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Instructions for setting up a cube-sphere integration with sea-ice. |
Instructions for setting up a cube-sphere integration with sea-ice. |
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Date last tested: February 13, 2004. |
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This is the code used for cube4, the third 1992-2002 510x510x6 |
================= |
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cube-sphere integration. |
UPDATES |
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November 22, 2006: 216-CPU code for cube44 |
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Changed diagnostics, yet again. |
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November 7, 2006: 216-CPU code for cube43 |
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Bug fixes in growth.F routine and new set of diagnostics |
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October 15, 2006: 216-CPU code for cube40 |
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September 28, 2006: 216-CPU code for cube38 |
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September 4, 2006 |
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Modified 32*32*6*15 experiments to use grid_cs32.* files from |
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verification/tutorial_held_suarez_cs/input instead of |
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tile* files from verification/global_ocean.cs32x15/input |
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August 8, 2006: 216-CPU code and input used for cube37 |
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using "June 10, 2006" MITgcm code. |
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for online T/S profile diagnostics all that is needed is |
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profiles_init_fixed |
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profiles_inloop |
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see pkg/ecco/ecco_cost_init_fixed.F |
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pkg/ecco/cost_averagesfields.F |
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########################################################################## |
########################################################################## |
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########################################################################## |
########################################################################## |
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# getting the code from anonymous CVS server |
# getting the code from anonymous CVS server |
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# |
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bash or sh shell: |
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$ export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack' |
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$ cvs login |
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( enter the CVS password: "cvsanon" ) |
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tcsh or csh shell: |
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$ setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack' |
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$ cvs login |
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( enter the CVS password: "cvsanon" ) |
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setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack |
cvs co MITgcm_contrib/high_res_cube/README_ice |
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cvs login ( CVS password: cvsanon ) |
cvs co MITgcm_contrib/high_res_cube/code-mods |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/README_ice |
cvs co MITgcm_contrib/high_res_cube/input |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/code-mods |
cvs co MITgcm_contrib/high_res_cube/results |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/matlab-grid-converter |
cvs co MITgcm_code |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/input |
cvs co MITgcm/verification/global_ocean.cs32x15 |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/results |
cvs co MITgcm/verification/tutorial_held_suarez_cs/input |
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cvs co -r hrcube4 MITgcm_code |
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cvs co -r hrcube4 MITgcm/verification/global_ocean.cs32x15 |
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########################################################################## |
########################################################################## |
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########################################################################## |
########################################################################## |
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# 32*32*6*15, 1-cpu cube sphere |
# 510*510*6*50, 216-cpu cube sphere on altix with ifort and pkg/diagnostics |
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# requires input files in sudirectories run_template and ncep_rgau |
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# these can be obained from lou:/u/menemenl/cube |
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cd MITgcm/verification/global_ocean.cs32x15/code |
cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* . |
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\cp SIZE.h_216 SIZE.h |
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\cp packages.conf_hr packages.conf |
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cd ../build |
cd ../build |
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\rm * |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
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make depend |
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make -j |
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cd .. |
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mkdir run |
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cd run |
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\rm * |
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\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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ln -sf ../../../../run_template/* . |
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\rm pickup* eedata.mth data.pkg data.seaice data.exf_clim data.exf data.mnc data pr* |
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\rm bathy_Hmin50.bin *192_94* *cs32* *.m lev* tren* job_c* job_altix150 job_altix92_54t |
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ln -sf ../../../../run_template/pickup.0000000216.cube38 pickup.0000000216 |
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ln -sf ../../../../run_template/pickup_seaice.0000000216.cube38 pickup_seaice.0000000216 |
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\cp ../build/mitgcmuv . |
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qsub job_altix |
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########################################################################## |
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########################################################################## |
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# 32*32*6*15, 1-cpu cube sphere |
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cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
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\cp ../../../utils/exch2/code-mods/s12t_16x32/* . |
