PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PhD Seminar Series Introduction
Chris Cantwell
Mathematics Institute, University of Warwick
January 2008
Outline
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Introduction
Organisation
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
PhD Seminar Series
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
I
Series of informal seminars run for Masters and PhD
students.
I
Main purpose is not to discuss our research.
I
Share knowledge and experience.
I
Provide practical examples of common numerical
methods.
I
. . . but remain as language-independant as
possible. . .
I
Help students in the ’CSC suburbs’ who may not
have as much peer support.
I
Provide a friendly atmosphere for improving
presentation skills.
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Topics Covered
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Some of the topics we hope to cover over the term are:
Introduction
Organisation
PBS and CSC
I
Using CSC resources
I
I
I
Numerical libraries and how to use them in your own
research
I
I
I
I
Clusters and CSCs systems
PBS
Linear Algebra: BLAS, LAPACK
Fourier Transform: FFTW
Others. . .
Scientific Packages
I
I
Mathematics: Mathematica, MATLAB and Maple
LaTeX, Beamer
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Topics Covered
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Some of the topics we hope to cover over the term are:
Introduction
Organisation
PBS and CSC
I
Using CSC resources
I
I
I
Numerical libraries and how to use them in your own
research
I
I
I
I
Clusters and CSCs systems
PBS
Linear Algebra: BLAS, LAPACK
Fourier Transform: FFTW
Others. . .
Scientific Packages
I
I
Mathematics: Mathematica, MATLAB and Maple
LaTeX, Beamer
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Topics Covered
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Some of the topics we hope to cover over the term are:
Introduction
Organisation
PBS and CSC
I
Using CSC resources
I
I
I
Numerical libraries and how to use them in your own
research
I
I
I
I
Clusters and CSCs systems
PBS
Linear Algebra: BLAS, LAPACK
Fourier Transform: FFTW
Others. . .
Scientific Packages
I
I
Mathematics: Mathematica, MATLAB and Maple
LaTeX, Beamer
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Outline
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Introduction
Organisation
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
Organisation
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
I
PS017a ’fishbowl’
I
Breakfast provided!
I
Initially on even weeks.
Will be held weekly if enough speakers confirmed.
Any volunteers? :-)
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Organisation
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
I
PS017a ’fishbowl’
I
Breakfast provided!
I
Initially on even weeks.
Will be held weekly if enough speakers confirmed.
Any volunteers? :-)
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
This session
PhD Seminar
Series Introduction
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
The remainder of this session will discuss PBS
- a key software tool used for managing computation jobs
on CSCs systems. . .
Conclusion
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS Pro and CSC
Chris Cantwell
Mathematics Institute, University of Warwick
January 2008
Outline
PBS Pro and CSC
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Organisation
Introduction
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
What is PBS?
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
PBS stands for Portable Batch System
Overview
Submitting and Monitoring
Jobs
Working with Jobs
I
Set of queues
I
Jobs are placed in one queue
I
A job is a script
I
Each job specifies a set of required resources
I
Jobs are executed when sufficient resources
available
More PBS fun
Conclusion
Where is PBS used?
A rough guide. . .
I
CoW
I
I
I
I
I
I
SGI Altix (skua.csc.warwick.ac.uk)
I
I
I
I
I
’Cluster of Workstations’.
184 (as of yesterday) individual desktop computers.
Many different architectures and specifications.
Mainly for serial codes
Everyone with a CSC account has access
Shared memory machine (112GB) with 56
processors.
Single OS image across all processors.
Mainly for highly parallel or large memory codes.
Access must be granted.
New Cluster. . .
I
I
I
I
I
Collection of 240 identical hosts.
Each with two dual-core processors = 960 cores.
Separate memory for each host.
Suitable for parallel or serial codes.
Access must be granted.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Where is PBS used?
A rough guide. . .
I
CoW
I
I
I
I
I
I
SGI Altix (skua.csc.warwick.ac.uk)
I
I
I
I
I
’Cluster of Workstations’.
184 (as of yesterday) individual desktop computers.
Many different architectures and specifications.
Mainly for serial codes
Everyone with a CSC account has access
Shared memory machine (112GB) with 56
processors.
Single OS image across all processors.
Mainly for highly parallel or large memory codes.
Access must be granted.
New Cluster. . .
I
I
I
I
I
Collection of 240 identical hosts.
Each with two dual-core processors = 960 cores.
Separate memory for each host.
Suitable for parallel or serial codes.
Access must be granted.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Where is PBS used?
A rough guide. . .
I
CoW
I
I
I
I
I
I
SGI Altix (skua.csc.warwick.ac.uk)
I
I
I
I
I
’Cluster of Workstations’.
184 (as of yesterday) individual desktop computers.
Many different architectures and specifications.
Mainly for serial codes
Everyone with a CSC account has access
Shared memory machine (112GB) with 56
processors.
Single OS image across all processors.
Mainly for highly parallel or large memory codes.
Access must be granted.
