Hp XC System 3.x Software User Manual download pdf (Page 111)

IMPORTANT: Be sure that the number of nodes and processors in the bsub command corresponds to

the number specified by the appropriate options in the wrapper script.

NOTE: This method assumes that the communication among nodes is performed using ssh and that

passwords are not required.

11.7 Using MPICH on the HP XC System 111

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HP XC System Software 1
User's Guide 1
Table of Contents 3
4 Table of Contents 4
Table of Contents 5 5
6 Table of Contents 6
List of Figures 7
List of Examples 11
About This Document 13
14 About This Document 14
5 Related information 15
16 About This Document 16
Linux Web Sites 17 17
6 Manpages 18
7 HP Encourages Your Comments 18
1.1 System Architecture 19
1.1.4 Node Specialization 20
1.1.5 Storage and I/O 21
1.1.6 File System 21
1.3 User Environment 23
1.5 Run-Time Environment 24
1.5.3 Standard LSF 25
1.5.5 HP-MPI 26
2 Using the System 27
2.2.1 Introduction 28
30 Using the System 30
3.1 Overview of Modules 31
3.2 Supplied Modulefiles 32
3.6 Loading a Modulefile 34
3.7 Unloading a Modulefile 34
3.9 Modulefile Conflicts 35
3.10 Creating a Modulefile 35
4 Developing Applications 37
4.4 Interrupting a Job 38
4.5 Setting Debugging Options 39
4.7.1.1 Modulefiles 40
4.7.1.2 HP-MPI 40
4.7.1.3 OpenMP 40
4.7.1.4 Pthreads 40
42 Developing Applications 42
4.8 Developing Libraries 43
44 Developing Applications 44
4.8 Developing Libraries 45 45
5 Submitting Jobs 47
48 Submitting Jobs 48
5.3 Submitting a Parallel Job 49
50 Submitting Jobs 50
52 Submitting Jobs 52
54 Submitting Jobs 54
56 Submitting Jobs 56
6 Debugging Applications 57
6.2.1.1 SSH and TotalView 58
6.2.1.2 Setting Up TotalView 58
60 Debugging Applications 60
6.2.1.8 Exiting TotalView 61
7 Monitoring Node Activity 63
64 Monitoring Node Activity 64
66 Monitoring Node Activity 66
68 Monitoring Node Activity 68
70 Monitoring Node Activity 70
8 Tuning Applications 73
74 Tuning Applications 74
8.2.1 Installation Kit 75
Running a Program 76
9 Using SLURM 79
9.3.1.1 The srun Roles 80
9.3.1.2 The srun Modes 80
9.7 Job Accounting 81
9.9 Security 82
9.8 Fault Tolerance 82
10 Using LSF-HPC 83
84 Using LSF-HPC 84
10.4 Job Terminology 86
10.5.1 Useful Commands 87
10.5.3 Preemption 87
10.6 Submitting Jobs 88
SLURM_JOBID=53 89
SLURM_NPROCS=4 89
90 Using LSF-HPC 90
92 Using LSF-HPC 92
94 Using LSF-HPC 94
96 Using LSF-HPC 96
98 Using LSF-HPC 98
100 Using LSF-HPC 100
102 Using LSF-HPC 102
11 Advanced Topics 103
104 Advanced Topics 104
106 Advanced Topics 106
11.3.1 Example Procedure 1 107
11.3.3 Example Procedure 3 108
11.3.2 Example Procedure 2 108
11.5.1 Shared File View 109
11.5.2 Private File View 109
110 Advanced Topics 110
A Examples 113
Submit the job: 114
View the job: 115
116 Examples 116
Exit from the shell: 117
Show the environment: 117
Display the script: 118
Run the job: 118
Submit the job: 119 119
View the finished jobs: 120
View the node state: 120
View the running job: 121
View the finished job: 121
122 Examples 122
Glossary 123
124 Glossary 124
126 Glossary 126
130 Index 130
132 Index 132

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Hp XC System 3.x Software User Manual Page 111

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