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cd ../build |
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\rm * |
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../../../tools/genmake2 -mods=../code |
../../../tools/genmake2 -mods=../code |
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make depend |
make depend |
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make |
make |
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cd .. |
cd .. |
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mkdir run |
mkdir run |
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cd run |
cd run |
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\rm * |
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\cp ../../tutorial_held_suarez_cs/input/grid* . |
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\cp ../input/* . |
\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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../build/mitgcmuv >& output.txt |
../build/mitgcmuv >& output.txt |
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to use matlab to look at the output |
to use matlab to look at the output |
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matlab |
matlab |
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for fld={'Eta','VICE','UICE','HEFF','AREA','Qsw','Qnet','FV','FU','EmPmR'} |
for fld={'SIuice','SIvice','SIheff','SIarea','oceQsw', ... |
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tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]); |
'surForcT','oceTAUX','oceTAUY','surForcS'} |
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tmp=permute(readbin([fld{1} '.0000000072.data'],[32,6,32]),[1 3 2]); |
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cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause |
cx=[min(tmp(:)) max(tmp(:))]; clf, plot_cube, title(fld{1}), pause |
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end |
end |
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heff=permute(readbin(['HEFF.0000000020.data'],[32,6,32]),[1 3 2]); |
heff=permute(readbin(['SIheff.0000000072.data'],[32,6,32]),[1 3 2]); |
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mask=0*heff; mask(find(heff>.001))=1; |
mask=0*heff; mask(find(heff>.001))=1; |
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uice=mask.*permute(readbin(['UICE.0000000020.data'],[32,6,32]),[1 3 2]); |
uice=mask.*permute(readbin(['SIuice.0000000072.data'],[32,6,32]),[1 3 2]); |
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vice=mask.*permute(readbin(['VICE.0000000020.data'],[32,6,32]),[1 3 2]); |
vice=mask.*permute(readbin(['SIvice.0000000072.data'],[32,6,32]),[1 3 2]); |
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clf |
clf |
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subplot(221), mypcolor(uice(:,:,3)'), colorbar, title('uice, tile 3') |
subplot(221), mypcolor(uice(:,:,3)'); colorbar, title('uice, tile 3') |
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subplot(222), mypcolor(uice(:,:,6)'), colorbar, title('uice, tile 6') |
subplot(222), mypcolor(uice(:,:,6)'); colorbar, title('uice, tile 6') |
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subplot(223), mypcolor(vice(:,:,3)'), colorbar, title('vice, tile 3') |
subplot(223), mypcolor(vice(:,:,3)'); colorbar, title('vice, tile 3') |
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subplot(224), mypcolor(vice(:,:,6)'), colorbar, title('vice, tile 6') |
subplot(224), mypcolor(vice(:,:,6)'); colorbar, title('vice, tile 6') |
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########################################################################## |
########################################################################## |
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########################################################################## |
########################################################################## |
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# 32*32*6*15, 2-cpu cube sphere on the altices with efc |
# 32*32*6*15, 17-tile, 1-cpu cube sphere experiment |
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cd MITgcm/verification/global_ocean.cs32x15/code |
cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s12t_16x32/* . |
\cp ../code_alt/code.176t_8x4/* . |
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cd ../build |
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\rm * |
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../../../tools/genmake2 -mods=../code |
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make depend |
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make |
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cd .. |
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mkdir run |
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cd run |
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\rm * |
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\cp ../../tutorial_held_suarez_cs/input/grid* . |
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\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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../build/mitgcmuv >& output.txt |
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########################################################################## |
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########################################################################## |
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# 32*32*6*15, 2-cpu cube sphere on the altices with ifort |
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cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
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\cp ../../../utils/exch2/code-mods/s12t_16x32/* . |
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\cp SIZE.h_mpi SIZE.h |
\cp SIZE.h_mpi SIZE.h |
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cd ../build |
cd ../build |
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\rm * |
\rm * |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
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make depend |
make depend |
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make |
make -j |
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cd .. |
cd .. |
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mkdir run |
mkdir run |
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cd run |
cd run |
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\rm * |
\rm * |
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\cp ../../tutorial_held_suarez_cs/input/grid* . |
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\cp ../input/* . |
\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/matlab-grid-converter/tile00* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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mpirun -np 2 ../build/mitgcmuv |
mpirun -np 2 ../build/mitgcmuv |
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########################################################################## |
########################################################################## |
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########################################################################## |
########################################################################## |
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# 510*510*6*50, 54-cpu cube sphere on the altices with efc |
# 510*510*6*50, 54-tile, 54-cpu cube sphere on the altices with efc |
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# starting with pickup file from end of 1992 |
