Administering Platform LSF - SAS

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$Intel(R) Math Kernel Library for Linux* OS User's Guide$

Contents Automatically Checkpointing Jobs . . . . . . . . . . . . . . . . . . . . . . . 318 Restarting Checkpointed Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . 319 Migrating Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 320 24 Chunk Job Dispatch . . . . . . . . . . . . . . . . . . . . . . . . . . . . 323 About Job Chunking . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 324 Configuring a Chunk Job Dispatch . . . . . . . . . . . . . . . . . . . . . . . 325 Submitting and Controlling Chunk Jobs . . . . . . . . . . . . . . . . . . . . 327 25 Job Arrays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 331 Creating a Job Array . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 332 Handling Input and Output Files . . . . . . . . . . . . . . . . . . . . . . . . 334 Redirecting Standard Input and Output . . . . . . . . . . . . . . . . . . . . . 335 Passing Arguments on the Command Line . . . . . . . . . . . . . . . . . . . 336 Job Array Dependencies . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 337 Monitoring Job Arrays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 338 Controlling Job Arrays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 340 Requeuing a Job Array . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 341 Job Array Job Slot Limit . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 342 Part V: Controlling Job Execution 26 Runtime Resource Usage Limits . . . . . . . . . . . . . . . . . . . . . . 345 About Resource Usage Limits . . . . . . . . . . . . . . . . . . . . . . . . . . 346 Specifying Resource Usage Limits . . . . . . . . . . . . . . . . . . . . . . . 348 Supported Resource Usage Limits and Syntax . . . . . . . . . . . . . . . . . 351 CPU Time and Run Time Normalization . . . . . . . . . . . . . . . . . . . . 357 27 Load Thresholds . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 359 Automatic Job Suspension . . . . . . . . . . . . . . . . . . . . . . . . . . . 360 Suspending Conditions . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 362 28 Pre-Execution and Post-Execution Commands . . . . . . . . . . . . . . 365 About Pre-Execution and Post-Execution Commands . . . . . . . . . . . . . 366 Configuring Pre- and Post-Execution Commands . . . . . . . . . . . . . . . 368 29 Job Starters . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 371 About Job Starters . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 372 Command-Level Job Starters . . . . . . . . . . . . . . . . . . . . . . . . . . 374 Queue-Level Job Starters . . . . . . . . . . . . . . . . . . . . . . . . . . . . 376 Controlling Execution Environment Using Job Starters . . . . . . . . . . . . 378 8 Administering Platform LSF
Contents 30 External Job Submission and Execution Controls . . . . . . . . . . . . . 379 Understanding External Executables . . . . . . . . . . . . . . . . . . . . . . 380 Using esub . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 381 Working with eexec . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 388 31 Configuring Job Controls . . . . . . . . . . . . . . . . . . . . . . . . . 389 Default Job Control Actions . . . . . . . . . . . . . . . . . . . . . . . . . . . 390 Configuring Job Control Actions . . . . . . . . . . . . . . . . . . . . . . . . 392 Customizing Cross-Platform Signal Conversion . . . . . . . . . . . . . . . . 395 Part VI: Interactive Jobs 32 Interactive Jobs with bsub . . . . . . . . . . . . . . . . . . . . . . . . . 399 About Interactive Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 400 Submitting Interactive Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . 401 Performance Tuning for Interactive Batch Jobs . . . . . . . . . . . . . . . . . 404 Interactive Batch Job Messaging . . . . . . . . . . . . . . . . . . . . . . . . 407 Running X Applications with bsub . . . . . . . . . . . . . . . . . . . . . . . 409 Writing Job Scripts . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 410 Registering utmp File Entries for Interactive Batch Jobs . . . . . . . . . . . . 413 33 Running Interactive and Remote Tasks . . . . . . . . . . . . . . . . . . 415 Running Remote Tasks . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 416 Interactive Tasks . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 419 Load Sharing Interactive Sessions . . . . . . . . . . . . . . . . . . . . . . . 422 Load Sharing X Applications . . . . . . . . . . . . . . . . . . . . . . . . . . 423 Part VII: Running Parallel Jobs 34 Running Parallel Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . 429 How LSF Runs Parallel Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . 430 Preparing Your Environment to Submit Parallel Jobs to LSF . . . . . . . . . . 431 Submitting Parallel Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 432 Submitting PVM Jobs to LSF . . . . . . . . . . . . . . . . . . . . . . . . . . . 433 Submitting MPI Jobs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 434 Starting Parallel Tasks with LSF Utilities . . . . . . . . . . . . . . . . . . . . 436 Job Slot Limits For Parallel Jobs . . . . . . . . . . . . . . . . . . . . . . . . . 437 Specifying a Minimum and Maximum Number of Processors . . . . . . . . . 438 Specifying a Mandatory First Execution Host . . . . . . . . . . . . . . . . . . 439 Controlling Processor Allocation Across Hosts . . . . . . . . . . . . . . . . . 441 Administering Platform LSF 9
Page 1 and 2: Administering Platform LSF® Versio
Page 3 and 4: Contents Welcome . . . . . . . . .