New Cluster. . .
I
I
I
I
I
Collection of 240 identical hosts.
Each with two dual-core processors = 960 cores.
Separate memory for each host.
Suitable for parallel or serial codes.
Access must be granted.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Why use PBS?
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
Mainly useful for long jobs you don’t want to leave
running on your laptop.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
I
Harness idle computing power.
I
Easily share the available computing resources of
CSC.
I
Optimise the use of those resources.
I
Allows fair usage for all users.
I
Simplifies running code on multiple hosts.
Conclusion
Using PBS
PBS Pro and CSC
Chris Cantwell
So, you want to run your code on the CoW?
PhD Seminars
Introduction
Organisation
From our user perspective, PBS is just a set of utilities for
managing jobs and a ’black-box’ server which schedules
the jobs and runs them.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
To use PBS, we can either use:
I
A set of command-line utilities - mainly qsub,
qstat, qdel, qalter, etc
I
A Graphical Interface - xpbs
Command-line utilities are preferable if you are confident
with them.
For the purpose of demonstrations in this session, we will
use the CoW.
Conclusion
A Quick Glossary of Terms
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
I
job - a single unit of work
I
queue - a named, ordered, container for jobs within a
server.
I
vnode - virtual node, a set of usable resources on a
machine.
I
host - a machine with its own OS having one or more
vnodes.
I
chunk - a set of resources allocated to a job.
Chunks can be split across vnodes but not hosts.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
A Diagramatic explanation of chunk
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
vnode1
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
vnode2
vnode3
Host
Outline
PBS Pro and CSC
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Organisation
Introduction
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
Submitting a job
PBS Pro and CSC
Chris Cantwell
First write a PBS script which does the job you want
done.
PhD Seminars
Introduction
Organisation
PBS and CSC
I
A PBS script is just a normal script!
Overview
I
Usually a shell script (e.g. bash)
Working with Jobs
I
Use special comments to give instructions to PBS
such as what resources your job requires.
Conclusion
Submit the script to the PBS system
I
Use the qsub command.
qsub <script-name>
I
Can also specify resources on the command-line.
I
If qsub runs successfully, it will return a Job ID.
I
Use this ID with other PBS commands.
Submitting and Monitoring
Jobs
More PBS fun
Submitting a job
PBS Pro and CSC
Chris Cantwell
First write a PBS script which does the job you want
done.
PhD Seminars
Introduction
Organisation
PBS and CSC
I
A PBS script is just a normal script!
Overview
I
Usually a shell script (e.g. bash)
Working with Jobs
I
Use special comments to give instructions to PBS
such as what resources your job requires.
Conclusion
Submit the script to the PBS system
I
Use the qsub command.
qsub <script-name>
I
Can also specify resources on the command-line.
I
If qsub runs successfully, it will return a Job ID.
I
Use this ID with other PBS commands.
Submitting and Monitoring
Jobs
More PBS fun
Submitting a job
PBS Pro and CSC
Chris Cantwell
First write a PBS script which does the job you want
done.
PhD Seminars
Introduction
Organisation
PBS and CSC
I
A PBS script is just a normal script!
Overview
I
Usually a shell script (e.g. bash)
Working with Jobs
I
Use special comments to give instructions to PBS
such as what resources your job requires.
Conclusion
Submit the script to the PBS system
I
Use the qsub command.
qsub <script-name>
I
Can also specify resources on the command-line.
I
If qsub runs successfully, it will return a Job ID.
I
Use this ID with other PBS commands.
Submitting and Monitoring
Jobs
More PBS fun
Which queue will my job go in?
PBS Pro and CSC
Chris Cantwell
PhD Seminars
qsub will choose the best queue based on the resources
you’ve asked for.
Introduction
Organisation
PBS and CSC
Overview
For example, the queues on the CoW include
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
I
serial short
I
serial long
I
mpi short and mpi long
I
and some others. . .
You can force a job into a specific queue
I
Some research groups have their own queues.
I
Best just to let PBS do its job!
Conclusion
Example 1
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Here is a simple PBS script for use on the CoW.
#!/bin/bash
#PBS -l select=1:ncpus=1,mem=100mb
#PBS -l walltime=00:10:00
#PBS -V
sleep 120
I
First line specifies script interpretter.
I
Lines beginning with hash are comments.
I
except such lines starting with #PBS.
I
These specify instructions to the PBS system.
I
-l indicates we’re giving PBS a resource list.
I
More details to follow. . .
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Example 1
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Here is a simple PBS script for use on the CoW.
#!/bin/bash
#PBS -l select=1:ncpus=1,mem=100mb
#PBS -l walltime=00:10:00
#PBS -V
sleep 120
I
First line specifies script interpretter.
I
Lines beginning with hash are comments.
I
except such lines starting with #PBS.
I
These specify instructions to the PBS system.
I
-l indicates we’re giving PBS a resource list.
I
More details to follow. . .
