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$ make PREFIX=’srun –n1 –N1 MAKE_J='-j4'
11.3.2 Example Procedure 2
Go through the directories in parallel and have the make procedure within each directory be serial.
For the purpose of this exercise we are only parallelizing the “make all” component. The “clean” and
“veryclean” components can be parallelized in a similar fashion.
Modified Makefile:
all:
$(MAKE) $(MAKE_J) struct_matrix_vector/libHYPRE_mv.a
struct_linear_solvers/libHYPRE_ls.a utilities/libHYPRE_utilities.a
$(PREFIX) $(MAKE) -C test
struct_matrix_vector/libHYPRE_mv.a:
$(PREFIX) $(MAKE) -C struct_matrix_vector
struct_linear_solvers/libHYPRE_ls.a:
$(PREFIX) $(MAKE) -C struct_linear_solvers
utilities/libHYPRE_utilities.a:
$(PREFIX) $(MAKE) -C utilities
The modified Makefile is invoked as follows:
$ make PREFIX='srun -n1 -N1' MAKE_J='-j4'
11.3.3 Example Procedure 3
Go through the directories in parallel and have the make procedure within each directory be parallel. For
the purpose of this exercise, we are only parallelizing the “make all” component. The “clean” and
“veryclean” components can be parallelized in a similar fashion.
Modified Makefile:
all:
$(MAKE) $(MAKE_J) struct_matrix_vector/libHYPRE_mv.a
struct_linear_solvers/libHYPRE_ls.a utilities/libHYPRE_utilities.a
$(PREFIX) $(MAKE) $(MAKE_J) -C test
struct_matrix_vector/libHYPRE_mv.a:
$(PREFIX) $(MAKE) $(MAKE_J) -C struct_matrix_vector
struct_linear_solvers/libHYPRE_ls.a:
$(PREFIX) $(MAKE) $(MAKE_J) -C struct_linear_solvers
utilities/libHYPRE_utilities.a:
$(PREFIX) $(MAKE) $(MAKE_J) -C utilities
108 Advanced Topics
- 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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