| 1 |
Instructions for setting up a quarter degree integration |
| 2 |
forced 1. by NCEP fields and 2. by SIO fields. |
| 3 |
|
| 4 |
########################################################################## |
| 5 |
# getting the code from anonymous CVS server |
| 6 |
|
| 7 |
cvs co MITgcm_contrib/quarter_degree_global |
| 8 |
cvs co MITgcm_code |
| 9 |
cvs co MITgcm/verification/global_with_exf |
| 10 |
cvs co MITgcm/verification/testreport |
| 11 |
|
| 12 |
|
| 13 |
############################################################################# |
| 14 |
# 1-CPU verification/global_with_exf including pkg/diagnostics |
| 15 |
|
| 16 |
examples: |
| 17 |
aim.5l_cs/input/data.diagnostics fizhi-gridalt-hs/input/data.diagnostics |
| 18 |
dome/input/data.diagnostics hs94.cs-32x32x5/input/data.diagnostics |
| 19 |
|
| 20 |
e1=readbin('test_oldstyle/ETAtave.0000000018.data',[90 40]); |
| 21 |
e2=readbin('ETAN.0000000018.data',[90 40]); |
| 22 |
e16=readbin('test_oldstyle/Eta.0000000016.data',[90 40]); |
| 23 |
e17=readbin('test_oldstyle/Eta.0000000017.data',[90 40]); |
| 24 |
e18=readbin('test_oldstyle/Eta.0000000018.data',[90 40]); |
| 25 |
minmax(e1-e2) |
| 26 |
minmax(e2-(e16+e17+e18)/3) |
| 27 |
|
| 28 |
e1=readbin('test_oldstyle/sFluxtave.0000000018.data',[90 40]); |
| 29 |
e2=readbin('SFLUX.0000000018.data',[90 40]); |
| 30 |
minmax(e1-e2) |
| 31 |
|
| 32 |
e1=readbin('test_oldstyle/tFluxtave.0000000018.data',[90 40]); |
| 33 |
e2=readbin('TFLUX.0000000018.data',[90 40]); |
| 34 |
minmax(e1-e2) |
| 35 |
|
| 36 |
e1=readbin('TRELAX.0000000018.data',[90 40]); |
| 37 |
subplot(211),mypcolor(e1');colorbar |
| 38 |
|
| 39 |
e1=readbin('SRELAX.0000000018.data',[90 40]); |
| 40 |
subplot(211),mypcolor(e1');colorbar |
| 41 |
|
| 42 |
e1=readbin('TICE.0000000018.data',[90 40]); |
| 43 |
subplot(211),mypcolor(e1');colorbar |
| 44 |
|
| 45 |
|
| 46 |
e1=readbin('test_oldstyle/wVeltave.0000000018.data',[90 40 15]); |
| 47 |
e2=readbin('WVEL.0000000018.data',[90 40 15]); |
| 48 |
e16=readbin('test_oldstyle/W.0000000016.data',[90 40 15]); |
| 49 |
e17=readbin('test_oldstyle/W.0000000017.data',[90 40 15]); |
| 50 |
e18=readbin('test_oldstyle/W.0000000018.data',[90 40 15]); |
| 51 |
minmax(e1-e2) |
| 52 |
minmax(e2-(e16+e17+e18)/3) |
| 53 |
|
| 54 |
|
| 55 |
|
| 56 |
|
| 57 |
|
| 58 |
|
| 59 |
cd MITgcm/verification/global_with_exf/build |
| 60 |
\rm * |
| 61 |
\cp ../code/* . |
| 62 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/packages.conf . |
| 63 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/ECCO_CPPOPTIONS.h . |
| 64 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/CPP_OPTIONS.h . |
| 65 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/DIAGNOSTICS_SIZE.h . |
| 66 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/SIZE.h_test1 . |
| 67 |
\mv SIZE.h_test1 SIZE.h |
| 68 |
../../../tools/genmake2 |
| 69 |
make depend |
| 70 |
make -j |
| 71 |
cd .. |
| 72 |
mkdir run |
| 73 |
cd run |
| 74 |
\rm * |
| 75 |
\cp ../build/mitgcmuv . |
| 76 |
\ln -sf ../input/* . |
| 77 |
\rm data |
| 78 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/input/data_test data |
| 79 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/input/data.pkg . |
