Hp XC System 2.x Software User Manual download pdf (Page 40)

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HP XC System Software 1
Contents 3
3 Developing Applications 4
4 Debugging Applications 5
5 Tuning Applications 5
6UsingSLURM 5
8UsingHP-MPI 6
7 Using LSF 6
9UsingHPMLIB 7
10 Advanced Topics 8
AExamples 8
About This Document 11
HP XC Inform ation 12
For M ore Information 13
Supplementary Information 13
Manpages 14
Related Information 15
Typographical Conventions 16
HP Encourages Your Comments 17
1.1 System Architecture 19
1.1.3 Storage and I/O 20
1.1.4 File System 20
1.2 User Environment 22
1.3.1 Parallel Applications 23
1.3.2 Serial Applications 23
1.4 Run-Time E nvironment 24
1.4.4 HP-MPI 25
Using the System 27
2.2.1 Notes on Modulefiles 28
2.2.2 Supplied Modulefiles 29
2.2.6 Loading a Modulefile 30
2.2.7 Unloading a M odulefile 31
2.2.8 Modulefile Conflicts 31
2.2.9 Creating a Mod u lefile 32
2.3.1 Introduction 33
2.3.5 Launching Jobs 34
$ man sinfo 39
$ man -k keyword 39
Using the System 2-13 39
Developing Applications 41
3.2 Using Compilers 42
3.4 Interrupting a Job 43
3-4 Developing Applications 44
Developing Applications 3-5 45
3-6 Developing Applications 46
Developing Applications 3-7 47
$ module load mpi 48
$ mpicc -o mycode hello.c 48
$ mpif90 -o mycode hello.f 48
3-8 Developing Applications 48
3.8 Developing Libraries 49
3.9 Advanced To pics 50
3-14 Deve loping Applications 54
Developing Applications 3-15 55
Debugging Applications 57
4-2 D ebugging Applications 58
$ totalview 60
4-4 D ebugging Applications 60
Debugging Applications 4-5 61
4-6 D ebugging Applications 62
-verbosity %V %F" 63
Debugging Applications 4-7 63
4-8 D ebugging Applications 64
Etnus TotalView Version# 65
Debugging Applications 4-9 65
$ mpirun -srun -n2 Psimple 66
4-10 Debugging Applications 66
$ squeue 67
$ scancel --user username 67
Debugging Applications 4-11 67
Tuning Applications 69
Using SLURM 71
$ srun -N 16 -b myscript.sh 73
$ srun -A -N 4 myscript.sh 73
$ srun -a 6543 -j 73
Using SLURM 6-3 73
6.4.2 srun Signal Handling 74
6.4.3 srun Run-Mode Options 74
Using SLURM 6-5 75
6-6 Using SLURM 76
6.4.5 srun Control Options 77
6.4.6 srun I/O Options 78
Using SLURM 6-9 79
6.4.7 srun Constraint Options 80
Using SLURM 6-11 81
6.4.9 Using srun with HP-MPI 82
6.4.10 Using srun with LSF 82
6.8 Job Accounting 84
6.9 Fault Tolerance 84
6.10 Security 84
Using LSF 85
7.1.2 Topology Support 86
7.1.3 Notes on LSF-HPC 87
SLURM_JOBID=53 89
SLURM_NPROCS=4 89
7-6 Using LSF 90
7.3.1 Getting Status of LSF 91
$ bhosts 92
7-8 Using LSF 92
7.4 Submitting Jobs 93
7.4.3 Submitting a Serial Job 97
Using LSF 7-17 101
7-18 Using LSF 102
Using HP-MPI 111
8.3.3 Using srun with HP-MPI 114
8.3.4 Using LSF and HP-MPI 116
8.3.5 MPI Versioning 117
8.6 Truncated Messages 118
8.5 32-Bit B uilds on XC4000 118
Using HP-MPI 8-9 119
8.9 Environment Variables 120
8.9.5 MPI_PIN_PERCENTAGE 121
8.9.6 MPI_PAGE_ALIGN_MEM 121
8.9.7 MPI_MAX_WINDOW 121
8.9.8 MPI_ELANLOCK 121
8.9.9 MPI_USE_LIBELAN 121
8.9.10 MPI_USE_LIBELAN_SUB 122
Work-arounds 124
Using HP MLIB 125
9.1.2 MLIB and Module Files 126
9.2.1 Platform Sup port 126
9.2.2 Library Support 126
9.2.3 MPI Parallelism 126
9.2.4 Modulefiles and MLIB 127
9.2.6 Compiling and Linking 127
9.2.7 Licensing 128
9.2.8 MLIB Man pages 128
9.3.1 Platform Sup port 128
9.3.2 Library Support 128
9.3.3 MPI Parallelism 129
9.3.4 Modulefiles and MLIB 129
9.3.5 Compiling and Linking 129
9.3.6 Licensing 130
9.3.7 MLIB Man pages 130
Advanced Topics 131
Examples 135
$ lshosts 140
Show the environment: 142
Run the job: 142
View the running job: 142
View the finished job: 142
Examples A-9 143
Glossary 145
Glossary-2 146
Glossary-3 147
Glossary-4 148
Glossary-5 149
Glossary-6 150

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