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# requires input files in sudirectories run_template and ncep_rgau |
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cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s54t_170x170/* . |
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\cp packages.conf_hr packages.conf |
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cd ../build |
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\rm * |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix |
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make depend |
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make -j |
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cd .. |
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mkdir run |
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cd run |
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\rm * |
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\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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qsub job_altix92_54t |
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########################################################################## |
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########################################################################## |
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# 510*510*6*50, 1500-tile, 150-cpu, excludes land |
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# uses s1500t_17x51 configuration |
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cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
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\cp SIZE.h_150 SIZE.h |
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\cp packages.conf_hr packages.conf |
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cd ../build |
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\rm * |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
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make depend |
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make -j |
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cd .. |
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mkdir run |
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cd run |
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\rm * |
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\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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ln -sf ../../../../run_template/* . |
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\rm pickup* |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
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\cp ../build/mitgcmuv mitgcmuv150 |
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qsub job_altix150 |
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########################################################################## |
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########################################################################## |
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# 510*510*6*50, 1500-tile, 375-cpu, excludes land |
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# uses s1500t_17x51 configuration |
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# example for running on c17-c20 using arrayd |
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cd MITgcm/verification/global_ocean.cs32x15/code |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
244 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
245 |
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\cp SIZE.h_375 SIZE.h |
246 |
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\cp packages.conf_hr packages.conf |
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248 |
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cd ../build |
249 |
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\rm * |
250 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
251 |
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make depend |
252 |
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make -j |
253 |
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254 |
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cd .. |
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mkdir run |
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cd run |
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\rm * |
258 |
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\cp ../input/* . |
259 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
260 |
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ln -sf ../../../../run_template/* . |
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\rm pickup* |
262 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
263 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
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\cp ../build/mitgcmuv . |
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job_c20_375cpu < /dev/null >&! output.run & |
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########################################################################## |
269 |
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########################################################################## |
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# 510*510*6*50, 1500-tile, 375-cpu, excludes land |
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# uses s1500t_17x51 configuration |
272 |
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# example for running on c17-c20 using arrayd |
273 |
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274 |
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cd MITgcm/verification/global_ocean.cs32x15/code |
275 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
276 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
277 |
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\cp SIZE.h_375 SIZE.h |
278 |
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\cp packages.conf_hr packages.conf |
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280 |
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cd ../build |
281 |
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\rm * |
282 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
283 |
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make depend |
284 |
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make -j |
285 |
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cd .. |
287 |
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mkdir run |
288 |
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cd run |
289 |
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\rm * |
290 |
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\cp ../input/* . |
291 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
292 |
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ln -sf ../../../../run_template/* . |
293 |
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\rm pickup* |
294 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
295 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
296 |
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\cp ../build/mitgcmuv . |
297 |
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job_c20_375cpu < /dev/null >&! output.run & |
298 |
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299 |
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300 |
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########################################################################## |
301 |
