[Nek5000-users] **ERROR**: Failed in HMHOLTZ
nek5000-users at lists.mcs.anl.gov
nek5000-users at lists.mcs.anl.gov
Tue Jan 19 02:59:43 CST 2010
Here the useric subroutine (the flow direction is z)
c-----------------------------------------------------------------------
subroutine useric (ix,iy,iz,ieg)
include 'SIZE'
include 'TOTAL'
include 'NEKUSE'
ux = 0.0
uy = 0.0
uz = (1-(y-0.5)**2)
temp = 0.0
return
end
c-----------------------------------------------------------------------
the userbc subroutine:
c-----------------------------------------------------------------------
subroutine userbc (ix,iy,iz,iside,ieg)
include 'SIZE'
include 'TOTAL'
include 'NEKUSE'
ux = 0.0
uy = 0.0
uz = 0.0
temp = 0.0
return
end
c-----------------------------------------------------------------------
Here the logfile (I stopped the run after step 8):
/----------------------------------------------------------\\
| _ __ ______ __ __ ______ ____ ____ ____ |
| / | / // ____// //_/ / ____/ / __ \\ / __ \\ / __ \\ |
| / |/ // __/ / ,< /___ \\ / / / // / / // / / / |
| / /| // /___ / /| | ____/ / / /_/ // /_/ // /_/ / |
| /_/ |_//_____//_/ |_|/_____/ \\____/ \\____/ \\____/ |
| |
|----------------------------------------------------------|
| |
| NEK5000: Open Source Spectal Element Solver |
| COPYRIGHT (c) 2008 UCHICAGO ARGONNE, LLC |
| Version: 1.0rc1 / SVN r369M |
| Web: http://nek5000.mcs.anl.gov |
| |
\\----------------------------------------------------------/
Number of processors: 1
REAL wdsize : 8
INTEGER wdsize : 4
Beginning session:
/home/folke/nek5_svn/runs/test_channel/channel.rea
timer accuracy: 0.0000000E+00 sec
read .rea file
nelgt/nelgv/lelt: 640 640 643
lx1 /lx2 /lx3 : 6 4 4
mapping elements to processors
0 640 640 640 640 NELV
RANK 0 IEG 1 2 3 4 5 6 7 8
9 10 11 12 13 14 15 16
17 18 19 20 21 22 23 24
25 26 27 28 29 30 31 32
33 34 35 36 37 38 39 40
41 42 43 44 45 46 47 48
49 50 51 52 53 54 55 56
57 58 59 60 61 62 63 64
65 66 67 68 69 70 71 72
73 74 75 76 77 78 79 80
81 82 83 84 85 86 87 88
89 90 91 92 93 94 95 96
97 98 99 100 101 102 103 104
105 106 107 108 109 110 111 112
113 114 115 116 117 118 119 120
121 122 123 124 125 126 127 128
129 130 131 132 133 134 135 136
137 138 139 140 141 142 143 144
145 146 147 148 149 150 151 152
153 154 155 156 157 158 159 160
161 162 163 164 165 166 167 168
169 170 171 172 173 174 175 176
177 178 179 180 181 182 183 184
185 186 187 188 189 190 191 192
193 194 195 196 197 198 199 200
201 202 203 204 205 206 207 208
209 210 211 212 213 214 215 216
217 218 219 220 221 222 223 224
225 226 227 228 229 230 231 232
233 234 235 236 237 238 239 240
241 242 243 244 245 246 247 248
249 250 251 252 253 254 255 256
257 258 259 260 261 262 263 264
265 266 267 268 269 270 271 272
273 274 275 276 277 278 279 280
281 282 283 284 285 286 287 288
289 290 291 292 293 294 295 296
297 298 299 300 301 302 303 304
305 306 307 308 309 310 311 312
313 314 315 316 317 318 319 320
321 322 323 324 325 326 327 328
329 330 331 332 333 334 335 336
337 338 339 340 341 342 343 344
