216-CPU code and input used for integrating cube37.  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    January 5, 2006: cube51, like cube50 but with bottomDragQuadratic = 0.0012
11    
12    January 5, 2006: cube50, like cube48 but with snow advection
13    
14    December 30, 2006: updates for cube49, the first
15    "blend" integration.
16    
17    December 11, 2006: preparing for cube47, same as cube43
18    but with Arctic monthly river runoff climatology.
19    
20    December 5, 2006: 216-CPU code for cube46
21    Changed diagnostics to accomodate JMCs latest and some
22    changes to code-mods/CPP_EEOPTIONS.h and W2_OPTIONS.h
23    to speed up code.
24    
25    November 7, 2006: 216-CPU code for cube43
26    Bug fixes in growth.F routine and new set of diagnostics
27    
28    October 15, 2006: 216-CPU code for cube40
29    
30    September 28, 2006: 216-CPU code for cube38
31    
32    September 4, 2006
33    Modified 32*32*6*15 experiments to use grid_cs32.* files from
34     verification/tutorial_held_suarez_cs/input instead of
35     tile* files from verification/global_ocean.cs32x15/input
36    
37    August 8, 2006: 216-CPU code and input used for cube37
38    using "June 10, 2006" MITgcm code.
39    
40    for online T/S profile diagnostics all that is needed is
41      profiles_init_fixed
42      profiles_inloop
43    see pkg/ecco/ecco_cost_init_fixed.F
44        pkg/ecco/cost_averagesfields.F
45    
46    ##########################################################################
47    ##########################################################################
48    # Get forcing files, etc.
49    # Example below is for cube46 on /nobackup2a/menemenl
50    
51    cd /nobackup2a/menemenl
52    mkdir cube47
53    cd cube47
54    ln -sf ../run_template .
55    ln -sf ../ncep_rgau .
56    
57    
58  ##########################################################################  ##########################################################################
59  ##########################################################################  ##########################################################################
60  # getting the code from anonymous CVS server  # getting the code from anonymous CVS server
61    
62      bash or sh shell:
63        $ export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack'
64        $ cvs login
65          ( enter the CVS password: "cvsanon" )
66    
67      tcsh or csh shell:
68        $ setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack'
69        $ cvs login
70          ( enter the CVS password: "cvsanon" )
71    
72  cvs co MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/README_ice
73  cvs co MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/code-mods
74  cvs co MITgcm_contrib/high_res_cube/input  cvs co MITgcm_contrib/high_res_cube/input
75  cvs co MITgcm_contrib/high_res_cube/results  cvs co MITgcm_contrib/high_res_cube/results
76  cvs co MITgcm_code  cvs co MITgcm_code
77  cvs co MITgcm/verification/global_ocean.cs32x15  cvs co MITgcm/verification/global_ocean.cs32x15
78    cvs co MITgcm/verification/tutorial_held_suarez_cs/input
79    
80    
81    ##########################################################################
82    ##########################################################################
83    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
84    
85    cd MITgcm/verification/global_ocean.cs32x15/code
86    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
87    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
88    \cp SIZE.h_216 SIZE.h
89    \cp packages.conf_hr packages.conf
90    
91    cd ../build
92    \rm *
93    ../../../tools/genmake2 -mods=../code -of ../code/linux_ia64_ifort+mpi_altix_nas
94    make depend
95    make -j
96    
97    cd ..
98    mkdir run
99    cd run
100    \rm *
101    \cp ../input/* .
102    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
103    ln -sf ../../../../run_template/* .
104    \rm pickup* eedata.mth data.pkg data.seaice data.exf_clim data.exf data.mnc data pr*
105    \rm bathy_Hmin50.bin *192_94* *cs32* *.m lev* tren* job_c* job_altix150 job_altix92_54t
106    ln -sf ../../../../run_template/pickup.0000000216.cube49 pickup.0000000216
107    ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube48 pickup_seaice.0000000216
108    \cp ../build/mitgcmuv .
109    qsub job_altix
110    
111    
112  ##########################################################################  ##########################################################################
# Line 31  cd .. Line 125  cd ..
125  mkdir run  mkdir run
126  cd run  cd run
127  \rm *  \rm *
128    \cp ../../tutorial_held_suarez_cs/input/grid* .
129  \cp ../input/* .  \cp ../input/* .
130  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
131  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 41  comparison output is in: Line 136  comparison output is in:
136  to use matlab to look at the output  to use matlab to look at the output
137  matlab  matlab
138    
139  for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...  for fld={'SIuice','SIvice','SIheff','SIarea','oceQsw', ...
140           'QNETtave','FVtave','FUtave','EmPmRtave'}           'surForcT','oceTAUX','oceTAUY','surForcS'}
141      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]);
142      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
143  end  end
144    
145  heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);  heff=permute(readbin(['SIheff.0000000072.data'],[32,6,32]),[1 3 2]);
146  mask=0*heff; mask(find(heff>.001))=1;  mask=0*heff; mask(find(heff>.001))=1;
147  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]);
148  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]);
149  clf  clf
150  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')
151  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')
# Line 74  cd .. Line 169  cd ..
169  mkdir run  mkdir run
170  cd run  cd run
171  \rm *  \rm *
172    \cp ../../tutorial_held_suarez_cs/input/grid* .
173  \cp ../input/* .  \cp ../input/* .
174  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
175  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 98  cd .. Line 194  cd ..
194  mkdir run  mkdir run
195  cd run  cd run
196  \rm *  \rm *
197    \cp ../../tutorial_held_suarez_cs/input/grid* .
198  \cp ../input/* .  \cp ../input/* .
199  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
200  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
# Line 131  qsub job_altix92_54t Line 228  qsub job_altix92_54t
228    
229  ##########################################################################  ##########################################################################
230  ##########################################################################  ##########################################################################
 # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics  
 # requires input files in sudirectories run_template and ncep_rgau  
 # these can be obained from lou:/u/menemenl/cube  
   