| 80 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/input/data.kpp . |
| 81 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/input/data.diagnostics . |
| 82 |
mitgcmuv >& output.txt |
| 83 |
|
| 84 |
|
| 85 |
there is comparison output in |
| 86 |
../../../../MITgcm_contrib/quarter_degree_global/results/output.txt |
| 87 |
|
| 88 |
|
| 89 |
############################################################################# |
| 90 |
# mpi test verification/global_with_exf including pkg/diagnostics on columbia |
| 91 |
|
| 92 |
cd MITgcm/verification/global_with_exf/build |
| 93 |
\rm * |
| 94 |
\cp ../code/* . |
| 95 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/packages.conf . |
| 96 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/ECCO_CPPOPTIONS.h . |
| 97 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/CPP_OPTIONS.h . |
| 98 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/code/SIZE.h_test . |
| 99 |
\mv SIZE.h_test SIZE.h |
| 100 |
../../../tools/genmake2 -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
| 101 |
make depend |
| 102 |
make -j |
| 103 |
cd .. |
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mkdir run |
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cd run |
| 106 |
\rm * |
| 107 |
\cp ../build/mitgcmuv . |
| 108 |
\ln -sf ../input/* . |
| 109 |
\rm data |
| 110 |
\cp ../../../../MITgcm_contrib/quarter_degree_global/input/data_test data |
| 111 |
mpirun -np 2 mitgcmuv |
| 112 |
|
| 113 |
there is comparison output in |
| 114 |
../../../../MITgcm_contrib/quarter_degree_global/results/STDOUT.0000 |
| 115 |
|
| 116 |
|
| 117 |
########################################################################## |
| 118 |
# 1440x1088 204-cpu (120x12)x(64x17) 1/4-deg integration on altix with efc |
| 119 |
# requires input files in subdirectory iter69 to be at same level as MITgcm |
| 120 |
# and MITgcm_contrib. A copy of iter69 resides on columbia10:/nobackup10 |
| 121 |
# The integration length is 4018 days, 1992-2002. |
| 122 |
# First three days need to be integrated using deltat=200. |
| 123 |
|
| 124 |
cd MITgcm |
| 125 |
mkdir bin exe |
| 126 |
cd bin |
| 127 |
\rm * |
| 128 |
\cp ../../MITgcm_contrib/quarter_degree_global/code/* . |
| 129 |
../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
| 130 |
make depend |
| 131 |
make -j |
| 132 |
cd ../exe |
| 133 |
\rm * |
| 134 |
\cp ../bin/mitgcmuv . |
| 135 |
\cp ../../MITgcm_contrib/quarter_degree_global/input/* . |
| 136 |
\ln -sf ../../iter69/* . |
| 137 |
qsub job_altix |
| 138 |
|
| 139 |
|
| 140 |
########################################################################## |
| 141 |
# 2880x2176 480-cpu (96x30)x(136x16) 1/4-deg integration on altix with efc |
| 142 |
# requires input files in sudirectory iter69 to be at same level as MITgcm |
| 143 |
# and MITgcm_contrib. A copy of iter69 with 1/8-deg files resides on |
| 144 |
# columbia18:/nobackup18/menemenl/eight. |
| 145 |
# The integration length is 3 days. |
| 146 |
# First three days need to be integrated using deltat=100. |
| 147 |
|
| 148 |
cd MITgcm |
| 149 |
mkdir bin exe |
| 150 |
cd bin |
| 151 |
\rm * |
| 152 |
