/[MITgcm]/MITgcm_contrib/llc_hires/llc_4320/readme.txt
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revision 1.15 by dimitri, Sat Apr 2 01:35:44 2016 UTC revision 1.17 by dimitri, Sun May 1 01:35:48 2016 UTC
# Line 1  Line 1 
1  #############################  #############################
2  # 90x90x19023 configuration  # 90x90x19023 configuration
   
 qsub -I -q alphatst -l select=850:ncpus=24:model=has,walltime=8:00:00 -m abe -M menemenlis@me.com  
   
3  module purge  module purge
4  module load comp-intel/2015.0.090 test/mpt.2.11r8 netcdf/4.0  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
   
5  cd ~/llc_4320  cd ~/llc_4320
6  cvs co MITgcm_code  cvs co MITgcm_code
7  cvs co MITgcm_contrib/llc_hires/llc_4320  cvs co MITgcm_contrib/llc_hires/llc_4320
8  cd MITgcm  cd MITgcm
9  mkdir build run  mkdir build run485568
10  lfs setstripe -c -1 run  lfs setstripe -c -1 run_485568
11  cd build  cd build
12  rm *  rm *
13  cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_90x90x19023 SIZE.h  cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_90x90x19023 SIZE.h
# Line 24  emacs readtile_mpiio.c Line 20  emacs readtile_mpiio.c
20   '../../MITgcm_contrib/llc_hires/llc_4320/code ../../MITgcm_contrib/llc_hires/llc_4320/code-async'   '../../MITgcm_contrib/llc_hires/llc_4320/code ../../MITgcm_contrib/llc_hires/llc_4320/code-async'
21  make depend  make depend
22  make -j 16  make -j 16
23    cp mitgcmuv ../run_485568/mitgcmuv_90x90x19023_intel.2015.0.090
24    
25  cd ~/llc_4320/MITgcm/run  qsub -I -q long -l select=850:ncpus=24:model=has,walltime=120:00:00 -m abe -M menemenlis@me.com
26  cp ../build/mitgcmuv mitgcmuv_90x90x19023_intel.2015.0.090  qsub -I -q long -l select=1020:ncpus=20:model=ivy,walltime=120:00:00 -m abe -M menemenlis@me.com
27    module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
28    ln -sf /nobackup/dmenemen/tarballs/llc_4320/run_template/* .
29    ln -sf /nobackup/dmenemen/forcing/ECMWF_operational/* .
30    cp ../../MITgcm_contrib/llc_hires/llc_4320/input/* .
31  cp data.exch2_90x90x19023 data.exch2  cp data.exch2_90x90x19023 data.exch2
32    mv STDOUT.00000 STDOUT.485568
 cd ~/llc_4320/MITgcm/run  
 mv STDOUT.00000 STDOUT.409536  
33  emacs data  emacs data
34   nIter0=409536,   nIter0=485568,
35  mv pickup_0000409536.data pickup.0000409536.data  ln -sf ../run/pickup_0000485568.data pickup.0000485568.data
36  mv pickup_0000409536.meta pickup.0000409536.meta  ln -sf ../run/pickup_0000485568.meta pickup.0000485568.meta
37  mv pickup_seaice_0000409536.data pickup_seaice.0000409536.data  ln -sf ../run/pickup_seaice_0000485568.data pickup_seaice.0000485568.data
38  mv pickup_seaice_0000409536.meta pickup_seaice.0000409536.meta  ln -sf ../run/pickup_seaice_0000485568.meta pickup_seaice.0000485568.meta
   
 cd ~/llc_4320/MITgcm/run  
 module purge  
 module load comp-intel/2015.0.090 test/mpt.2.11r8 netcdf/4.0  
 cp data.exch2_90x90x19023 data.exch2  
39  mpiexec -n 20400 ./mitgcmuv_90x90x19023_intel.2015.0.090  mpiexec -n 20400 ./mitgcmuv_90x90x19023_intel.2015.0.090
40    
41    cd ~/llc_4320/MITgcm/run_485568
42  tail -f STDOUT.00000 | grep advcfl_W  tail -f STDOUT.00000 | grep advcfl_W
43    
   
