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revision 1.63 by dimitri, Sat Jun 10 15:47:23 2006 UTC revision 1.90 by dimitri, Wed Feb 7 01:30:48 2007 UTC
# Line 1  Line 1 
1    
2  Instructions for setting up a cube-sphere integration with sea-ice.  Instructions for setting up a cube-sphere integration with sea-ice.
3  Date last updated: June 10, 2006  
4  216-CPU code and input used for integrating cube37.  Forcing fields and other input files needed for the CS510
5    configuration can be obtained from
6    http://ecco2.org/products/model_setups/cs510.html
7    
8    =================
9    UPDATES
10    
11    February 6, 2006: cube56, same as cube 50 with SEAICEuseFlooding
12    
13    February 1, 2006: back to cube50 default (bottomDragQuadratic = 0.002)
14                      removed UVEL and VVEL from diagnostics
15    
16    January 5, 2006: cube51, like cube50 but with bottomDragQuadratic = 0.0012
17    
18    January 5, 2006: cube50, like cube48 but with snow advection
19    
20    December 30, 2006: updates for cube49, the first
21    "blend" integration.
22    
23    December 11, 2006: preparing for cube47, same as cube43
24    but with Arctic monthly river runoff climatology.
25    
26    December 5, 2006: 216-CPU code for cube46
27    Changed diagnostics to accomodate JMCs latest and some
28    changes to code-mods/CPP_EEOPTIONS.h and W2_OPTIONS.h
29    to speed up code.
30    
31    November 7, 2006: 216-CPU code for cube43
32    Bug fixes in growth.F routine and new set of diagnostics
33    
34    October 15, 2006: 216-CPU code for cube40
35    
36    September 28, 2006: 216-CPU code for cube38
37    
38    September 4, 2006
39    Modified 32*32*6*15 experiments to use grid_cs32.* files from
40     verification/tutorial_held_suarez_cs/input instead of
41     tile* files from verification/global_ocean.cs32x15/input
42    
43    August 8, 2006: 216-CPU code and input used for cube37
44    using "June 10, 2006" MITgcm code.
45    
46    for online T/S profile diagnostics all that is needed is
47      profiles_init_fixed
48      profiles_inloop
49    see pkg/ecco/ecco_cost_init_fixed.F
50        pkg/ecco/cost_averagesfields.F
51    
52    ##########################################################################
53    ##########################################################################
54    # Get forcing files, etc.
55    # Example below is for cube46 on /nobackup2a/menemenl
56    
57    cd /nobackup2a/menemenl
58    mkdir cube47
59    cd cube47
60    ln -sf ../run_template .
61    ln -sf ../ncep_rgau .
62    
63    
64  ##########################################################################  ##########################################################################
65  ##########################################################################  ##########################################################################
66  # getting the code from anonymous CVS server  # getting the code from anonymous CVS server
67    
68      bash or sh shell:
69        $ export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack'
70        $ cvs login
71          ( enter the CVS password: "cvsanon" )
72    
73      tcsh or csh shell:
74        $ setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack'
75        $ cvs login
76          ( enter the CVS password: "cvsanon" )
77    
78  cvs co MITgcm_contrib/high_res_cube/README_ice  cvs co MITgcm_contrib/high_res_cube/README_ice
79  cvs co MITgcm_contrib/high_res_cube/code-mods  cvs co MITgcm_contrib/high_res_cube/code-mods
80  cvs co MITgcm_contrib/high_res_cube/input  cvs co MITgcm_contrib/high_res_cube/input
81  cvs co MITgcm_contrib/high_res_cube/results  cvs co MITgcm_contrib/high_res_cube/results
82  cvs co MITgcm_code  cvs co MITgcm_code
83  cvs co MITgcm/verification/global_ocean.cs32x15  cvs co MITgcm/verification/global_ocean.cs32x15
84    cvs co MITgcm/verification/tutorial_held_suarez_cs/input
85    
86    
87    ##########################################################################
88    ##########################################################################
89    # 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics
90    
91    cd MITgcm/verification/global_ocean.cs32x15/code
92    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
93    \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* .
94    \cp SIZE.h_216 SIZE.h
95    \cp packages.conf_hr packages.conf
96    
97    cd ../build
98    \rm *
99    ../../../tools/genmake2 -mods=../code -of ../code/linux_ia64_ifort+mpi_altix_nas
100    make depend
101    make -j
102    
103    cd ..
104    mkdir run
105    cd run
106    \rm *
107    \cp ../input/* .
108    \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
109    ln -sf ../../../../run_template/* .
110    \rm pickup* eedata.mth data.pkg data.seaice data.exf_clim data.exf data.mnc data pr*
111    \rm bathy_Hmin50.bin *192_94* *cs32* *.m lev* tren* job_c* job_altix150 job_altix92_54t
112    ln -sf ../../../../run_template/pickup.0000000216.cube49 pickup.0000000216
113    ln -sf  ../../../../run_template/pickup_seaice.0000000216.cube48 pickup_seaice.0000000216
114    \cp ../build/mitgcmuv .
115    qsub job_altix
116    
117    
118  ##########################################################################  ##########################################################################
# Line 22  cvs co MITgcm/verification/global_ocean. Line 122  cvs co MITgcm/verification/global_ocean.
122  cd MITgcm/verification/global_ocean.cs32x15/code  cd MITgcm/verification/global_ocean.cs32x15/code
123  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .  \cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* .
124  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .  \cp ../../../utils/exch2/code-mods/s12t_16x32/* .
125    \rm CPP_EEOPTIONS.h
126  cd ../build  cd ../build
127  \rm *  \rm *
128  ../../../tools/genmake2 -mods=../code  ../../../tools/genmake2 -mods=../code
# Line 31  cd .. Line 132  cd ..
132  mkdir run  mkdir run
133  cd run  cd run
134  \rm *  \rm *
135    \cp ../../tutorial_held_suarez_cs/input/grid* .
136  \cp ../input/* .  \cp ../input/* .
137  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
138  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 41  comparison output is in: Line 143  comparison output is in:
143  to use matlab to look at the output  to use matlab to look at the output
144  matlab  matlab
145    
146  for fld={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ...  for fld={'SIuice','SIvice','SIheff','SIarea','oceQsw', ...
147           'QNETtave','FVtave','FUtave','EmPmRtave'}           'surForcT','oceTAUX','oceTAUY','surForcS'}
148      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]);
149      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause      cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause
150  end  end
151    
152  heff=permute(readbin(['HEFFtave.0000000020.data'],[32,6,32]),[1 3 2]);  heff=permute(readbin(['SIheff.0000000072.data'],[32,6,32]),[1 3 2]);
153  mask=0*heff; mask(find(heff>.001))=1;  mask=0*heff; mask(find(heff>.001))=1;
154  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]);
155  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]);
156  clf  clf
157  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')  subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3')
158  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')  subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6')
# Line 74  cd .. Line 176  cd ..
176  mkdir run  mkdir run
177  cd run  cd run
178  \rm *  \rm *
179    \cp ../../tutorial_held_suarez_cs/input/grid* .
180  \cp ../input/* .  \cp ../input/* .
181  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
182  ../build/mitgcmuv >& output.txt  ../build/mitgcmuv >& output.txt
# Line 98  cd .. Line 201  cd ..
201  mkdir run  mkdir run
202  cd run  cd run
203  \rm *  \rm *
204    \cp ../../tutorial_held_suarez_cs/input/grid* .
205  \cp ../input/* .  \cp ../input/* .
206  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .  \cp ../../../../MITgcm_contrib/high_res_cube/input/* .
207  mpirun -np 2 ../build/mitgcmuv  mpirun -np 2 ../build/mitgcmuv
# Line 131  qsub job_altix92_54t Line 235  qsub job_altix92_54t
235    
236  ##########################################################################  ##########################################################################
237  ##########################################################################  ##########################################################################
 # 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  
   