\cp ../../MITgcm_contrib/quarter_degree_global/code/* . |
| 153 |
\cp SIZE.h_8_480 SIZE.h |
| 154 |
../tools/genmake2 -of ../tools/build_options/linux_ia64_efc+mpi_altix |
| 155 |
make depend |
| 156 |
make -j |
| 157 |
cd ../exe |
| 158 |
\rm * |
| 159 |
\cp ../bin/mitgcmuv . |
| 160 |
\cp ../../MITgcm_contrib/quarter_degree_global/input/* . |
| 161 |
\ln -sf ../../iter69/* . |
| 162 |
\cp data.exf_clim_8 data.exf_clim |
| 163 |
\cp data_SIO_8 data |
| 164 |
qsub job_altix |
| 165 |
|
| 166 |
|
| 167 |
########################################################################## |
| 168 |
# 2880x2176 960-cpu (96x30)x(68x32) 1/4-deg integration on altix with efc |
| 169 |
# requires input files in sudirectory iter69 to be at same level as MITgcm |
| 170 |
# and MITgcm_contrib. A copy of iter69 with 1/8-deg files resides on |
| 171 |
# columbia18:/nobackup18/menemenl/eight. |
| 172 |
# The integration length is 3 days. |
| 173 |
# First three days need to be integrated using deltat=100. |
| 174 |
|
| 175 |
module purge |
| 176 |
module load modules scsl.1.5.0.0 intel-comp.8.0.070 mpt.1.11-85 |
| 177 |
setenv MPI_DSM_DISTRIBUTE |
| 178 |
cd MITgcm |
| 179 |
mkdir bin exe |
| 180 |
cd bin |
| 181 |
\rm * |
| 182 |
\cp ../../MITgcm_contrib/quarter_degree_global/code/* . |
| 183 |
\cp SIZE.h_8_960 SIZE.h |
| 184 |
../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_nas |
| 185 |
make depend |
| 186 |
make -j |
| 187 |
|
| 188 |
cd ../exe |
| 189 |
\cp ../bin/mitgcmuv . |
| 190 |
\cp ../../MITgcm_contrib/quarter_degree_global/input/* . |
| 191 |
\ln -sf ../../iter69/* . |
| 192 |
\cp data.exf_clim_8 data.exf_clim |
| 193 |
\cp data_SIO_8 data |
| 194 |
modpickup_8 |
| 195 |
mpirun -v -a a2k c18 480 runon 4-483 mitgcmuv : c20 480 runon 4-483 mitgcmuv |
| 196 |
mpirun -v -a a2k c18 508 runon 4-511 mitgcmuv : c20 508 runon 4-511 mitgcmuv |
| 197 |
|
| 198 |
on columbia18: |
| 199 |
ln -sf /nobackup18/menemenl/eighth /tmp/eighth |
| 200 |
|
| 201 |
on columbia20: |
| 202 |
ln -sf /nobackup20/menemenl/eighth /tmp/eighth |
| 203 |
|
| 204 |
cd ~/exe |
| 205 |
\cp /tmp/eighth/MITgcm/exe/mitgcmuv960 . |
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\cp /tmp/eighth/MITgcm_contrib/quarter_degree_global/input/* . |
| 207 |
\ln -sf /tmp/eighth/iter69/* . |
| 208 |
\cp data.exf_clim_8 data.exf_clim |
| 209 |
\cp data_SIO_8 data |
| 210 |
\ln -sf /tmp/eighth/MITgcm/exe/pick* . |
| 211 |
|
| 212 |
mpirun -v -a a2k -d /tmp/eighth/MITgcm/exe c18 480 runon 4-511 mitgcmuv960 : \ |
| 213 |
c20 480 runon 4-511 mitgcmuv960 >&! output.txt & |
| 214 |
|
| 215 |
\cp data.test data |
| 216 |
scp data:columbia17:/nobackup/menemenl/eighth/MITgcm/exe |
| 217 |
scp data:columbia19:/nobackup/menemenl/eighth/MITgcm/exe |
| 218 |
scp data:columbia20:/nobackup/menemenl/eighth/MITgcm/exe |
| 219 |
mpirun -v -a a2k -d /nobackup/menemenl/eighth/MITgcm/exe \ |
| 220 |
c18 480 runon 4-511 mitgcmuv1440 : \ |
| 221 |
c19 480 runon 4-511 mitgcmuv1440 : \ |
| 222 |
c20 480 runon 4-511 mitgcmuv1440 \ |
| 223 |
>&! output.test1440 |
| 224 |
mkdir tests |
| 225 |
mv STDOUT.0000 output.test1440 tests/stdout1440 |
| 226 |
\rm STD* |
| 227 |
mpirun -v -a a2k -d /nobackup/menemenl/eighth/MITgcm/exe \ |