44  #############################  #############################
45  qsub -I -q alphatst -l select=850:ncpus=24:model=has,walltime=8:00:00 -m abe -M menemenlis@me.com  # 120x120x10901 configuration
 qsub -I -q alphatst -l select=497:ncpus=24:model=has,walltime=8:00:00 -m abe -M menemenlis@me.com  
   
 qsub -I -q alphatst -l select=497:ncpus=24:model=has,walltime=8:00:00 -m abe -M menemenlis@me.com  
46  module purge  module purge
47  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.10r6 netcdf/4.0  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
   
 module load comp-intel/2015.0.090 test/mpt.2.11r8 netcdf/4.0  
   
48  cd ~/llc_4320/MITgcm/build  cd ~/llc_4320/MITgcm/build
49  rm *  cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_120x120x10901 SIZE.h
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_120x120x19023 SIZE.h  
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code-async/readtile_mpiio.c .  
50  emacs readtile_mpiio.c  emacs readtile_mpiio.c
51      tileSizeX = 120;      tileSizeX = 120;
52      tileSizeY = 120;      tileSizeY = 120;
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code-async/linux_amd64_ifort+mpi_ice_nas .  
 emacs linux_amd64_ifort+mpi_ice_nas  
     FOPTIM='-O3 -ipo -axCORE-AVX2,AVX -xSSE4.1 -ip -fp-model precise -traceback -ftz'  
 ../tools/genmake2 -of linux_amd64_ifort+mpi_ice_nas -mpi -mods \  
  '../../MITgcm_contrib/llc_hires/llc_4320/code ../../MITgcm_contrib/llc_hires/llc_4320/code-async'  
 make depend  
53  make -j 16  make -j 16
54    cp mitgcmuv ../run_485568/mitgcmuv_120x120x10901_intel.2015.0.090
55    
56  cd ~/llc_4320/MITgcm/run  qsub -I -q testing_free -l select=428:ncpus=28:model=bro,walltime=8:00:00 -m abe -M menemenlis@me.com
57  cp ../build/mitgcmuv mitgcmuv_120x120x10901_AVX2  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
58    cd ~/llc_4320/MITgcm/run_485568
59    cp data.exch2_120x120x10901 data.exch2
60    mv STDOUT.00000 STDOUT.489024
61    emacs -nw data
62     nIter0=489024,
63    ln -sf pickup_0000489024.data pickup.0000489024.data
64    ln -sf pickup_0000489024.meta pickup.0000489024.meta
65    ln -sf pickup_seaice_0000489024.data pickup_seaice.0000489024.data
66    ln -sf pickup_seaice_0000489024.meta pickup_seaice.0000489024.meta
67    mpiexec -n 11984 ./mitgcmuv_120x120x10901_intel.2015.0.090
68    
69  mv STDOUT.00000 STDOUT.428544  cd ~/llc_4320/MITgcm/run_485568
70  emacs data  tail -f STDOUT.00000 | grep advcfl_W
  nIter0=428544,  
 mv pickup_0000428544.data pickup.0000428544.data  
 mv pickup_0000428544.meta pickup.0000428544.meta  
 mv pickup_seaice_0000428544.data pickup_seaice.0000428544.data  
 mv pickup_seaice_0000428544.meta pickup_seaice.0000428544.meta  
71    
72  cd ~/llc_4320/MITgcm/run  
73    #############################
74    # 180x180x5015 configuration
75  module purge  module purge
76  module load comp-intel/2015.0.090 test/mpt.2.11r8 netcdf/4.0  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
77  cp data.exch2_120x120x10901 data.exch2  cd ~/llc_4320/MITgcm/build
78  mpiexec -n 12000 ./mitgcmuv_120x120x10901_Avx2  cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_180x180x5015 SIZE.h
79    emacs readtile_mpiio.c
80        tileSizeX = 180;
81        tileSizeY = 180;
82    make -j 16
83    cp mitgcmuv ../run_485568/mitgcmuv_180x180x5015_intel.2015.0.090
84    
85    qsub -I -q testing_free -l select=214:ncpus=28:model=bro,walltime=8:00:00 -m abe -M menemenlis@me.com
86    module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
87    cd ~/llc_4320/MITgcm/run_485568
88    cp data.exch2_180x180x5015 data.exch2
89    mv STDOUT.00000 STDOUT.489024
90    emacs -nw data
91     nIter0=489024,
92    ln -sf pickup_0000489024.data pickup.0000489024.data