345 346 347 348 349 350 351 352
353 354 355 356 357 358 359 360
361 362 363 364 365 366 367 368
369 370 371 372 373 374 375 376
377 378 379 380 381 382 383 384
385 386 387 388 389 390 391 392
393 394 395 396 397 398 399 400
401 402 403 404 405 406 407 408
409 410 411 412 413 414 415 416
417 418 419 420 421 422 423 424
425 426 427 428 429 430 431 432
433 434 435 436 437 438 439 440
441 442 443 444 445 446 447 448
449 450 451 452 453 454 455 456
457 458 459 460 461 462 463 464
465 466 467 468 469 470 471 472
473 474 475 476 477 478 479 480
481 482 483 484 485 486 487 488
489 490 491 492 493 494 495 496
497 498 499 500 501 502 503 504
505 506 507 508 509 510 511 512
513 514 515 516 517 518 519 520
521 522 523 524 525 526 527 528
529 530 531 532 533 534 535 536
537 538 539 540 541 542 543 544
545 546 547 548 549 550 551 552
553 554 555 556 557 558 559 560
561 562 563 564 565 566 567 568
569 570 571 572 573 574 575 576
577 578 579 580 581 582 583 584
585 586 587 588 589 590 591 592
593 594 595 596 597 598 599 600
601 602 603 604 605 606 607 608
609 610 611 612 613 614 615 616
617 618 619 620 621 622 623 624
625 626 627 628 629 630 631 632
633 634 635 636 637 638 639 640
done :: mapping elements to processors
0 objects found
readat time 8.20312500000000000E-002 sec
done :: read .rea file
setup domain topology
Right-handed check complete for 640 elements. OK.
setvert3d: 6 6 6
setupds3d: 6 720 9040 41040 41040 41040
gs_setup: 0 unique labels shared
gs_init time 5.0781E-02 seconds 6 640 138240 41040 0
8 max multiplicity
done :: setup domain topology
call usrdat
done :: usrdat
generate geomerty data
vol_t,vol_v: 9.9999999999975824 9.9999999999975824 done ::
generate geomerty data
call usrdat2
done :: usrdat2
regenerate geomerty data 1
vol_t,vol_v: 9.9999999999980407 9.9999999999980407 done ::
regenerate geomerty data 1
verify mesh topology
-1.0000000000000002 1.0000000000000002 Xrange
0.0000000000000000 1.0000000000000002 Yrange
0.0000000000000000 5.0000000000000018 Zrange
done :: verify mesh topology
103 Parameters from file:/home/folke/nek5_svn/runs/test_channel/channel.rea
1 1.00000 DENSITY
2 -1000.00 VISCOS
7 1.00000 RHOCP
8 1.00000 CONDUCT
11 10.00000 NSTEPS
12 0.500000 DT
13 20.0000 IOCOMM
18 -20.0000 GRID
19 -1.00000 INTYPE
20 5.00000 NORDER
21 1.00000E-05 DIVERGENCE
22 1.000000E-08 HELMHOLTZ
24 0.100000E-01 TOLREL
25 0.100000E-01 TOLABS
26 0.250000 COURANT
27 2.00000 TORDER
28 0.00000
49 0.00000
65 1.00000 new file each dump (1) #
P065 number of I
67 0.00000 read format #
P067 Read format
68 1 iostep for avg_all (if ^= 0, else = iostep) #
P068 averaging f
71 0.0021 initial ffx # P071 not used
93 20.000 Number of pressure sol'ns saved #
P093 if >0, numb
94 5.00000 start saving pressure soln's after this #
P094 if >0, star
95 5.00000 start saving pressure soln's after this #
P095 if >0, star
99 4.000000E+00 p99 = 3 --> dealias turned on #
P099 dealiasing:
101 1.000000E+00 p101 = # of addl filter modes #
P101 number of a
102 1.00000 Dump out divergence at each time step #
P102 ?????