 cd MITgcm/verification/global_ocean.cs32x15/code  
 \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  
 \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .  
 \cp SIZE.h_216 SIZE.h  
 \cp packages.conf_hr packages.conf  
   
 cd ../build  
 \rm *  
 ../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas  
 make depend  
 make -j  
   
 cd ..  
 mkdir run  
 cd run  
 \rm *  
 \cp ../input/* .  
 \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  
 ln -sf ../../../../run_template/* .  
 \rm pickup* data.pkg data.seaice data.exf_clim data.exf data  
 \rm *192_94* *cs32* *.m lev* tren* job_c* job_altix150 job_altix92_54t  
 ln -sf ../../../../run_template/pickup.0000000216.cube27 pickup.0000000216  
 ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube27 pickup_seaice.0000000216  
 \cp ../build/mitgcmuv .  
 qsub job_altix  
   
   
 ##########################################################################  
 ##########################################################################  
231  # 510*510*6*50, 1500-tile, 150-cpu, excludes land  # 510*510*6*50, 1500-tile, 150-cpu, excludes land
232  # uses s1500t_17x51 configuration  # uses s1500t_17x51 configuration
233    
# Line 193  ln -sf  ../../../../run_template/pickup_ Line 257  ln -sf  ../../../../run_template/pickup_
257  qsub job_altix150  qsub job_altix150
258    
259    
   
   
260  ##########################################################################  ##########################################################################
261  ##########################################################################  ##########################################################################
262  # 510*510*6*50, 1500-tile, 375-cpu, excludes land  # 510*510*6*50, 1500-tile, 375-cpu, excludes land
# Line 227  ln -sf  ../../../../run_template/pickup_ Line 289  ln -sf  ../../../../run_template/pickup_
289  job_c20_375cpu < /dev/null >&! output.run &  job_c20_375cpu < /dev/null >&! output.run &
290    
291    
   
   
   
   
   
   
   
   
   
   
292  ##########################################################################  ##########################################################################
293  ##########################################################################  ##########################################################################
294  # 510*510*6*50, 1500-tile, 375-cpu, excludes land  # 510*510*6*50, 1500-tile, 375-cpu, excludes land
# Line 301  ln -sf  ../../../../run_template/pickup_ Line 353  ln -sf  ../../../../run_template/pickup_
353  job_c19_500cpu < /dev/null >&! output.run &  job_c19_500cpu < /dev/null >&! output.run &
354    
355    
   
   
   
356  ##########################################################################  ##########################################################################
357  ##########################################################################  ##########################################################################
358  # 510*510*6*50, 216-cpu cube sphere on cosmos  # 510*510*6*50, 216-cpu cube sphere on cosmos
# Line 339  ln -sf  ../../../../run_template/pickup_ Line 388  ln -sf  ../../../../run_template/pickup_
388  bsub < job_cosmos  bsub < job_cosmos
389    
390    
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
391  ##########################################################################  ##########################################################################
392  ##########################################################################  ##########################################################################
393  # 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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