| 1 |
dimitri |
1.1 |
For interactive session, Ivy Bridge nodes: |
| 2 |
dimitri |
1.4 |
qsub -I -q devel -l select=300:ncpus=20:model=ivy,walltime=02:00:00 -m abe -M email |
| 3 |
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qsub -I -q normal -l select=103:ncpus=20:model=ivy,walltime=8:00:00 -m abe -M email |
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qsub -I -q long -l select=300:ncpus=20:model=ivy,walltime=120:00:00 -m abe -M email |
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qsub -I -q long -l select=103:ncpus=20:model=ivy,min_walltime=30:00,max_walltime=120:00:00 -m abe -M email |
| 6 |
dimitri |
1.1 |
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| 7 |
dimitri |
1.7 |
############################# |
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# 60x60x10882 configuration |
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| 10 |
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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 |
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module purge |
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module load comp-intel/2012.0.032 netcdf/4.0 |
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module use -a ~kjtaylor/modulefiles |
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module load sles11sp3/mpt-2.10-nasa201311271217 |
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cd ~/llc_2160 |
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cvs co MITgcm_code |
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cvs co MITgcm_contrib/llc_hires/llc_4320 |
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cd MITgcm |
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mkdir build run |
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lfs setstripe -c -1 run |
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cd build |
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cp ../../MITgcm_contrib/llc_hires/llc_2160/code/SIZE.h_60x60_10882 SIZE.h |
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cp ../../MITgcm_contrib/llc_hires/llc_2160/code-async/readtile_mpiio.c . |
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emacs readtile_mpiio.c |
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tileSizeX = 60; |
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tileSizeY = 60; |
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../tools/genmake2 -of \ |
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../../MITgcm_contrib/llc_hires/llc_2160/code-async/linux_amd64_ifort+mpi_ice_nas -mpi -mods \ |
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'../../MITgcm_contrib/llc_hires/llc_2160/code ../../MITgcm_contrib/llc_hires/llc_2160/code-async' |
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make depend |
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make -j 16 |
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cd ~/llc_2160/MITgcm/run |
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cp ../build/mitgcmuv mitgcmuv_60x60x10882 |
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ln -sf /nobackup/dmenemen/tarballs/llc_2160/run_template/* . |
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ln -sf /nobackup/dmenemen/forcing/ECMWF_operational/* . |
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cp ../../MITgcm_contrib/llc_hires/llc_2160/input/* . |
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mv ../../MITgcm_contrib/llc_hires/llc_2160/input/data.exch2_60x60x10882 data.exch2 |
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emacs data |
| 40 |
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| 41 |
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export MPI_BUFS_PER_PROC=1024 |
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export MPI_REQUEST_MAX=65536 |
| 43 |
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export MPI_GROUP_MAX=1024 |
| 44 |
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export MPI_NUM_MEMORY_REGIONS=8 |
| 45 |
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export MPI_UNBUFFERED_STDIO=1 |
| 46 |
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export MPI_MEMMAP_OFF=1 |
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mpiexec -n 12000 ./mitgcmuv_60x60x10882 |
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| 49 |
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tail -f STDOUT.00000 | grep advcfl_W |
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| 51 |
dimitri |
1.1 |
============== |
| 52 |
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| 53 |
dimitri |
1.2 |
cd ~/llc_2160 |
| 54 |
dimitri |
1.1 |
cvs co MITgcm_code |
| 55 |
dimitri |
1.2 |
cvs co MITgcm_contrib/llc_hires/llc_2160 |
| 56 |
dimitri |
1.1 |
cd MITgcm |
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module purge |
| 58 |
dimitri |
1.4 |
module load comp-intel/2012.0.032 mpi-sgi/mpt.2.08r7 netcdf/4.0 |
| 59 |
dimitri |
1.1 |
mkdir build run |
| 60 |
dimitri |
1.2 |
lfs setstripe -c -1 run |
| 61 |
dimitri |
1.1 |
cd build |
| 62 |
dimitri |
1.3 |
cp ../../MITgcm_contrib/llc_hires/llc_2160/code/SIZE.h_90x90_5004 SIZE.h |
| 63 |
dimitri |
1.2 |
../tools/genmake2 -of \ |
| 64 |
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../../MITgcm_contrib/llc_hires/llc_2160/code-async/linux_amd64_ifort+mpi_ice_nas -mpi -mods \ |
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'../../MITgcm_contrib/llc_hires/llc_2160/code ../../MITgcm_contrib/llc_hires/llc_2160/code-async' |
| 66 |
dimitri |
1.1 |
make depend |
| 67 |
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make -j 16 |
| 68 |
dimitri |
1.4 |
cd ~/llc_2160/MITgcm/run |
| 69 |
dimitri |
1.1 |
ln -sf ../build/mitgcmuv . |
| 70 |
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ln -sf /nobackup/dmenemen/tarballs/llc_2160/run_template/* . |
| 71 |
dimitri |
1.2 |
ln -sf /nobackup/dmenemen/forcing/ECMWF_operational/* . |
| 72 |
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cp ../../MITgcm_contrib/llc_hires/llc_2160/input/* . |
| 73 |
dimitri |
1.3 |
mv data.exch2_90x90x5004 data.exch2 |
| 74 |
dimitri |
1.5 |
export MPI_NUM_MEMORY_REGIONS=256 |
| 75 |
dimitri |
1.6 |
mpiexec -n 6000 ./mitgcmuv |
| 76 |
dimitri |
1.1 |
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| 77 |