103 -1 0.010 # P103 filter weight for last mode
(<0: disabled)
IFTRAN = T
IFFLOW = T
IFHEAT = F
IFSPLIT = F
IFLOMACH = F
IFUSERVP = F
IFUSERMV = F
IFSTRS = F
IFCHAR = F
IFCYCLIC = F
IFAXIS = F
IFMVBD = F
IFMELT = F
IFMODEL = F
IFKEPS = F
IFMOAB = F
IFSYNC = F
IFVCOR = T
IFINTQ = F
IFCWUZ = F
IFSWALL = F
IFGEOM = F
IFSURT = F
IFWCNO = F
IFTMSH for field 1 = F
IFADVC for field 1 = T
IFNONL for field 1 = F
Estimated eigenvalues
EIGAA = 4.2439298924684223 EIGGA = 89413.331884118597
EIGAE = 0.39478417604357408 EIGAS = 7.75193798449612132E-003
EIGGE = 89413.331884118597 EIGGS = 2.0000000000000000
verify mesh topology
-1.0000000000000002 1.0000000000000002 Xrange
0.0000000000000000 1.0000000000000002 Yrange
0.0000000000000000 5.0000000000000018 Zrange
done :: verify mesh topology
E-solver strategy: 1
0 estrat 1 10 0.0000000000000000 itr
mg_nx: 1 3 5
mg_ny: 1 3 5
mg_nz: 1 3 5
setvert3d: 2 2 2
gs_setup: 0 unique labels shared
gs_init time 1.5625E-02 seconds 2 640 5120 720 1
setvert3d: 4 4 4
setupds3d: 4 720 4880 12880 12880 12880
gs_setup: 0 unique labels shared
gs_init time 1.5625E-02 seconds 4 640 40960 12880 2
setvert3d: 4 4 4
setupds3d: 4 720 4880 12880 12880 12880
gs_setup: 0 unique labels shared
gs_init time 2.3438E-02 seconds 4 640 40960 12880 3
setvert3d: 6 6 6
setupds3d: 6 720 9040 41040 41040 41040
gs_setup: 0 unique labels shared
gs_init time 7.0313E-02 seconds 6 640 138240 41040 4
setup h1 coarse grid
setvert3d: 2 2 2
gs_setup: 0 unique labels shared
gs_setup: 0 unique labels shared
set_up_h1_crs time: 0.20703125000000000 seconds
done :: setup h1 coarse grid
call usrdat3
done :: usrdat3
set initial conditions
call nekuic for vel xyz min -1.0000 0.0000 0.0000
uvwpt min 0.86087E-20 0.86087E-20 0.75000 0.0000
0.86087E-20
PS min 0.99000E+22
xyz max 1.0000 1.0000 5.0000 uvwpt max 0.80000E-19
0.80000E-19 1.0000 0.0000 0.80000E-19
PS max -0.99000E+22
done :: set initial conditions
call userchk
done :: userchk
dofs: 78000 40960 7760
Initialization successfully completed 2.6484 sec
Starting time loop ...
DT/DTCFL/DTFS/DTINIT 0.147E-01 0.147E-01 0.000E+00 0.500E+00
Step 1, t= 1.4684042E-02, DT= 1.4684042E-02, C= 0.250 1.2500E-01
1.2500E-01
Solving for fluid
1.00000000000000002E-008 p22 1 1
1 1 Helmholtz VELX F: 1.2365E-19 1.0000E-08 1.0000E-03
6.8101E+01
1 Hmholtz VELX: 0 1.2365E-19 1.2365E-19 1.0000E-08
1.00000000000000002E-008 p22 1 1
1 1 Helmholtz VELY F: 1.2365E-19 1.0000E-08 1.0000E-03
6.8101E+01
1 Hmholtz VELY: 0 1.2365E-19 1.2365E-19 1.0000E-08
1.00000000000000002E-008 p22 1 1
1 1 Helmholtz VELZ F: 2.5258E+00 1.0000E-08 1.0000E-03
6.8101E+01
1 2 Helmholtz VELZ F: 3.3988E-01 1.0000E-08 1.0000E-03
6.8101E+01
1 3 Helmholtz VELZ F: 5.4135E-02 1.0000E-08 1.0000E-03
6.8101E+01
1 4 Helmholtz VELZ F: 8.7135E-03 1.0000E-08 1.0000E-03
6.8101E+01
1 5 Helmholtz VELZ F: 7.5232E-04 1.0000E-08 1.0000E-03