Page 5 and 6: Contents Part II: Working with Reso
Page 7: Contents 17 Reserving Resources . .
Page 11 and 12: Contents 40 Non-Shared File Systems
Page 13 and 14: Welcome Contents ◆ “About This
Page 15 and 16: Welcome Command notation Notation M
Page 17 and 18: Welcome Platform LSF License Schedu
Page 19 and 20: Welcome Resource requirement specif
Page 21 and 22: Welcome Run-time enhancements Threa
Page 23 and 24: Welcome Environment variables ◆
Page 25 and 26: Welcome New files added to installa
Page 27 and 28: Technical Support Contact Platform
Page 29 and 30: C H A P T E R 1 About Platform LSF
Page 31 and 32: Chapter 1 About Platform LSF Job sl
Page 33 and 34: Chapter 1 About Platform LSF Master
Page 35 and 36: Chapter 1 About Platform LSF Master
Page 37 and 38: Chapter 1 About Platform LSF Host t
Page 39 and 40: Chapter 1 About Platform LSF Extern
Page 41 and 42: Chapter 1 About Platform LSF Job Li
Page 43 and 44: C H A P T E R 2 How the System Work
Page 45 and 46: Chapter 2 How the System Works Queu
Page 47 and 48: Chapter 2 How the System Works Disp
Page 49 and 50: Job Execution Environment Shared us
Page 51 and 52: Fault Tolerance Dynamic master host
Page 53: P A R T I Managing Your Cluster Con
Page 56 and 57: Viewing Cluster Information Viewing
Page 58 and 59:
Default Directory Structures Defaul
Page 60 and 61:
Default Directory Structures Window
Page 62 and 63:
Controlling Daemons Controlling Dae
Page 64 and 65:
Controlling mbatchd Controlling mba
Page 66 and 67:
Reconfiguring Your Cluster 3 Run ba
Page 68 and 69:
Host States Host States Host states
Page 70 and 71:
Viewing Host Information Viewing Ho
Page 72 and 73:
Viewing Host Information type Viewi
Page 74 and 75:
Controlling Hosts Controlling Hosts
Page 76 and 77:
Adding a Host Adding a Host Use lsf
Page 78 and 79:
Removing a Host Removing a Host CAU
Page 80 and 81:
Adding and Removing Hosts Dynamical
Page 82 and 83:
Adding and Removing Hosts Dynamical
Page 84 and 85:
Adding Host Types and Host Models t
Page 86 and 87:
Registering Service Ports NIS or NI
Page 88 and 89:
Host Naming Host Naming Network add
Page 90 and 91:
Hosts with Multiple Addresses Examp
Page 92 and 93:
Host Groups Host Groups Where to us
Page 94 and 95:
Tuning CPU Factors Tuning CPU Facto
Page 96 and 97:
Handling Host-level Job Exceptions
Page 98 and 99:
Handling Host-level Job Exceptions
Page 100 and 101:
Queue States Queue States Queue sta
Page 102 and 103:
Viewing Queue Information SCHEDULIN
Page 104 and 105:
Controlling Queues Controlling Queu
Page 106 and 107:
Controlling Queues Dispatch Windows
Page 108 and 109:
Managing Queues Managing Queues Res
Page 110 and 111:
Handling Job Exceptions Configuring
Page 112 and 113:
Job States Job States The bjobs com
Page 114 and 115:
Job States Viewing wait status and
Page 116 and 117:
Viewing Job Information Viewing exc
Page 118 and 119:
Switching Jobs from One Queue to An
Page 120 and 121:
Suspending and Resuming Jobs Suspen
Page 122 and 123:
Sending a Signal to a Job Sending a
Page 124 and 125:
Using Job Groups Creating a job gro
Page 126 and 127:
Using Job Groups % bhist -l 105 You
Page 128 and 129:
Viewing User and User Group Informa
Page 130 and 131:
About User Groups About User Groups
Page 132 and 133:
LSF User Groups LSF User Groups You
Page 134 and 135:
LSF User Groups 134 Administering P
Page 137 and 138:
C H A P T E R 8 Understanding Resou
Page 139 and 140:
Chapter 8 Understanding Resources T
Page 141 and 142:
Chapter 8 Understanding Resources S
Page 143 and 144:
How LSF Uses Resources Viewing job
Page 145 and 146:
Chapter 8 Understanding Resources S
Page 147 and 148:
Chapter 8 Understanding Resources V
Page 149 and 150:
Chapter 8 Understanding Resources A
Page 151 and 152:
C H A P T E R 9 Adding Resources Co
Page 153 and 154:
Adding New Resources to Your Cluste
Page 155 and 156:
Chapter 9 Adding Resources Configur
Page 157 and 158:
Static Shared Resource Reservation
Page 159 and 160:
Chapter 9 Adding Resources Configur
Page 161 and 162:
Chapter 9 Adding Resources ELIM res
Page 163 and 164:
Modifying a Built-In Load Index Con
Page 165:
P A R T III Scheduling Policies Con
Page 168 and 169:
Specifying Time Values Specifying T
Page 170 and 171:
Specifying Time Expressions Specify
Page 172 and 173:
Automatic Time-based Configuration
Page 174 and 175:
Deadline Constraint Scheduling Dead
Page 176 and 177:
Exclusive Scheduling 176 Administer
Page 178 and 179:
About Preemptive Scheduling About P
Page 180 and 181:
How Preemptive Scheduling Works Job
Page 182 and 183:
Configuring Preemptive Scheduling Q
Page 184 and 185:
Configuring Preemptive Scheduling 1
Page 186 and 187:
About Resource Requirements About R
Page 188 and 189:
Queue-Level Resource Requirements V
Page 190 and 191:
About Resource Requirement Strings
Page 192 and 193:
Selection String Selection String S
Page 194 and 195:
Order String Order String Syntax De
Page 196 and 197:
Usage String Example rusage[mem=50:
Page 198 and 199:
Span String Span String Syntax A sp
Page 200 and 201:
Same String 200 Administering Platf
Page 202 and 203:
About Fairshare Scheduling About Fa
Page 204 and 205:
User Share Assignments Examples ◆
Page 206 and 207:
Dynamic User Priority Default dynam
Page 208 and 209:
Host Partition Fairshare Host Parti
Page 210 and 211:
Queue-Level User-based Fairshare Qu
Page 212 and 213:
Cross-queue Fairshare bqueues -l al
Page 214 and 215:
Cross-queue Fairshare 3 In all the
Page 216 and 217:
Hierarchical Fairshare Viewing hier
Page 218 and 219:
Queue-based Fairshare Queue-based F
Page 220 and 221:
Configuring Slot Allocation per Que
Page 222 and 223:
Viewing Queue-based Fairshare Alloc
Page 224 and 225:
Typical Slot Allocation Scenarios T
Page 226 and 227:
Typical Slot Allocation Scenarios W
Page 228 and 229:
Typical Slot Allocation Scenarios T
Page 230 and 231:
Using Historical and Committed Run
Page 232 and 233:
Using Historical and Committed Run
Page 234 and 235:
Users Affected by Multiple Fairshar
Page 236 and 237:
Ways to Configure Fairshare Ways to
Page 238 and 239:
Ways to Configure Fairshare Example
Page 240 and 241:
Using Goal-Oriented SLA Scheduling
Page 242 and 243:
Using Goal-Oriented SLA Scheduling
Page 244 and 245:
Configuring Service Classes for SLA
Page 246 and 247:
Viewing Information about SLAs and
Page 248 and 249:
Viewing Information about SLAs and
Page 250 and 251:
Understanding Service Class Behavio
Page 252 and 253:
Page 254 and 255:
Page 257 and 258:
C H A P T E R 16 Resource Allocatio
Page 259 and 260:
Chapter 16 Resource Allocation Limi
Page 261 and 262:
Page 263 and 264:
Page 265 and 266:
Page 267 and 268:
Page 269 and 270:
C H A P T E R 17 Reserving Resource
Page 271 and 272:
Chapter 17 Reserving Resources Usin
Page 273 and 274:
Chapter 17 Reserving Resources Usin
Page 275 and 276:
Chapter 17 Reserving Resources View
Page 277 and 278:
C H A P T E R 18 Managing Software
Page 279 and 280:
Host Locked Licenses Chapter 18 Man
Page 281 and 282:
Network Floating Licenses Chapter 1
Page 283 and 284:
Chapter 18 Managing Software Licens
Page 285 and 286:
C H A P T E R 19 Dispatch and Run W
Page 287 and 288:
Run Windows Configuring run windows