| 228 |
c17 480 runon 14-511 mitgcmuv1920 : \ |
| 229 |
c18 480 runon 14-511 mitgcmuv1920 : \ |
| 230 |
c19 480 runon 14-511 mitgcmuv1920 : \ |
| 231 |
c20 480 runon 14-511 mitgcmuv1920 \ |
| 232 |
>&! output.test1920 |
| 233 |
mv STDOUT.0000 output.test1920 tests/stdout1920 |
| 234 |
\rm STD* |
| 235 |
\cp data.run data |
| 236 |
scp data:columbia17:/nobackup/menemenl/eighth/MITgcm/exe |
| 237 |
scp data:columbia19:/nobackup/menemenl/eighth/MITgcm/exe |
| 238 |
scp data:columbia20:/nobackup/menemenl/eighth/MITgcm/exe |
| 239 |
/opt/sgi/mpt/1.11-85/bin/mpirun.real -v -a a2k \ |
| 240 |
-d /nobackup/menemenl/eighth/MITgcm/exe \ |
| 241 |
c17 480 runon 9-511 mitgcmuv1920 : \ |
| 242 |
c18 480 runon 9-511 mitgcmuv1920 : \ |
| 243 |
c19 480 runon 9-511 mitgcmuv1920 : \ |
| 244 |
c20 480 runon 9-511 mitgcmuv1920 \ |
| 245 |
>&! output.run |
| 246 |
|
| 247 |
|
| 248 |
|
| 249 |
|
| 250 |
\cp data.test data |
| 251 |
scp data columbia19:/nobackup/menemenl/eighth/MITgcm/exe |
| 252 |
scp data columbia20:/nobackup/menemenl/eighth/MITgcm/exe |
| 253 |
mpirun -v -a a2k -d /nobackup/menemenl/eighth/MITgcm/exe \ |
| 254 |
c18 480 runon 9-511 mitgcmuv1440 : \ |
| 255 |
c19 480 runon 9-511 mitgcmuv1440 : \ |
| 256 |
c20 480 runon 9-511 mitgcmuv1440 \ |
| 257 |
>&! output.test1440 |
| 258 |
mkdir tests |
| 259 |
mv STDOUT.0000 output.test1440 tests/stdout1440 |
| 260 |
\rm STD* |
| 261 |
\cp data.run data |
| 262 |
scp data columbia17:/nobackup/menemenl/eighth/MITgcm/exe |
| 263 |
scp data columbia19:/nobackup/menemenl/eighth/MITgcm/exe |
| 264 |
mpirun -v -a a2k -d /nobackup/menemenl/eighth/MITgcm/exe \ |
| 265 |
c17 480 runon 9-511 mitgcmuv1440 : \ |
| 266 |
c18 480 runon 9-511 mitgcmuv1440 : \ |
| 267 |
c19 480 runon 9-511 mitgcmuv1440 \ |
| 268 |
>&! output.run |
| 269 |
|
| 270 |
|
| 271 |
|
| 272 |
|
| 273 |
fails for 1/8 |
| 274 |
> viscA4GridMin=3.e-4, |
| 275 |
> viscA4GridMax=4.e-3, |
| 276 |
> viscC4Leith=0.05, |
| 277 |
> deltat=300 |
| 278 |
fails: |
| 279 |
< viscA4GridMin=6.e-4, |
| 280 |
< viscA4GridMax=8.e-3, |
| 281 |
< viscC4Leith=0.1, |
| 282 |
fails: |
| 283 |
< viscA4GridMin=6.e-4, |
| 284 |
< viscA4GridMax=8.e-3, |
| 285 |
< viscC4Leith=0.2, |
| 286 |
fails: |
| 287 |
< viscA4GridMin=1.e-3, |
| 288 |
< viscA4GridMax=1.e-2, |
| 289 |
< viscC4Leith=0.2, |
| 290 |
fails: |
| 291 |
< viscA4GridMin=1.e-3, |
| 292 |
< viscA4GridMax=1.e-2, |
| 293 |
< viscC4Leith=0.3, |
| 294 |
fails: |
| 295 |
< viscA4GridMin=1.2e-3, |
| 296 |
< viscA4GridMax=1.6e-2, |
| 297 |
< viscC4Leith=0.2, |
| 298 |
fails: |
| 299 |
< viscA4GridMin=1.2e-3, |
| 300 |
< viscA4GridMax=1.6e-2, |
| 301 |
< viscC4Leith=0.4, |
| 302 |
fails |
| 303 |
< viscA4GridMin=1.2e-3, |
| 304 |
< viscA4GridMax=1.2e-2, |
| 305 |
< viscC4Leith=1.2, |
| 306 |
fails: |
| 307 |
< viscA4GridMin=2e-3, |
| 308 |
< viscA4GridMax=1e-2, |
| 309 |
< viscC4Leith=0.1, |
| 310 |
fails: |
| 311 |
< viscA4GridMin=2e-3, |
| 312 |
< viscA4GridMax=1e-2, |
| 313 |
< viscC4Leith=0.2, |
| 314 |
fails: |
| 315 |
< viscA4GridMin=4e-3, |
| 316 |
< viscA4GridMax=8e-3, |
| 317 |
< viscC4Leith=0.2, |
| 318 |
fails: |
| 319 |
viscA4GridMin=5e-3, |
| 320 |
viscA4GridMax=1e-2, |