6.8101E+01
1 6 Helmholtz VELZ F: 1.6707E-04 1.0000E-08 1.0000E-03
6.8101E+01
1 7 Helmholtz VELZ F: 3.8786E-05 1.0000E-08 1.0000E-03
6.8101E+01
1 8 Helmholtz VELZ F: 4.9937E-06 1.0000E-08 1.0000E-03
6.8101E+01
1 9 Helmholtz VELZ F: 7.4701E-07 1.0000E-08 1.0000E-03
6.8101E+01
1 10 Helmholtz VELZ F: 1.2222E-07 1.0000E-08 1.0000E-03
6.8101E+01
1 11 Helmholtz VELZ F: 2.4478E-08 1.0000E-08 1.0000E-03
6.8101E+01
1 12 Helmholtz VELZ F: 4.5145E-09 1.0000E-08 1.0000E-03
6.8101E+01
1 Hmholtz VELZ: 11 4.5145E-09 2.5258E+00 1.0000E-08
1 1.00000E-05 3.17251E-10 3.99951E-10 7.93224E-01 1 Divergence
1 U-Pres gmres: 1 3.1725E-10 1.0000E-05
3.9995E-10 1.4063E-01
1 DNORM, DIVEX 3.17250961806725983E-010 3.17251059854635242E-010
1 1.4684E-02 1.1133E+00 Fluid done
schfile:/home/folke/nek5_svn/runs/test_channel/channel.sch
Step 2, t= 2.9368085E-02, DT= 1.4684042E-02, C= 0.250 2.2695E+00
2.1445E+00
Solving for fluid
1.00000000000000002E-008 p22 2 1
2 Hmholtz VELX: 0 8.4698E-11 8.4698E-11 1.0000E-08
1.00000000000000002E-008 p22 2 1
2 Hmholtz VELY: 0 3.3881E-10 3.3881E-10 1.0000E-08
1.00000000000000002E-008 p22 2 1
2 Hmholtz VELZ: 9 9.0588E-09 2.4120E+00 1.0000E-08
2 U-Pres gmres: 1 4.2967E-10 1.0000E-05
6.2883E-10 1.7578E-01
2 DNORM, DIVEX 4.29672058094189053E-010 4.29672004136921625E-010
2 2.9368E-02 9.3359E-01 Fluid done
Step 3, t= 4.4052127E-02, DT= 1.4684042E-02, C= 0.250 3.8945E+00
1.6250E+00
Solving for fluid
1.00000000000000002E-008 p22 3 1
3 Hmholtz VELX: 0 2.0686E-10 2.0686E-10 1.0000E-08
1.00000000000000002E-008 p22 3 1
3 Hmholtz VELY: 0 7.3369E-10 7.3369E-10 1.0000E-08
1.00000000000000002E-008 p22 3 1
3 Hmholtz VELZ: 9 6.0801E-09 1.5993E+00 1.0000E-08
3 U-Pres gmres: 1 2.1081E-10 1.0000E-05
5.6586E-10 1.2500E-01
3 DNORM, DIVEX 2.10806427110722163E-010 2.10806458332255450E-010
3 4.4052E-02 7.9688E-01 Fluid done
Step 4, t= 5.8736169E-02, DT= 1.4684042E-02, C= 0.250 5.2461E+00
1.3516E+00
Solving for fluid
1.00000000000000002E-008 p22 4 1
4 Hmholtz VELX: 0 2.3711E-10 2.3711E-10 1.0000E-08
1.00000000000000002E-008 p22 4 1
4 Hmholtz VELY: 0 1.0978E-09 1.0978E-09 1.0000E-08
1.00000000000000002E-008 p22 4 1
4 Hmholtz VELZ: 9 4.1584E-09 1.0849E+00 1.0000E-08
4 U-Pres gmres: 1 1.2092E-10 1.0000E-05
2.0354E-10 1.3672E-01
4 DNORM, DIVEX 1.20917860593520714E-010 1.20917830212450389E-010
4 5.8736E-02 8.7109E-01 Fluid done
Step 5, t= 7.3420211E-02, DT= 1.4684042E-02, C= 0.250 6.6484E+00
1.4023E+00
Solving for fluid
this is mprev: 20 20
alpha1: 2.09756734094134443E-010 9.9999999999980407 138240
binvm1: 360000.00000000384 0.12500000000000000
-5.93354375460066903E-021
5 2.0976E-10 2.0976E-10 1.0000E+00 0 alph1x
5 halpha 0
5 Hmholtz VELX: 0 2.0976E-10 2.0976E-10 1.0000E-08
5 9.3816E-10 9.3816E-10 1.0000E+00 0 alph1x
5 halpha 0
5 Hmholtz VELY: 0 9.3816E-10 9.3816E-10 1.0000E-08
