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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 |
September 28, 2006: 216-CPU code for cube38 |
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cube-sphere integration. |
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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 |
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216-CPU code and input used for integrating 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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setenv CVSROOT :pserver:cvsanon@mitgcm.org:/u/u0/gcmpack |
bash or sh shell: |
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cvs login ( CVS password: cvsanon ) |
$ export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack' |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/README_ice |
$ cvs login |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/code-mods |
( enter the CVS password: "cvsanon" ) |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/matlab-grid-converter |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/input |
tcsh or csh shell: |
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cvs co -r hrcube4 MITgcm_contrib/high_res_cube/results |
$ setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack' |
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cvs co -r hrcube4 MITgcm_code |
$ cvs login |
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cvs co -r hrcube4 MITgcm/verification/global_ocean.cs32x15 |
( enter the CVS password: "cvsanon" ) |
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cvs co MITgcm_contrib/high_res_cube/README_ice |
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cvs co MITgcm_contrib/high_res_cube/code-mods |
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cvs co MITgcm_contrib/high_res_cube/input |
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cvs co MITgcm_contrib/high_res_cube/results |
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cvs co MITgcm_code |
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cvs co MITgcm/verification/global_ocean.cs32x15 |
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cvs co MITgcm/verification/tutorial_held_suarez_cs/input |
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########################################################################## |
########################################################################## |
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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 ../../../utils/exch2/code-mods/s12t_16x32/* . |
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cd ../build |
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={'VICEtave','UICEtave','HEFFtave','AREAtave','QSWtave', ... |
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'QNETtave','FVtave','FUtave','EmPmRtave'} |
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tmp=permute(readbin([fld{1} '.0000000020.data'],[32,6,32]),[1 3 2]); |
tmp=permute(readbin([fld{1} '.0000000020.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(['HEFFtave.0000000020.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(['UICEtave.0000000020.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(['VICEtave.0000000020.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 |
# 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_mpi SIZE.h |
\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 * |
\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 |
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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* data.pkg data.seaice data.exf_clim data.exf data bathy_Hmin50.bin |
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\rm *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, 17-tile, 1-cpu cube sphere experiment |
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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 ../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 |
make depend |
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make |
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 |
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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 .. |
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 |
223 |
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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/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
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\cp SIZE.h_375 SIZE.h |
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\cp packages.conf_hr packages.conf |
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cd ../build |
239 |
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\rm * |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
241 |
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make depend |
242 |
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make -j |
243 |
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cd .. |
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mkdir run |
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cd run |
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\rm * |
248 |
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\cp ../input/* . |
249 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
250 |
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ln -sf ../../../../run_template/* . |
251 |
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\rm pickup* |
252 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
253 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
254 |
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\cp ../build/mitgcmuv . |
255 |
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job_c20_375cpu < /dev/null >&! output.run & |
256 |
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257 |
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########################################################################## |
259 |
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########################################################################## |
260 |
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# 510*510*6*50, 1500-tile, 375-cpu, excludes land |
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# uses s1500t_17x51 configuration |
262 |
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# example for running on c17-c20 using arrayd |
263 |
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264 |
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cd MITgcm/verification/global_ocean.cs32x15/code |
265 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
266 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
267 |
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\cp SIZE.h_375 SIZE.h |
268 |
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\cp packages.conf_hr packages.conf |
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270 |
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cd ../build |
271 |
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\rm * |
272 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
273 |
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make depend |
274 |
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make -j |
275 |
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276 |
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cd .. |
277 |
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mkdir run |
278 |
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cd run |
279 |
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\rm * |
280 |
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\cp ../input/* . |
281 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
282 |
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ln -sf ../../../../run_template/* . |
283 |
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\rm pickup* |
284 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
285 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
286 |
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\cp ../build/mitgcmuv . |
287 |
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job_c20_375cpu < /dev/null >&! output.run & |
288 |
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289 |
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290 |
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########################################################################## |
291 |
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########################################################################## |
292 |
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# 510*510*6*50, 1500-tile, 500-cpu, excludes land |
293 |
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# uses s1500t_17x51 configuration |
294 |
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# example for running on c17-c20 using arrayd |
295 |
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296 |
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cd MITgcm/verification/global_ocean.cs32x15/code |
297 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
298 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
299 |
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\cp SIZE.h_500 SIZE.h |
300 |
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\cp packages.conf_hr packages.conf |
301 |
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302 |
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cd ../build |
303 |
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\rm * |
304 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