93    ln -sf pickup_0000489024.meta pickup.0000489024.meta
94    ln -sf pickup_seaice_0000489024.data pickup_seaice.0000489024.data
95    ln -sf pickup_seaice_0000489024.meta pickup_seaice.0000489024.meta
96    mpiexec -n 5992 ./mitgcmuv_180x180x5015_intel.2015.0.090
97    
98  For interactive session, Ivy Bridge nodes:  cd ~/llc_4320/MITgcm/run_485568
99  qsub -I -q devel -l select=300:ncpus=20:model=ivy,walltime=02:00:00 -m abe -M email  tail -f STDOUT.00000 | grep advcfl_W
 qsub -I -q normal -l select=300:ncpus=20:model=ivy,walltime=8:00:00 -m abe -M email  
 qsub -I -q long -l select=300:ncpus=20:model=ivy,walltime=120:00:00 -m abe -M email  
100    
 #############################  
 # 90x90x19023 configuration  
101    
102  qsub -I -q long -l select=1020:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M menemenlis@me.com  #############################
103    # 72x72x29297 configuration
104  module purge  module purge
105  module load comp-intel/2012.0.032 mpi-sgi/mpt.2.10r6 netcdf/4.0  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
106  cd ~/llc_4320  cd ~/llc_4320/MITgcm/build
107  cvs co MITgcm_code  cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_72x72x29297 SIZE.h
 cvs co MITgcm_contrib/llc_hires/llc_4320  
 cd MITgcm  
 mkdir build run  
 lfs setstripe -c -1 run  
 cd build  
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_90x90x19023 SIZE.h  
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code-async/readtile_mpiio.c .  
108  emacs readtile_mpiio.c  emacs readtile_mpiio.c
109      tileSizeX = 90;      tileSizeX = 72;
110      tileSizeY = 90;      tileSizeY = 72;
 ../tools/genmake2 -of \  
  ../../MITgcm_contrib/llc_hires/llc_4320/code-async/linux_amd64_ifort+mpi_ice_nas -mpi -mods \  
  '../../MITgcm_contrib/llc_hires/llc_4320/code ../../MITgcm_contrib/llc_hires/llc_4320/code-async'  
 make depend  
111  make -j 16  make -j 16
112    cd ~/llc_4320/MITgcm/run_485568
113    cp mitgcmuv ../run_485568/mitgcmuv_72x72x29297_intel.2015.0.090
114    
115  cd ~/llc_4320/MITgcm/run  qsub -I -q normal -l select=1333:ncpus=24:model=has,walltime=8:00:00 -m abe -M menemenlis@me.com
116  cp ../build/mitgcmuv mitgcmuv_90x90x19023  qsub -I -q normal -l select=1600:ncpus=20:model=ivy,walltime=8:00:00 -m abe -M menemenlis@me.com
117  ln -sf /nobackup/dmenemen/tarballs/llc_4320/run_template/* .  qsub -I -q wide -l select=1600:ncpus=20:model=ivy,walltime=120:00:00 -m abe -M menemenlis@me.com
118  ln -sf /nobackup/dmenemen/forcing/ECMWF_operational/* .  qsub -I -q ldsd -l select=1600:ncpus=20:model=ivy,walltime=240:00:00 -m abe -M menemenlis@me.com
119  cp ../../MITgcm_contrib/llc_hires/llc_4320/input/* .  module load comp-intel/2015.0.090 mpi-sgi/mpt.2.12r23 netcdf/4.0
120  cp data.exch2_90x90x19023 data.exch2  cd ~/llc_4320/MITgcm/run_485568
121  emacs data  cp data.exch2_72x72x29297 data.exch2
122    mv STDOUT.00000 STDOUT.888192
123  export MPI_BUFS_PER_PROC=1024  emacs -nw data
124  export MPI_REQUEST_MAX=65536   nIter0=888192,
125  export MPI_GROUP_MAX=1024  ln -sf pickup_0000888192.data pickup.0000888192.data
126  export MPI_NUM_MEMORY_REGIONS=8  ln -sf pickup_0000888192.meta pickup.0000888192.meta
127  export MPI_UNBUFFERED_STDIO=1  ln -sf pickup_seaice_0000888192.data pickup_seaice.0000888192.data
128  export MPI_MEMMAP_OFF=1  ln -sf pickup_seaice_0000888192.meta pickup_seaice.0000888192.meta
129  export MPI_UD_TIMEOUT=100  mpiexec -n 32000 ./mitgcmuv_72x72x29297_intel.2015.0.090
 mpiexec -n 20400 ./mitgcmuv_90x90x19023  
130    
131    cd ~/llc_4320/MITgcm/run_485568
132  tail -f STDOUT.00000 | grep advcfl_W  tail -f STDOUT.00000 | grep advcfl_W
133    
134    
135  #############################  #############################
136  # 48x48x64670 configuration  # 48x48x64670 configuration
   