5 8.0549E-01 8.0549E-01 1.0000E+00 0 alph1x
5 halpha 0
5 Hmholtz VELZ: 9 2.7499E-09 8.0549E-01 1.0000E-08
5 U-Pres gmres: 1 2.8336E-10 1.0000E-05
3.9384E-10 1.0547E-01
5 DNORM, DIVEX 2.83364732567017946E-010 2.83364756720865127E-010
5 7.3420E-02 1.1406E+00 Fluid done
Step 6, t= 8.8104254E-02, DT= 1.4684042E-02, C= 0.250 8.4688E+00
1.8203E+00
Solving for fluid
6 1.9617E-10 NaN NaN 1 alph1x
6 halpha 1 NaN
6 5000 **ERROR**: Failed in HMHOLTZ: VELX NaN
NaN 1.0000E-08
6 8.1680E-10 NaN NaN 1 alph1x
6 halpha 1 NaN
6 5000 **ERROR**: Failed in HMHOLTZ: VELY NaN
NaN 1.0000E-08
6 6.5525E-01 1.3376E-01 4.8988E+00 1 alph1x
6 halpha 1 1.9191E-01
6 Hmholtz VELZ: 8 9.0843E-09 1.3376E-01 1.0000E-08
6 1 alpha: NaN
6 1 NaN NaN NaN alph12
6 U-Pres gmres: 120 NaN 1.0000E-05
NaN 1.3609E+01
6 DNORM, DIVEX NaN NaN
6 8.8104E-02 2.5375E+02 Fluid done
Step 7, t= 1.0572510E-01, DT= 1.7620851E-02, C=******* 2.6286E+02
2.5439E+02
Solving for fluid
7 NaN NaN NaN 0 alph1x
7 halpha 0
7 5000 **ERROR**: Failed in HMHOLTZ: VELX NaN
NaN 1.0000E-08
7 NaN NaN NaN 2 alph1x
7 halpha 2 NaN NaN
7 5000 **ERROR**: Failed in HMHOLTZ: VELY NaN
NaN 1.0000E-08
7 NaN NaN NaN 2 alph1x
7 halpha 2 NaN NaN
7 5000 **ERROR**: Failed in HMHOLTZ: VELZ NaN
NaN 1.0000E-08
reorthogo: 2
7 1 alpha: NaN
7 1 NaN NaN NaN alph12
7 U-Pres gmres: 120 NaN 1.0000E-05
NaN 1.4965E+01
7 DNORM, DIVEX NaN NaN
7 1.0573E-01 3.4402E+02 Fluid done
Step 8, t= 1.2687013E-01, DT= 2.1145021E-02, C=******* 6.0731E+02
3.4445E+02
Solving for fluid
8 NaN NaN NaN 0 alph1x
8 halpha 0
8 5000 **ERROR**: Failed in HMHOLTZ: VELX NaN
NaN 1.0000E-08
8 NaN NaN NaN 3 alph1x
8 halpha 3 NaN NaN NaN
8 5000 **ERROR**: Failed in HMHOLTZ: VELY NaN
NaN 1.0000E-08
8 NaN NaN NaN 3 alph1x
8 halpha 3 NaN NaN NaN
8 5000 **ERROR**: Failed in HMHOLTZ: VELZ NaN
NaN 1.0000E-08
reorthogo: 2
8 1 alpha: NaN
8 1 NaN NaN NaN alph12
8 U-Pres gmres: 120 NaN 1.0000E-05
NaN 1.3871E+01
8 DNORM, DIVEX NaN NaN
8 1.2687E-01 3.5561E+02 Fluid done
Output: -1
8 1.2687E-01 Write checkpoint:
8 1.2687E-01 OPEN: channel.fld01
call nek_end
runtime statistics:
0 opcount 336739039360.00000 TOTAL OPCOUNT
336739039360.00000 opnode 0 subcl4 0.000000
opnode 0 ascol5 0.000000 0
opnode 0 vlsum 0.000000 0
opnode 0 inver2 1105920. 8
opnode 0 vsqrt 3317760. 24
opnode 0 invcl1 3317760. 24
opnode 0 opcolv 3317760. 8
opnode 0 sub2 4408320. 34
opnode 0 subcl3 6635520. 24
opnode 0 opa2cl 6635520. 8
opnode 0 invcl2 6635520. 48
opnode 0 add3s2 9953280. 24
opnode 0 opcv3c 0.1244160E+08 15
opnode 0 cadd 0.1560576E+08 381
opnode 0 glsc2 0.4501504E+08 445
opnode 0 invcl3 0.5363712E+08 388
opnode 0 addcl3 0.2012774E+09 1520664
opnode 0 opbinv 0.2145485E+09 388
opnode 0 VLSC2 0.6090650E+09 7404
opnode 0 ADD3 0.5553428E+10 25708808
opnode 0 cmult 0.5555005E+10 25708818
opnode 0 col3 0.5773681E+10 3081917
opnode 0 ADD2 0.5945682E+10 27230464