Page 289 and 290:
C H A P T E R 20 Job Dependencies C
Page 291 and 292:
Chapter 20 Job Dependencies ◆ In
Page 293 and 294:
Chapter 20 Job Dependencies externa
Page 295 and 296:
C H A P T E R 21 Job Priorities Con
Page 297 and 298:
Chapter 21 Job Priorities Specifyin
Page 299 and 300:
C H A P T E R 22 Job Requeue and Jo
Page 301 and 302:
Chapter 22 Job Requeue and Job Reru
Page 303 and 304:
Page 305 and 306:
Page 307 and 308:
C H A P T E R 23 Job Checkpoint, Re
Page 309 and 310:
Approaches to Checkpointing Kernel-
Page 311 and 312:
Chapter 23 Job Checkpoint, Restart,
Page 313 and 314:
Checkpointing a Job Prerequisites C
Page 315 and 316:
Making Jobs Checkpointable Manually
Page 317 and 318:
Enabling Periodic Checkpointing At
Page 319 and 320:
Restarting Checkpointed Jobs Requir
Page 321 and 322:
Chapter 23 Job Checkpoint, Restart,
Page 323 and 324:
C H A P T E R 24 Chunk Job Dispatch
Page 325 and 326:
Chapter 24 Chunk Job Dispatch Confi
Page 327 and 328:
Submitting and Controlling Chunk Jo
Page 329 and 330:
Chapter 24 Chunk Job Dispatch Fairs
Page 331 and 332:
C H A P T E R Ë 25 Job Arrays LSF
Page 333 and 334:
Chapter 25 Job Arrays Maximum size
Page 335 and 336:
Redirecting Standard Input and Outp
Page 337 and 338:
Chapter 25 Job Arrays Job Array Dep
Page 339 and 340:
Chapter 25 Job Arrays Specific job
Page 341 and 342:
Requeuing a Job Array Chapter 25 Jo
Page 343:
P A R T V Controlling Job Execution
Page 346 and 347:
About Resource Usage Limits About R
Page 348 and 349:
Specifying Resource Usage Limits Sp
Page 350 and 351:
Specifying Resource Usage Limits If
Page 352 and 353:
Supported Resource Usage Limits and
Page 354 and 355:
Page 356 and 357:
Page 358 and 359:
CPU Time and Run Time Normalization
Page 360 and 361:
Automatic Job Suspension Automatic
Page 362 and 363:
Suspending Conditions Suspending Co
Page 364 and 365:
Suspending Conditions Viewing suspe
Page 366 and 367:
About Pre-Execution and Post-Execut
Page 368 and 369:
Configuring Pre- and Post-Execution
Page 370 and 371:
Configuring Pre- and Post-Execution
Page 372 and 373:
About Job Starters About Job Starte
Page 374 and 375:
Command-Level Job Starters Command-
Page 376 and 377:
Queue-Level Job Starters Queue-Leve
Page 378 and 379:
Controlling Execution Environment U
Page 380 and 381:
Understanding External Executables
Page 382 and 383:
Using esub Option LSB_SUB_EXCEPTION
Page 384 and 385:
Using esub General esub logic Rejec
Page 386 and 387:
Using esub # Deny userC the ability
Page 388 and 389:
Working with eexec Working with eex
Page 390 and 391:
Default Job Control Actions Default
Page 392 and 393:
Configuring Job Control Actions Con
Page 394 and 395:
Configuring Job Control Actions Exa
Page 396 and 397:
Customizing Cross-Platform Signal C
Page 399 and 400:
C H A P T E R 32 Interactive Jobs w
Page 401 and 402:
Chapter 32 Interactive Jobs with bs
Page 403 and 404:
Page 405 and 406:
Page 407 and 408:
Interactive Batch Job Messaging Lim
Page 409 and 410:
Running X Applications with bsub Ch
Page 411 and 412:
Page 413 and 414:
Page 415 and 416:
C H A P T E R 33 Running Interactiv
Page 417 and 418:
Chapter 33 Running Interactive and
Page 419 and 420:
Interactive Tasks Chapter 33 Runnin
Page 421 and 422:
Page 423 and 424:
Page 425 and 426:
Page 427:
P A R T VII Running Parallel Jobs C
Page 430 and 431:
How LSF Runs Parallel Jobs How LSF
Page 432 and 433:
Submitting Parallel Jobs Submitting
Page 434 and 435:
Submitting MPI Jobs Submitting MPI
Page 436 and 437:
Starting Parallel Tasks with LSF Ut
Page 438 and 439:
Specifying a Minimum and Maximum Nu