137  module purge  module purge
138  module load comp-intel/2012.0.032 mpi-sgi/mpt.2.10r6 netcdf/4.0  module load comp-intel/2012.0.032 mpi-sgi/mpt.2.10r6 netcdf/4.0
139  cd ~/llc_4320  cd ~/llc_4320
# Line 165  cd ~/llc_4320/MITgcm/run Line 158  cd ~/llc_4320/MITgcm/run
158  cp ../build/mitgcmuv mitgcmuv_48x48x64670  cp ../build/mitgcmuv mitgcmuv_48x48x64670
159  cp ../../MITgcm_contrib/llc_hires/llc_4320/input/data.exch2_90x90x19023 data.exch2  cp ../../MITgcm_contrib/llc_hires/llc_4320/input/data.exch2_90x90x19023 data.exch2
160    
161    
162  #############################  #############################
163  # generate 60x60 blank tiles  # generate 60x60 blank tiles
164  qsub -I -q long -l select=600:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M menemenlis@me.com  qsub -I -q long -l select=600:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M menemenlis@me.com
# Line 225  export MPI_MEMMAP_OFF=1 Line 219  export MPI_MEMMAP_OFF=1
219  export MPI_UD_TIMEOUT=100  export MPI_UD_TIMEOUT=100
220  mpiexec -n 12000 ./mitgcmuv  mpiexec -n 12000 ./mitgcmuv
221    
222    
223  #############################  #############################
224  # generate 45x45 blank tiles  # generate 45x45 blank tiles
225  qsub -I -q long -l select=600:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M menemenlis@me.com  qsub -I -q long -l select=600:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M menemenlis@me.com
# Line 285  export MPI_MEMMAP_OFF=1 Line 280  export MPI_MEMMAP_OFF=1
280  export MPI_UD_TIMEOUT=100  export MPI_UD_TIMEOUT=100
281  mpiexec -n 12000 ./mitgcmuv  mpiexec -n 12000 ./mitgcmuv
282    
283    
284  #############################  #############################
285  # generate 48x48 blank tiles  # generate 48x48 blank tiles
286  qsub -I -q devel -l select=600:ncpus=20:model=ivy,walltime=2:00:00 -m abe -M menemenlis@me.com  qsub -I -q devel -l select=600:ncpus=20:model=ivy,walltime=2:00:00 -m abe -M menemenlis@me.com
# Line 343  export MPI_MEMMAP_OFF=1 Line 339  export MPI_MEMMAP_OFF=1
339  export MPI_UD_TIMEOUT=100  export MPI_UD_TIMEOUT=100
340  mpiexec -n 12000 ./mitgcmuv  mpiexec -n 12000 ./mitgcmuv
341    
 #############################  
 # 120x120x10901 configuration  
   
 qsub -I -q long -l select=600:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M menemenlis@me.com  
 module purge  
 module load  comp-intel/2012.0.032 netcdf/4.0  
 module use -a ~kjtaylor/modulefiles  
 module load sles11sp3/mpt-2.10-nasa201311271217  
 cd ~/llc_4320  
 cvs co MITgcm_code  
 cvs co MITgcm_contrib/llc_hires/llc_4320  
 cd MITgcm  
 mkdir build run  
 lfs setstripe -c -1 run  
 cd build  
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code/SIZE.h_120x120x10901 SIZE.h  
 cp ../../MITgcm_contrib/llc_hires/llc_4320/code-async/readtile_mpiio.c .  
 emacs readtile_mpiio.c  
     tileSizeX = 120;  
     tileSizeY = 120;  
 ../tools/genmake2 -of \  
  ../../MITgcm_contrib/llc_hires/llc_4320/code-async/linux_amd64_ifort+mpi_ice_nas -mpi -mods \  
  '../../MITgcm_contrib/llc_hires/llc_4320/code ../../MITgcm_contrib/llc_hires/llc_4320/code-async'  
 make depend  
 make -j 16  
   
 cd ~/llc_4320/MITgcm/run  
 cp ../build/mitgcmuv mitgcmuv_120x120x10901  
 ln -sf /nobackup/dmenemen/tarballs/llc_4320/run_template/* .  
 ln -sf /nobackup/dmenemen/forcing/ECMWF_operational/* .  
 cp ../../MITgcm_contrib/llc_hires/llc_4320/input/* .  
 mv data.exch2_120x120x10901 data.exch2  
 emacs data  
   