305 |
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make depend |
306 |
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make -j |
307 |
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308 |
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cd .. |
309 |
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mkdir run |
310 |
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cd run |
311 |
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\rm * |
312 |
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\cp ../input/* . |
313 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
314 |
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ln -sf ../../../../run_template/* . |
315 |
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\rm pickup* |
316 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
317 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
318 |
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\cp ../build/mitgcmuv . |
319 |
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job_c19_500cpu < /dev/null >&! output.run & |
320 |
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321 |
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322 |
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########################################################################## |
323 |
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########################################################################## |
324 |
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# 510*510*6*50, 216-cpu cube sphere on cosmos |
325 |
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326 |
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cd MITgcm/verification/global_ocean.cs32x15/code |
327 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/* . |
328 |
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\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s216t_85x85/* . |
329 |
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\cp SIZE.h_216 SIZE.h |
330 |
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\cp packages.conf_hr packages.conf |
331 |
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332 |
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module unload latest_intel80 |
333 |
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module unload mpich-gm-intel80 |
334 |
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module load latest_intel81 |
335 |
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module load mpich-gm-intel81 |
336 |
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337 |
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cd ../build |
338 |
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\rm * |
339 |
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../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia32_ifort+mpi_cosmos |
340 |
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make depend |
341 |
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make -j |
342 |
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343 |
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cd .. |
344 |
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mkdir run |
345 |
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cd run |
346 |
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\rm * |
347 |
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\cp ../input/* . |
348 |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
349 |
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ln -sf ../../../../run_template/* . |
350 |
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\rm pickup* |
351 |
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ln -sf ../../../../run_template/pickup.0000316440.cube19 pickup.0000000216 |
352 |
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ln -sf ../../../../run_template/pickup_seaice.0000316440.cube19 pickup_seaice.0000000216 |
353 |
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\cp ../build/mitgcmuv . |
354 |
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bsub < job_cosmos |
355 |
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356 |
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357 |
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########################################################################## |
358 |
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########################################################################## |
359 |
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# 510*510*6*50, 216-tile, 54-cpu cube sphere on the altices with efc |
360 |
# requires input files in sudirectories run_template and ncep_rgau |
# requires input files in sudirectories run_template and ncep_rgau |
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# presently residing under orion:/tmp1/dmenem/cube |
# presently residing under orion:/tmp1/dmenem/cube |
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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_efc+mpi_altix |
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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 ../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_efc+mpi_altix |
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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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########################################################################## |
########################################################################## |
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########################################################################## |
########################################################################## |
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# 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 |
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# requires input files in sudirectories run_template and ncep_rgau |
# requires input files in sudirectories run_template and ncep_rgau |
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# these can be obained from lou:/u/menemenl/cube |
# presently residing under orion:/tmp1/dmenem/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/s216t_85x85/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/code-mods/s1500t_17x51/* . |
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\cp SIZE.h_216 SIZE.h |
\cp SIZE.h_50 SIZE.h |
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\cp packages.conf_hr packages.conf |
\cp packages.conf_hr packages.conf |
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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_altix |
../../../tools/genmake2 -mods=../code -of ../../../tools/build_options/linux_ia64_efc+mpi_altix |
426 |
make depend |
make depend |
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make |
make -j |
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cd .. |
cd .. |
430 |
mkdir run |
mkdir run |
432 |
\rm * |
\rm * |
433 |
\cp ../input/* . |
\cp ../input/* . |
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\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
\cp ../../../../MITgcm_contrib/high_res_cube/input/* . |
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qsub job_altix |
qsub job_orion |
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########################################################################## |
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########################################################################## |
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# matlab script for generating pChkptFreq |
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nTimeSteps=26352; |
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for niter0=216:26352:(26352*11) |
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pChkptFreq=(niter0+nTimeSteps)*1200; |
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day=pChkptFreq/24/60/60; |
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disp(['niter0=' int2str(niter0) ',day=' int2str(day) ', ' ... |
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datestr(datenum(1992,1,1)+day) ', pChkptFreq=' int2str(pChkptFreq)]) |
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end |
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niter0 = 216 , day = 369 , 04-Jan-1993, pChkptFreq = 31881600 |
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niter0 = 26568 , day = 735 , 05-Jan-1994, pChkptFreq = 63504000 |
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niter0 = 52920 , day = 1101, 06-Jan-1995, pChkptFreq = 95126400 |
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niter0 = 79272 , day = 1467, 07-Jan-1996, pChkptFreq = 126748800 |
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niter0 = 105624, day = 1833, 07-Jan-1997, pChkptFreq = 158371200 |
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niter0 = 131976, day = 2199, 08-Jan-1998, pChkptFreq = 189993600 |
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niter0 = 158328, day = 2565, 09-Jan-1999, pChkptFreq = 221616000 |
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niter0 = 184680, day = 2931, 10-Jan-2000, pChkptFreq = 253238400 |
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niter0 = 211032, day = 3297, 10-Jan-2001, pChkptFreq = 284860800 |
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niter0 = 237384, day = 3663, 11-Jan-2002, pChkptFreq = 316483200 |
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niter0 = 263736, day = 4029, 12-Jan-2003, pChkptFreq = 348105600 |
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