Hp XC System 2.x Software Manuel d'utilisateur Page 87
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- Table des matières
- MARQUE LIVRES
Noté. / 5. Basé sur avis des utilisateurs
To illustrate ho w the external scheduler is used to laun ch an application, consider the followin g
command line, which launches an applicatio n on ten nodes with one task per node:
$ bsub -n 10 -ext "SLURM[nodes=10]" srun my_app
The following comm and line laun ches the same application, also on ten nodes, but stipulates
that node n16 should not be used:
$ bsub -n 10 -ext "SLURM[nodes=10;exclude=n16]" srun my_app
7.1.3 Notes on LSF-HPC
The follo win g are noteworthy items for users of LSF-HPC on HP XC systems:
• You must run jobs as a non-root user such as lsfadmin or any other local user; do not
run jobs as the root user.
• A SLURM partition named lsf is used to manage LSF jobs. You can view information
about this partition with the sinfo command.
• LSF daemons only run on one node in th e HP XC system. As a result, t he lshosts
and bhosts commands on ly list one host that represents all the r esources of the HP XC
system. The total numb er of CPUs for that host should be equal to the total number o f CPUs
found in the nodes assigned to t he SLURM lsf partition.
The total number of processors for that host should be equal to the total number of
processors assigned to the SLURM lsf partition.
• When a job is submitted and the resources are available, LSF-HPC creates a properly sized
SLURM allocation and adds several standard LSF environm ent variables to the environm e nt
in which the job is to b e run. The following two environment variables are also added:
SLURM_JOBID
This environment variable is created so that subsequent srun
commands make use of the SLURM allocation created by
LSF-HPC for the job. This variable can be used by a job script to
query information about the SLURM allocation , as shown here:
$ squeue --jobs $SLURM_JOBID
SLURM_NPROCS
This environm ent variable passes along the total number of
tasks requested with the bsub -n comm and to all subsequent
srun comm ands. User scrip ts can override this v alue with the
srun -n command, but the new value must be less than or
equal to the original num ber of requested tasks.
• LSF-HPC dispatches all jobs locally. The default installation of LSF-HPC for SLURM
on the HP XC system provides a job starter script that is configured for use by all
LSF-HPC q ueues. This job start er script adjusts the LSB_HOSTS and LSB_MCPU_HOSTS
environment variables to the correct resource valu es in the allo cation. Then, the job starter
script uses the srun command to launch the user task on the first node in the allocation.
If this job starter script is not configured for a queue, the user jobs begin execution locally
on the L SF-H PC execution host. In this case, it is recommended that the user job uses one
or more srun commands to make use of the resources allocated to the job. Work done
on the LSF-HPC execution host competes for CPU time with the LSF-HPC daemons, and
could affect the overall performance of LSF-HPC on the HP XC system.
The bqueues -l command displays the full queue configuration, including whether or
not a job starter script has been configured. See the Platform LSF docu men tation or the
bqueues
(1) manp age for more information on the use of this command.
For example, consider an LSF-HPC LSF configuration in which nod e n20 is the LSF-HPC
execution host and nodes n[1-10] are in the SLURM lsf part ition. The default normal
Using LSF 7-3
- HP XC System Software 1
- Contents 3
- 3 Developing Applications 4
- 4 Debugging Applications 5
- 5 Tuning Applications 5
- 6UsingSLURM 5
- 8UsingHP-MPI 6
- 7 Using LSF 6
- 9UsingHPMLIB 7
- 10 Advanced Topics 8
