Hp XC System 4.x Software User Manual download pdf (Page 8)

List of Figures

4-1 Library Directory Structure...........................................................................................................47

4-2 Recommended Library Directory Structure..................................................................................47

10-1 How LSF and SLURM Launch and Manage a Job........................................................................93

11-1 MPICH Wrapper Script...............................................................................................................114

8 List of Figures

1 2 3 4 5 6 7 8 9 10 11 12 13 ... 134 135

HP XC System Software 1
XC User Guide 1
Table of Contents 3
4 Table of Contents 4
Table of Contents 5 5
6 Table of Contents 6
Table of Contents 7 7
List of Figures 8
List of Tables 9
List of Examples 10
About This Document 11
Related Information 13
Linux Web Sites 15
Manpages 16
HP Encourages Your Comments 17
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
File System Layout 22
1.3 User Environment 23
1.3.3 Commands 24
1.4.1 Parallel Applications 24
1.5 Run-Time Environment 25
1.5.5 HP-MPI 26
2 Using the System 29
2.2.1 Introduction 30
2.2.5 Launching Jobs 31
2.2.8 Resuming Suspended Jobs 31
32 Using the System 32
3.1 Overview of Modules 33
3.2 Supplied Modulefiles 34
3.6 Loading a Modulefile 36
3.7 Unloading a Modulefile 37
3.9 Modulefile Conflicts 37
3.10 Creating a Modulefile 38
4 Developing Applications 39
4.2 Compilers 40
4.4 Interrupting a Job 41
4.5 Setting Debugging Options 41
42 Developing Applications 42
4.7.1.1 Modulefiles 43
4.7.1.2 HP-MPI 43
4.7.1.3 OpenMP 43
4.7.1.4 Pthreads 43
4.7.1.5 Quadrics SHMEM 43
44 Developing Applications 44
$ module load mpi 45
4.8 Developing Libraries 46
4.8 Developing Libraries 47 47
48 Developing Applications 48
5 Submitting Jobs 49
50 Submitting Jobs 50
5.3 Submitting a Parallel Job 51
52 Submitting Jobs 52
56 Submitting Jobs 56
58 Submitting Jobs 58
60 Submitting Jobs 60
-R "type=SLINUX64" 61
6 Debugging Applications 63
6.2.1.1 SSH and TotalView 64
6.2.1.2 Setting Up TotalView 64
66 Debugging Applications 66
6.2.1.8 Exiting TotalView 67
7 Monitoring Node Activity 69
70 Monitoring Node Activity 70
72 Monitoring Node Activity 72
8 Tuning Applications 75
76 Tuning Applications 76
8.2.1 Installation Kit 77
Running a Program 78
9 Using SLURM 81
9.3.1.1 The srun Roles 82
9.3.1.2 The srun Modes 82
9.7 Job Accounting 84
9.8 Fault Tolerance 84
9.9 Security 84
10 Using LSF 85
$ squeue --jobs $SLURM_JOBID 86
10.4 Job Terminology 89
90 Using LSF 90
10.6 Submitting Jobs 91
DescriptionExit Code 92
Success0 92
92 Using LSF 92
SLURM_JOBID=53 93
SLURM_NPROCS=4 93
$ sinfo -p lsf -lNe 96
96 Using LSF 96
$ bjobs 24 98
98 Using LSF 98
102 Using LSF 102
$ unset SLURM_JOBID 103
$ unset SLURM_NPROCS 103
$ srun --jobid=250 uptime 103
11 Advanced Topics 107
108 Advanced Topics 108
110 Advanced Topics 110
11.3.1 Example Procedure 1 111
11.3.2 Example Procedure 2 111
11.3.3 Example Procedure 3 112
11.5.1 Shared File View 113
11.5.2 Private File View 113
% srun -A options 114
% ./wrapper 114
% bsub -I options... wrapper 114
A Examples 115
Submit the job: 116
View the job: 116
118 Examples 118
Exit from the shell: 119
Show the environment: 119
Display the script: 119
Run the job: 120
Show the job allocation: 120
Show the SLURM job ID: 121
Exit the pseudo-terminal: 121
View the interactive jobs: 121
View the finished jobs: 121
View the node state: 122
View the running job: 122
View the finished job: 123
Glossary 125
126 Glossary 126
128 Glossary 128
130 Glossary 130
132 Index 132
134 Index 134

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