| 321 |
viscC4Leith=.2, |
| 322 |
starting with time step 50112, try: |
| 323 |
(this mean day 174 becomes day 116) |
| 324 |
viscA4GridMin=6.e-4, |
| 325 |
viscA4GridMax=8.e-3, |
| 326 |
viscC4Leith=0.1, |
| 327 |
deltat=200 |
| 328 |
|
| 329 |
|
| 330 |
%%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
| 331 |
|
| 332 |
1/8 timing tests: |
| 333 |
|
| 334 |
columbia20 |
| 335 |
scsl.1.5.0.0 |
| 336 |
c18 intel-comp.8.0.070 |
| 337 |
240-CPU default mpt.1.11-85 |
| 338 |
------------------------------------------------ |
| 339 |
MAIN LOOP 7115 5066 |
| 340 |
EXF_GETFORCING 372 38 |
| 341 |
DO_OCEANIC_PHYS 1221 1272 |
| 342 |
STATEKPP 509 532 |
| 343 |
KPPMIX 370 374 |
| 344 |
DYNAMICS 1527 1429 |
| 345 |
SOLVE_FOR_PRESSURE 1804 206 |
| 346 |
BLOCKING_EXCHANGES 117 115 |
| 347 |
THERMODYNAMICS 1166 1100 |
| 348 |
DO_THE_MODEL_IO 173 177 |
| 349 |
WRITE_CHECKPOINT 341 333 |
| 350 |
|
| 351 |
|
| 352 |
columbia20 |
| 353 |
scsl.1.5.0.0 |
| 354 |
c18 intel-comp.8.0.070 |
| 355 |
480-CPU default mpt.1.11-85 |
| 356 |
c19 default |
| 357 |
c17 default, other processes |
| 358 |
c19 new |
| 359 |
------------------------------------------------------------------------- |
| 360 |
MAIN LOOP 4024 2917 5379 8895 3571 |
| 361 |
EXF_GETFORCING 218 33 880 261 227 |
| 362 |
DO_OCEANIC_PHYS 622 619 621 913 620 |
| 363 |
STATEKPP 269 265 268 310 265 |
| 364 |
KPPMIX 190 188 189 291 189 |
| 365 |
DYNAMICS 747 718 745 1456 714 |
| 366 |
SOLVE_FOR_PRESSURE 966 119 1703 2748 900 |
| 367 |
BLOCKING_EXCHANGES 64 70 392 375 70 |
| 368 |
THERMODYNAMICS 553 582 566 1510 584 |
| 369 |
DO_THE_MODEL_IO 178 156 149 184 152 |
| 370 |
WRITE_CHECKPOINT 364 332 864 420 333 |
| 371 |
|
| 372 |
|
| 373 |
|
| 374 |
CPU 240 480 960 1440 1920 |
| 375 |
------------------------------------------------------------- |
| 376 |
MAIN LOOP 5066 2917 2227 1551 1276 |
| 377 |
EXF_GETFORCING 38 33 126 60 83 |
| 378 |
DO_OCEANIC_PHYS 1272 619 320 390 186 |
| 379 |
STATEKPP 532 265 138 181 77 |
| 380 |
KPPMIX 374 188 98 112 53 |
| 381 |
DYNAMICS 1429 718 313 319 173 |
| 382 |
SOLVE_FOR_PRESSURE 206 119 483 169 310 |
| 383 |
BLOCKING_EXCHANGES 115 70 53 29 28 |
| 384 |
THERMODYNAMICS 1100 582 294 279 172 |
| 385 |
DO_THE_MODEL_IO 177 156 131 202 155 |
| 386 |
WRITE_CHECKPOINT 333 332 302 524 352 |
| 387 |
|
| 388 |
|
| 389 |
4 clusters |
| 390 |
Dec 16 08:17 Ttave.0000051840.data |
| 391 |
Dec 16 08:47 Ttave.0000053136.data |
| 392 |
Dec 16 09:17 Ttave.0000054432.data |
| 393 |
Dec 16 09:53 Ttave.0000055728.data |
| 394 |
Dec 17 14:08 Ttave.0000075168.data |
| 395 |
Dec 17 14:33 Ttave.0000076464.data |
| 396 |
Dec 17 14:58 Ttave.0000077760.data |
| 397 |
Dec 17 15:29 Ttave.0000079056.data |
| 398 |
|
| 399 |
1 cluster |
| 400 |
Dec 16 22:14 Ttave.0000059616.data |
| 401 |
Dec 16 23:16 Ttave.0000060912.data |
| 402 |
Dec 17 00:19 Ttave.0000062208.data |
| 403 |
Dec 17 01:27 Ttave.0000063504.data |
| 404 |
Dec 17 02:29 Ttave.0000064800.data |
| 405 |
Dec 17 03:31 Ttave.0000066096.data |
| 406 |
Dec 17 04:39 Ttave.0000067392.data |
| 407 |
Dec 17 05:42 Ttave.0000068688.data |
| 408 |
Dec 17 06:44 Ttave.0000069984.data |
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