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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'
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
The modified Makefile is invoked as follows:
$ make PREFIX='srun -n1 -N1' MAKE_J='-j4'
Local Disks on Compute Nodes
The use of a local disk for private, temporary storage may be configured on the compute nodes of your HP
XC system. Contact your system administrator to find out about the local disks configured on your system.
A local disk is a temporary storage space and does not hold data across execution of applications. Therefore,
any information generated by the application during its execution is not saved on the local disk once the
application has completed.
I/O Performance Considerations
Before building and running your parallel application, I/O performance issues on the HP XC cluster must
be considered.
The I/O control system provides two basic types of standard file system views to the application:
• Shared
• Private
96 Advanced Topics
- HP XC System Software 1
- User's Guide 1
- Table of Contents 3
- 5 Submitting Jobs 4
- 6 Debugging Applications 5
- 7 Tuning Applications 5
- 8 Using SLURM 5
- 9 Using LSF 5
- 10 Advanced Topics 6
- List of Figures 7
- List of Tables 9
- List of Examples 11
- About This Document 13
- HP XC Information 14
- For More Information 15
- Supplementary Information 15
- Related Information 16
- Related Linux Web Sites 17
- Related MPI Web Sites 17
- Related Compiler Web Sites 17
- Additional Publications 17
- Typographic Conventions 18
- HP Encourages Your Comments 18
- System Architecture 19
- Node Specialization 20
- Storage and I/O 20
- File System 21
- System Interconnect Network 22
- User Environment 23
- Run-Time Environment 24
- Standard LSF 25
- 2 Using the System 27
- Introduction 28
- 30 Using the System 30
- Overview of Modules 31
- Supplied Modulefiles 32
- Viewing Available Modulefiles 33
- Viewing Loaded Modulefiles 33
- Loading a Modulefile 33
- Unloading a Modulefile 34
- Modulefile Conflicts 34
- Creating a Modulefile 35
- 4 Developing Applications 37
- Interrupting a Job 38
- Setting Debugging Options 39
- Modulefiles 40
- Standard 41
- 42 Developing Applications 42
- Developing Libraries 43
- 44 Developing Applications 44
- 46 Submitting Jobs 46
- 48 Submitting Jobs 48
- Compiling applications 49
- HP-MPI User's Guide 49
- 50 Submitting Jobs 50
- Running Preexecution Programs 51
- 52 Submitting Jobs 52
- SSH and TotalView 54
- Setting Up TotalView 54
- Using TotalView with SLURM 54
- Using TotalView with LSF-HPC 55
- Setting TotalView Preferences 55
- Debugging an Application 55
- TotalView process window 56
- Exiting TotalView 57
- 60 Tuning Applications 60
- The srun Roles and Modes 64
- Job Accounting 65
- Fault Tolerance 66
- Security 66
- Overview of LSF-HPC 68
- Using LSF-HPC 69 69
- Job Terminology 70
- Using LSF-HPC 71 71
- Notes on LSF-HPC 72
- Using LSF-HPC 73 73
- Job Startup and Job Control 74
- Preemption 75
- Getting Host Load Information 76
- Submitting Jobs 77
- LSF-SLURM External Scheduler 78
- Using LSF-HPC 79 79
- 80 Using LSF 80
- Examining the Status of a Job 81
- 82 Using LSF 82
- Using LSF-HPC 83 83
- 84 Using LSF 84
- Using LSF-HPC 85 85
- 86 Using LSF 86
- Using LSF-HPC 87 87
- 88 Using LSF 88
- Using LSF-HPC 89 89
- 92 Advanced Topics 92
- 94 Advanced Topics 94
- Example Procedure 1 95
- Example Procedure 2 95
- Local Disks on Compute Nodes 96
- Communication Between Nodes 97
- Appendix A Examples 99
- Submit the job: 100
- View the job: 100
- 102 Examples 102
- Show the environment: 103
- Display the script: 103
- Run the job: 103
- Show the SLURM job ID: 104
- Show the job allocation: 104
- Exit the pseudo-terminal: 105
- View the interactive jobs: 105
- View the finished jobs: 105
- View the node state: 105
- View the running job: 106
- View the finished job: 106
- Glossary 109
- 110 Glossary 110
- 112 Glossary 112
- 116 Index 116
- 118 Index 118
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