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########################################################################## |
302 |
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# 510*510*6*50, 1500-tile, 500-cpu, excludes land |
303 |
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# uses s1500t_17x51 configuration |
304 |
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# example for running on c17-c20 using arrayd |
305 |
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306 |
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cd MITgcm/verification/global_ocean.cs32x15/code |
307 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
308 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
309 |
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\cp SIZE.h_500 SIZE.h |
310 |
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\cp packages.conf_hr packages.conf |
311 |
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312 |
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cd ../build |
313 |
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\rm * |
314 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
315 |
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make depend |
316 |
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make -j |
317 |
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318 |
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cd .. |
319 |
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mkdir run |
320 |
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cd run |
321 |
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\rm * |
322 |
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\cp ../input/* . |
323 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
324 |
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ln -sf ../../../../run_template/* . |
325 |
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\rm pickup* |
326 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
327 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
328 |
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\cp ../build/mitgcmuv . |
329 |
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job_c19_500cpu < /dev/null >&! output.run & |
330 |
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331 |
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332 |
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########################################################################## |
333 |
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########################################################################## |
334 |
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# 510*510*6*50, 216-cpu cube sphere on cosmos |
335 |
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336 |
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cd MITgcm/verification/global_ocean.cs32x15/code |
337 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
338 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* . |
339 |
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\cp SIZE.h_216 SIZE.h |
340 |
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\cp packages.conf_hr packages.conf |
341 |
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342 |
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module unload latest_intel80 |
343 |
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module unload mpich-gm-intel80 |
344 |
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module load latest_intel81 |
345 |
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module load mpich-gm-intel81 |
346 |
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347 |
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cd ../build |
348 |
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\rm * |
349 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia32_ifort+mpi_cosmos |
350 |
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make depend |
351 |
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make -j |
352 |
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353 |
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cd .. |
354 |
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mkdir run |
355 |
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cd run |
356 |
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\rm * |
357 |
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\cp ../input/* . |
358 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
359 |
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ln -sf ../../../../run_template/* . |
360 |
|
\rm pickup* |
361 |
|
ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
362 |
|
ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
363 |
|
\cp ../build/mitgcmuv . |
364 |
|
bsub < job_cosmos |
365 |
|
|
366 |
|
|
367 |
|
########################################################################## |
368 |
|
########################################################################## |
369 |
|
# 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc |
370 |
# requires input files in sudirectories run_template and ncep_rgau |
# requires input files in sudirectories run_template and ncep_rgau |
371 |
# presently residing under orion:/tmp1/dmenem/cube |
# presently residing under orion:/tmp1/dmenem/cube |
372 |
|
|
378 |
|
|
379 |
cd ../build |
cd ../build |
380 |
\rm * |
\rm * |
381 |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix |
382 |
make depend |
make depend |
383 |
make |
make -j |
384 |
|
|
385 |
cd .. |
cd .. |
386 |
mkdir run |
mkdir run |
405 |
|
|
406 |
cd ../build |
cd ../build |
407 |
\rm * |
\rm * |
408 |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix |
409 |
make depend |
make depend |
410 |
make |
make -j |
411 |
|
|
412 |
cd .. |
cd .. |
413 |
mkdir run |
mkdir run |
420 |
|
|
421 |
########################################################################## |
########################################################################## |
422 |
########################################################################## |
########################################################################## |
423 |
# 510*510*6*50, 216-cpu cube sphere on altix with efc |
# 510*510*6*50, 1500-tile, 50-cpu cube sphere on the altices with efc |
424 |
# requires input files in sudirectories run_template and ncep_rgau |
# requires input files in sudirectories run_template and ncep_rgau |
425 |
# these can be obained from lou:/u/menemenl/cube |
# presently residing under orion:/tmp1/dmenem/cube |
426 |
|
|
427 |
cd MITgcm/verification/global_ocean.cs32x15/code |
cd MITgcm/verification/global_ocean.cs32x15/code |
428 |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
429 |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
430 |
\cp SIZE.h_216 SIZE.h |
\cp SIZE.h_50 SIZE.h |
431 |
\cp packages.conf_hr packages.conf |
\cp packages.conf_hr packages.conf |
432 |
|
|
433 |
cd ../build |
cd ../build |
434 |
\rm * |
\rm * |
435 |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix |
436 |
make depend |
make depend |
437 |
make |
make -j |
438 |
|
|
439 |
cd .. |
cd .. |
440 |
mkdir run |
mkdir run |
442 |
\rm * |
\rm * |
443 |
\cp ../input/* . |
\cp ../input/* . |
444 |
\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
445 |
qsub -l ignore_ded=1 job_altix |
qsub job_orion |
|
|
|
|
|
|
|
########################################################################## |
|
|
########################################################################## |
|
|
# matlab script for generating pChkptFreq |
|
|
|
|
|
nTimeSteps=26352; |
|
|
for niter0=216:26352:(26352*11) |
|
|
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 |
|