- AExamples 8
- About This Document 11
- HP XC Inform ation 12
- For M ore Information 13
- Supplementary Information 13
- Manpages 14
- Related Information 15
- Typographical Conventions 16
- HP Encourages Your Comments 17
- 1.1 System Architecture 19
- 1.1.3 Storage and I/O 20
- 1.1.4 File System 20
- 1.2 User Environment 22
- 1.3.1 Parallel Applications 23
- 1.3.2 Serial Applications 23
- 1.4 Run-Time E nvironment 24
- 1.4.4 HP-MPI 25
- Using the System 27
- 2.2.1 Notes on Modulefiles 28
- 2.2.2 Supplied Modulefiles 29
- 2.2.6 Loading a Modulefile 30
- 2.2.7 Unloading a M odulefile 31
- 2.2.8 Modulefile Conflicts 31
- 2.2.9 Creating a Mod u lefile 32
- 2.3.1 Introduction 33
- 2.3.5 Launching Jobs 34
- $ man sinfo 39
- $ man -k keyword 39
- Using the System 2-13 39
- Developing Applications 41
- 3.2 Using Compilers 42
- 3.4 Interrupting a Job 43
- 3-4 Developing Applications 44
- Developing Applications 3-5 45
- 3-6 Developing Applications 46
- Developing Applications 3-7 47
- $ module load mpi 48
- $ mpicc -o mycode hello.c 48
- $ mpif90 -o mycode hello.f 48
- 3-8 Developing Applications 48
- 3.8 Developing Libraries 49
- 3.9 Advanced To pics 50
- 3-14 Deve loping Applications 54
- Developing Applications 3-15 55
- Debugging Applications 57
- 4-2 D ebugging Applications 58
- $ totalview 60
- 4-4 D ebugging Applications 60
- Debugging Applications 4-5 61
- 4-6 D ebugging Applications 62
- -verbosity %V %F" 63
- Debugging Applications 4-7 63
- 4-8 D ebugging Applications 64
- Etnus TotalView Version# 65
- Debugging Applications 4-9 65
- $ mpirun -srun -n2 Psimple 66
- 4-10 Debugging Applications 66
- $ squeue 67
- $ scancel --user username 67
- Debugging Applications 4-11 67
- Tuning Applications 69
- Using SLURM 71
- $ srun -N 16 -b myscript.sh 73
- $ srun -A -N 4 myscript.sh 73
- $ srun -a 6543 -j 73
- Using SLURM 6-3 73
- 6.4.2 srun Signal Handling 74
- 6.4.3 srun Run-Mode Options 74
- Using SLURM 6-5 75
- 6-6 Using SLURM 76
- 6.4.5 srun Control Options 77
- 6.4.6 srun I/O Options 78
- Using SLURM 6-9 79
- 6.4.7 srun Constraint Options 80
- Using SLURM 6-11 81
- 6.4.9 Using srun with HP-MPI 82
- 6.4.10 Using srun with LSF 82
- 6.8 Job Accounting 84
- 6.9 Fault Tolerance 84
- 6.10 Security 84
- Using LSF 85
- 7.1.2 Topology Support 86
- 7.1.3 Notes on LSF-HPC 87
- SLURM_JOBID=53 89
- SLURM_NPROCS=4 89
- 7-6 Using LSF 90
- 7.3.1 Getting Status of LSF 91
- $ bhosts 92
- 7-8 Using LSF 92
- 7.4 Submitting Jobs 93
- 7.4.3 Submitting a Serial Job 97
- Using LSF 7-17 101
- 7-18 Using LSF 102
- Using HP-MPI 111
- 8.3.3 Using srun with HP-MPI 114
- 8.3.4 Using LSF and HP-MPI 116
- 8.3.5 MPI Versioning 117
- 8.6 Truncated Messages 118
- 8.5 32-Bit B uilds on XC4000 118
- Using HP-MPI 8-9 119
- 8.9 Environment Variables 120
- 8.9.5 MPI_PIN_PERCENTAGE 121
- 8.9.6 MPI_PAGE_ALIGN_MEM 121
- 8.9.7 MPI_MAX_WINDOW 121
- 8.9.8 MPI_ELANLOCK 121
- 8.9.9 MPI_USE_LIBELAN 121
- 8.9.10 MPI_USE_LIBELAN_SUB 122
- Work-arounds 124
- Using HP MLIB 125
- 9.1.2 MLIB and Module Files 126
- 9.2.1 Platform Sup port 126
- 9.2.2 Library Support 126
- 9.2.3 MPI Parallelism 126
- 9.2.4 Modulefiles and MLIB 127
- 9.2.6 Compiling and Linking 127
- 9.2.7 Licensing 128
- 9.2.8 MLIB Man pages 128
- 9.3.1 Platform Sup port 128
- 9.3.2 Library Support 128
- 9.3.3 MPI Parallelism 129
- 9.3.4 Modulefiles and MLIB 129
- 9.3.5 Compiling and Linking 129
- 9.3.6 Licensing 130
- 9.3.7 MLIB Man pages 130
- Advanced Topics 131
- Examples 135
- $ lshosts 140
- Show the environment: 142
- Run the job: 142
- View the running job: 142
- View the finished job: 142
- Examples A-9 143
- Glossary 145
- Glossary-2 146
- Glossary-3 147
- Glossary-4 148
- Glossary-5 149
- Glossary-6 150
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