Page 440 and 441:
Specifying a Mandatory First Execut
Page 442 and 443:
Controlling Processor Allocation Ac
Page 444 and 445:
Running Parallel Processes on Homog
Page 446 and 447:
Using LSF Make to Run Parallel Jobs
Page 448 and 449:
Limiting the Number of Processors A
Page 450 and 451:
Reserving Processors Reserving Proc
Page 452 and 453:
Reserving Memory for Pending Parall
Page 454 and 455:
Allowing Jobs to Use Reserved Job S
Page 456 and 457:
Allowing Jobs to Use Reserved Job S
Page 458 and 459:
Parallel Fairshare Parallel Fairsha
Page 460 and 461:
Optimized Preemption of Parallel Jo
Page 462 and 463:
About Advance Reservation About Adv
Page 464 and 465:
Configuring Advance Reservation ◆
Page 466 and 467:
Using Advance Reservation Adding a
Page 468 and 469:
Using Advance Reservation Removing
Page 470 and 471:
Using Advance Reservation 6:10 0 10
Page 472 and 473:
Using Advance Reservation Modifying
Page 474 and 475:
Using Advance Reservation 474 Admin
Page 477 and 478:
C H A P T E R 36 Event Generation C
Page 479 and 480:
Chapter 36 Event Generation Events
Page 481 and 482:
C H A P T E R 37 Tuning the Cluster
Page 483 and 484:
Adjusting LIM Parameters RUNWINDOW
Page 485 and 486:
Chapter 37 Tuning the Cluster Compa
Page 487 and 488:
Changing Default LIM Behavior to Im
Page 489 and 490:
Chapter 37 Tuning the Cluster Whene
Page 491 and 492:
Tuning mbatchd on UNIX Operating sy
Page 493 and 494:
C H A P T E R 38 Authentication Con
Page 495 and 496:
Chapter 38 Authentication eauth -c
Page 497 and 498:
Chapter 38 Authentication How LSF d
Page 499 and 500:
Chapter 38 Authentication Correctin
Page 501 and 502:
Chapter 38 Authentication About Dae
Page 503 and 504:
User Account Mapping Chapter 38 Aut
Page 505 and 506:
C H A P T E R 39 Job Email, and Job
Page 507 and 508:
Chapter 39 Job Email, and Job File
Page 509 and 510:
Page 511 and 512:
Page 513 and 514:
C H A P T E R 40 Non-Shared File Sy
Page 515 and 516:
Chapter 40 Non-Shared File Systems
Page 517 and 518:
Chapter 40 Non-Shared File Systems
Page 519 and 520:
C H A P T E R 41 Error and Event Lo
Page 521 and 522:
Chapter 41 Error and Event Logging
Page 523 and 524:
System Event Log CAUTION Chapter 41
Page 525 and 526:
Chapter 41 Error and Event Logging
Page 527 and 528:
C H A P T E R 42 Troubleshooting an
Page 529 and 530:
Common LSF Problems LIM dies quietl
Page 531 and 532:
Chapter 42 Troubleshooting and Erro
Page 533 and 534:
Page 535 and 536:
Page 537 and 538:
Page 539 and 540:
Page 541 and 542:
Page 543 and 544:
Setting Daemon Timing Levels Chapte
Page 545:
P A R T IX LSF Utilities Contents
Page 548 and 549:
About lstcsh About lstcsh The lstcs
Page 550 and 551:
Local and Remote Modes Local and Re
Page 552 and 553:
Differences from Other Shells Diffe
Page 554 and 555:
Starting lstcsh Starting lstcsh Sta
Page 556 and 557:
Host Redirection Host Redirection E
Page 558 and 559:
Built-in Commands Built-in Commands
Page 560 and 561:
Writing Shell Scripts in lstcsh Wri
Page 562 and 563:
Index job migration 321 job requeue
Page 564 and 565:
Index D daemons authd 496 authentic
Page 566 and 567:
Index file spooling. See command fi
Page 568 and 569:
Index Internet addresses, matching
Page 570 and 571:
Index host locked 279 interactive j
Page 572 and 573:
Index pre-42 UNIX directory structu
Page 574 and 575:
Index disabling 317 job-level 317 q
Page 576 and 577:
Index associating with hosts 155 Bo
Page 578 and 579:
Index status closed in bhosts 70 jo
Page 580:
Index 580 Administering Platform LS
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