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============== |
| 78 |
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| 79 |
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look at output |
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| 81 |
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for ts=[0 120 600:10:980 1080:120:2280] |
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fld=quikread_llc(['Eta.' myint2str(ts,10) '.data'],2160); |
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clf,quikplot_llc(fld),caxis([-2.5 2]),thincolorbar |
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title(ts) |
| 85 |
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pause(.1) |
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end |
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============== |
| 89 |
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| 90 |
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to determine empty tiles: |
| 91 |
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grep Empty STDOUT.* |
| 92 |
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| 93 |
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============== |
| 94 |
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| 95 |
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memory requirements: |
| 96 |
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nPx sNx sNy nSx cpu node0 total rank0 rankm |
| 97 |
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936 180 180 2 san node ran out of memory and crashed with singlecpuio |
| 98 |
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1053 240 240 1 san node ran out of memory and crashed with singlecpuio |
| 99 |
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1300 216 216 1 san node ran out of memory and crashed with singlecpuio |
| 100 |
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1872 180 180 1 wes node ran out of memory and crashed with singlecpuio |
| 101 |
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1872 180 180 1 wes 21,377,644kb 3,294,676,080kb node ran out of memory with singlecpuio and bigmem=true:mem=90GB for node 0 |
| 102 |
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1872 180 180 1 san node ran out of memory and crashed with singlecpuio |
| 103 |
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1872 180 180 1 san 11,558,588kb 1,356,676,140kb singlecpuio=.FALSE. |
| 104 |
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2925 144 144 1 san 8,374,668kb 1,538,454,112kb 886MB 892MB singlecpuio=.FALSE. |
| 105 |
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2925 144 144 1 san 27,284,996kb 4,942,949,704kb node ran out of memory and crashed with singlecpuio |
| 106 |
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3328 135 135 1 san rank 0 run out of memory |
| 107 |
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3328 135 135 1 san some random node run out of memory (full node for rank 0) |
| 108 |
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4212 120 120 1 san node ran out of memory |
| 109 |
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5200 108 108 1 san node ran out of memory |
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============= |
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2 = 2 |
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3 = 3 |
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2*2 = 4 |
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5 = 5 |
| 117 |
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2*3 = 6 |
| 118 |
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2*2*2 = 8 |
| 119 |
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3*3 = 9 |
| 120 |
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2*5 = 10 |
| 121 |
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2*2*3 = 12 |
| 122 |
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3*5 = 15 |
| 123 |
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2*2*2*2 = 16 |
| 124 |
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2*3*3 = 18 |
| 125 |
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2*2*5 = 20 |
| 126 |
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2*2*2*3 = 24 |
| 127 |
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3*3*3 = 27 |
| 128 |
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2*3*5 = 30 |
| 129 |
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2*2*3*3 = 36 |
| 130 |
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2*2*2*5 = 40 |
| 131 |
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3*3*5 = 45 |
| 132 |
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2*2*2*2*3 = 48 * 45 |
| 133 |
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2*3*3*3 = 54 * 40 |
| 134 |
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2*2*3*5 = 60 * 36 |
| 135 |
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2*2*2*3*3 = 72 * 30 |
| 136 |
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2*2*2*2*5 = 80 * 27 |
| 137 |
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2*3*3*5 = 90 * 24 |
| 138 |
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2*2*3*3*3 = 108 * 20 |
| 139 |
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2*2*2*3*5 = 120 * 18 |
| 140 |
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3*3*3*5 = 135 * 16 |
| 141 |
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2*2*2*2*3*3 = 144 * 15 |
| 142 |
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2*2*3*3*5 = 180 * 12 |
| 143 |
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2*2*2*3*3*3 = 216 * 10 |
| 144 |
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2*2*2*2*3*5 = 240 * 9 |
| 145 |
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2*3*3*3*5 = 270 * 8 |
| 146 |
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2*2*2*3*3*5 = 360 * 6 |
| 147 |
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2*2*2*2*3*3*3 = 432 * 5 |
| 148 |
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2*2*3*3*3*5 = 540 * 4 |
| 149 |
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2*2*2*2*3*3*5 = 720 * 3 |
| 150 |
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2*2*2*3*3*3*5 = 1080 * 2 |
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