   
 ##########################################################################  
 ##########################################################################  
238  # 510*510*6*50, 1500-tile, 150-cpu, excludes land  # 510*510*6*50, 1500-tile, 150-cpu, excludes land
239  # uses s1500t_17x51 configuration  # uses s1500t_17x51 configuration
240    
# Line 193  ln -sf  ../../../../run_template/pickup_ Line 264  ln -sf  ../../../../run_template/pickup_
264  qsub job_altix150  qsub job_altix150
265    
266    
   
   
267  ##########################################################################  ##########################################################################
268  ##########################################################################  ##########################################################################
269  # 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 296  ln -sf  ../../../../run_template/pickup_
296  job_c20_375cpu < /dev/null >&! output.run &  job_c20_375cpu < /dev/null >&! output.run &
297    
298    
   
   
   
   
   
   
   
   
   
   
299  ##########################################################################  ##########################################################################
300  ##########################################################################  ##########################################################################
301  # 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 360  ln -sf  ../../../../run_template/pickup_
360  job_c19_500cpu < /dev/null >&! output.run &  job_c19_500cpu < /dev/null >&! output.run &
361    
362    
   
   
   
363  ##########################################################################  ##########################################################################
364  ##########################################################################  ##########################################################################
365  # 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 395  ln -sf  ../../../../run_template/pickup_
395  bsub < job_cosmos  bsub < job_cosmos
396    
397    
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
   
398  ##########################################################################  ##########################################################################
399  ##########################################################################  ##########################################################################
400  # 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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