 export MPI_BUFS_PER_PROC=1024  
 export MPI_REQUEST_MAX=65536  
 export MPI_GROUP_MAX=1024  
 export MPI_NUM_MEMORY_REGIONS=8  
 export MPI_UNBUFFERED_STDIO=1  
 export MPI_MEMMAP_OFF=1  
 export MPI_UD_TIMEOUT=100  
 mpiexec -n 12000 ./mitgcmuv_120x120x10901  
   
 tail -f STDOUT.00000 | grep advcfl_W  
   
 ==============  
342    
343    #############################
344  qsub -I -q R3089666 -l select=1750:model=ivy:aoe=sles11,walltime=04:00:00  qsub -I -q R3089666 -l select=1750:model=ivy:aoe=sles11,walltime=04:00:00
345  tcsh  tcsh
346  cd ~/llc_4320/MITgcm  cd ~/llc_4320/MITgcm
# Line 423  mpiexec -n 35000 ./mitgcmuv_72x72x29297 Line 374  mpiexec -n 35000 ./mitgcmuv_72x72x29297
374    
375  tail -f STDOUT.00000 | grep advcfl_w  tail -f STDOUT.00000 | grep advcfl_w
376    
 ==============  
377    
378    #############################
379  cd ~/llc_4320  cd ~/llc_4320
380  cvs co MITgcm_code  cvs co MITgcm_code
381  cvs co MITgcm_contrib/llc_hires/llc_4320  cvs co MITgcm_contrib/llc_hires/llc_4320
# Line 452  mpiexec -n 35000 ./mitgcmuv_72x72x29297 Line 403  mpiexec -n 35000 ./mitgcmuv_72x72x29297
403    
404  tail -f STDOUT.00000 | grep advcfl_w  tail -f STDOUT.00000 | grep advcfl_w
405    
 ==============  
406    
407    #############################
408  cd ~/llc_4320  cd ~/llc_4320
409  cvs co MITgcm_code  cvs co MITgcm_code
410  cvs co MITgcm_contrib/llc_hires/llc_4320  cvs co MITgcm_contrib/llc_hires/llc_4320
# Line 479  mv data.exch2_72x72x29297 data.exch2 Line 430  mv data.exch2_72x72x29297 data.exch2
430  export MPI_NUM_MEMORY_REGIONS=256  export MPI_NUM_MEMORY_REGIONS=256
431  mpiexec -n 6000 ./mitgcmuv_180x180x5015  mpiexec -n 6000 ./mitgcmuv_180x180x5015
432    
 ==============  
   
 look at output  
433    
434    #############################
435    # look at output
436  for ts=[0 120 600:10:980 1080:120:2280]  for ts=[0 120 600:10:980 1080:120:2280]
437      fld=quikread_llc(['Eta.' myint2str(ts,10) '.data'],4320);      fld=quikread_llc(['Eta.' myint2str(ts,10) '.data'],4320);
438      clf,quikplot_llc(fld),caxis([-2.5 2]),thincolorbar      clf,quikplot_llc(fld),caxis([-2.5 2]),thincolorbar
# Line 490  for ts=[0 120 600:10:980 1080:120:2280] Line 440  for ts=[0 120 600:10:980 1080:120:2280]
440      pause(.1)      pause(.1)
441  end  end
442    
 ==============  
443    
444  to determine empty tiles:  #############################
445    # to determine empty tiles:
446  grep Empty STDOUT.*  grep Empty STDOUT.*
447    
 =============  
448    
449  memory requirements:  #############################
450  nPx  sNx sNy nSx cpu node0        total  # memory requirements:
451  3744 180 180   2 san 22,106,128kb 5,195,641,224kb - node ran out of memory and crashed  # nPx  sNx sNy nSx cpu node0        total
452  5616 120 120   3 san - node ran out of memory and crashed  # 3744 180 180   2 san 22,106,128kb 5,195,641,224kb - node ran out of memory and crashed
453  7488 180 180   1 san  # 5616 120 120   3 san - node ran out of memory and crashed
454    # 7488 180 180   1 san
455    
 =============  
456    
457    #############################
458  2               =    2  2               =    2
459  3               =    3  3               =    3
460  2*2             =    4  2*2             =    4
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