Hp XC System 4.x Software Instrukcja Użytkownika Strona 4
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2.3.1 Determining the LSF Cluster Name and the LSF Execution Host..........................................32
2.4 Getting System Help and Information............................................................................................32
3 Configuring Your Environment with Modulefiles.......................................................33
3.1 Overview of Modules......................................................................................................................33
3.2 Supplied Modulefiles......................................................................................................................34
3.3 Modulefiles Automatically Loaded on the System.........................................................................36
3.4 Viewing Available Modulefiles.......................................................................................................36
3.5 Viewing Loaded Modulefiles..........................................................................................................36
3.6 Loading a Modulefile......................................................................................................................36
3.6.1 Loading a Modulefile for the Current Session........................................................................36
3.6.2 Automatically Loading a Modulefile at Login........................................................................36
3.7 Unloading a Modulefile..................................................................................................................37
3.8 Viewing Modulefile-Specific Help..................................................................................................37
3.9 Modulefile Conflicts........................................................................................................................37
3.10 Creating a Modulefile....................................................................................................................38
4 Developing Applications.............................................................................................39
4.1 Application Development Environment Overview........................................................................39
4.2 Compilers........................................................................................................................................40
4.2.1 MPI Compiler..........................................................................................................................40
4.3 Examining Nodes and Partitions Before Running Jobs..................................................................41
4.4 Interrupting a Job............................................................................................................................41
4.5 Setting Debugging Options.............................................................................................................41
4.6 Developing Serial Applications.......................................................................................................41
4.6.1 Serial Application Build Environment....................................................................................42
4.6.2 Building Serial Applications...................................................................................................42
4.6.2.1 Compiling and Linking Serial Applications...................................................................42
4.7 Developing Parallel Applications....................................................................................................42
4.7.1 Parallel Application Build Environment.................................................................................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
4.7.1.6 MPI Library.....................................................................................................................44
4.7.1.7 Intel Fortran and C/C++Compilers..................................................................................44
4.7.1.8 PGI Fortran and C/C++ Compilers..................................................................................44
4.7.1.9 GNU C and C++ Compilers.............................................................................................44
4.7.1.10 Pathscale Compilers......................................................................................................44
4.7.1.11 GNU Parallel Make.......................................................................................................44
4.7.1.12 MKL Library..................................................................................................................45
4.7.1.13 ACML Library...............................................................................................................45
4.7.1.14 Other Libraries..............................................................................................................45
4.7.2 Building Parallel Applications................................................................................................45
4.7.2.1 Compiling and Linking Non-MPI Applications.............................................................45
4.7.2.2 Compiling and Linking HP-MPI Applications...............................................................45
4.7.2.3 Examples of Compiling and Linking HP-MPI Applications..........................................45
4.8 Developing Libraries.......................................................................................................................46
4.8.1 Designing Libraries for the CP4000 Platform.........................................................................46
5 Submitting Jobs............................................................................................................49
5.1 Overview of Job Submission...........................................................................................................49
4 Table of Contents
- 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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