opnode 0 add2s1 0.1108104E+11 40079
opnode 0 VLSC3 0.1662364E+11 40084
opnode 0 addcl4 0.1663940E+11 40122
opnode 0 glsc3 0.1664233E+11 40134
opnode 0 col2 0.2255086E+11 78922456
opnode 0 add2s2 0.2278993E+11 87891
opnode 0 mxm 0.2063871E+12 250425600
total time 967.00390625000000 964.35546884999997 copy time
0 0.0000000000000000 0.0000000000000000 mxmf
time 0 0.0000000000000000 0.0000000000000000
inv3 time 388 0.65234375000000000
6.76455696132385745E-004
invc time 48 7.03125000000000000E-002 7.29113923975026546E-005
mltd time 1188 6.8515625000000000 7.10481012584553671E-003
cdtp time 1188 9.1953125000000000 9.53518987242895841E-003
eslv time 8 43.132812500000000 4.47270886029569117E-002
pres time 8 43.765625000000000 4.53832911345344314E-002
crsl time 365 0.44921875000000000 4.65822784761822542E-004
crsl min 0.44921875000000000 crsl max 0.44921875000000000
crsl avg 0.44921875000000000 hmhz time 12
911.79687500000000 0.94549873407917062 usbc time 9
0.32031250000000000 3.32151898699734353E-004
axhm time 40189 394.10937500000000 0.40867645565382432
advc time 1112775117 6.61060408125804329E-202
6.85494539595573689E-205
gop time 81651 1.9687500000000000 2.04151898713007427E-003
gop min 1.9687500000000000 gop max 1.9687500000000000
gop avg 1.9687500000000000 vdss time 389
2.5820312500000000 2.67746835415273634E-003
vdss min 2.5820312500000000 vdss max 2.5820312500000000
vdss avg 2.5820312500000000 dsum time 41263
86.929687500000000 9.01427848007791271E-002
dsum min 86.929687500000000 dsum max 86.929687500000000
dsum avg 86.929687500000000 gsum time 0
0.0000000000000000 0.0000000000000000 dsnd time 0
0.0000000000000000 0.0000000000000000 dadd time
0 1.8984375000000000 1.96860759473257161E-003
dsmx time 0 7.81250000000000000E-002 8.10126582194474015E-005
dsmn time 0 0.0000000000000000 0.0000000000000000
slvb time 0 0.0000000000000000 0.0000000000000000
ddsl time 365 17.832031250000000
1.84911392385888676E-002
solv time 365 3.0937500000000000 3.20810126549011696E-003
sett time 0 0.0000000000000000 0.0000000000000000
prep time 8 1.0703125000000000
1.10987341760642941E-003
bsol time 0 0.0000000000000000 0.0000000000000000
bso2 time 0 0.0000000000000000 0.0000000000000000
# nid tusbc tdadd tcrsl tvdss tdsum
tgop qqq
0 3.2031E-01 1.8984E+00 4.4922E-01 2.5820E+00 8.6930E+01
1.9688E+00 qqq
Simulation successfully completed
call exitt: dying ...
backtrace(): obtained 5 stack frames.
./nek5000 [0x4de05a]
./nek5000 [0x5da15d]
./nek5000 [0x60c9ac]
/lib/libc.so.6(__libc_start_main+0xe6) [0x7f7ee3cc71a6]
./nek5000 [0x4073e9]
total elapsed time : 9.67008E+02 sec
total solver time incl. I/O : 6.07313E+02 sec
CPU seconds/timestep/DOF : 5.49147E-04 sec
time/timestep : 7.59141E+01 sec
real 16m7.038s
user 13m48.072s
sys 0m2.980s
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