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Example 1
PBS Pro and CSC
Chris Cantwell
#PBS -l select=1:ncpus=1,mem=100mb
PhD Seminars
Introduction
Organisation
I
select indicates we are asking for one or more
chunks.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
I
ncpus specify the number of processors required.
I
mem specifies the amount of memory (mb, gb).
#PBS -l walltime=00:10:00
I
We ask for 10 minutes of walltime
I
This is different from CPU time (cput).
These are the usual resources requested when
submitting a simple serial job, otherwise your job won’t be
able to do much!
More PBS fun
Conclusion
Monitoring your jobs
PBS Pro and CSC
Chris Cantwell
To monitor jobs, use the qstat command.
PhD Seminars
Introduction
Organisation
I
By default, shows all jobs in all queues.
I
Command-line switches can be used to tailor display
to our needs.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
I
e.g. to display your jobs:
A more detailed view of a specific job can be seen using
the -f switch and a Job ID.
qstat -f <job-id>
Let’s run a job and see what else is running on the CoW
at the moment. . .
Example: simple.pbs
Conclusion
Monitoring your jobs
PBS Pro and CSC
Chris Cantwell
To monitor jobs, use the qstat command.
PhD Seminars
Introduction
Organisation
I
By default, shows all jobs in all queues.
I
Command-line switches can be used to tailor display
to our needs.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
I
e.g. to display your jobs:
A more detailed view of a specific job can be seen using
the -f switch and a Job ID.
qstat -f <job-id>
Let’s run a job and see what else is running on the CoW
at the moment. . .
Example: simple.pbs
Conclusion
Job Output
PBS Pro and CSC
Chris Cantwell
As well as any output files your job might produce, PBS
will always create two files:
[job-name].o[job-id] and
[job-name].e[job-id]
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
I
These contain everything sent to the UNIX files
stdout and stderr, respectively.
I
i.e. everything that would normally be output to the
terminal by your PBS script and code.
If your job fails to run correctly, these two files are
invaluable in determining the cause.
Any files produced by your program will be output into
your home directory (unless you use an absolute path!).
Example: fileout.pbs
More PBS fun
Conclusion
Environmental Variables
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
I
By default any environmental variables defined on
your local machine aren’t necessarily replicated to
the job.
I
Use #PBS -V to transfer all currently defined
variables to your job.
I
Can specify variables manually:
#PBS -v myvar=myvalue
Example: envvar.pbs
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Outline
PBS Pro and CSC
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Organisation
Introduction
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
Altering a Job
You can alter properties or the resource requests for a job
after it has been submitted.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
I
I
I
Your new request must satisfy the limits of the queue
it is in.
If your job has started running, can only change
cput and walltime resources.
. . . and then can only reduce these.
Alter a job using the qalter command.
For example change the name and reduce the walltime:
qalter -N mynewjobname
qalter -lwalltime=00:10:00
Example: Lets change the name of another job long.pbs
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Altering a Job
You can alter properties or the resource requests for a job
after it has been submitted.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
I
I
I
Your new request must satisfy the limits of the queue
it is in.
If your job has started running, can only change
cput and walltime resources.
. . . and then can only reduce these.
Alter a job using the qalter command.
For example change the name and reduce the walltime:
qalter -N mynewjobname
qalter -lwalltime=00:10:00
Example: Lets change the name of another job long.pbs
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Deleting a job
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
You can delete a queued or running job if necessary.
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
I
For this use the qdel command and the Job ID.
qdel [job-id]
I
Clearly you can’t delete other people’s jobs!
Example: Lets delete long.pbs
Outline
PBS Pro and CSC
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Organisation
Introduction
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
Choosing specific resources
PBS Pro and CSC
Chris Cantwell
Our previous example requested a computer with one
processor and 100MB of RAM available.
PhD Seminars
Introduction
Organisation
PBS and CSC
Overview
I
I
Can choose specific hardware architecture on which
to run your code.
Useful if you have compiled your code on a specific
architecture.
#PBS -l select=1:ncpus=1:x86 64=true
This requests a single 64-bit processor.
Can also request a specific network to run your job on
#PBS -l select=1:ncpus=1:astro=true
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Other Useful Switches
PBS Pro and CSC
Chris Cantwell
PhD Seminars
I
PBS can email you when your job reach certain
stages. These are:
I
I
I
I
a - Your job is aborted by the system.
b - Your job begins.
e - Your job ends.
n - Don’t send any email.
Specify a string indicating when PBS should send
email using -m switch. #PBS -m ae
Then specify an email address to send to:
#PBS -M someone@somewhere.com
I
Redirect output and error files using the #PBS -o
and #PBS -e switches.
Example: switch.pbs
Introduction
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Selecting a Queue
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
By default, PBS will choose the most appropriate queue
for your job based on your chosen resources.
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
I
Some research groups have their own queues.
I
These may operate on their own computing
resources.
I
You should only select a queue if you’ve been told to
use a specific queue.
Selecting a Queue
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
By default, PBS will choose the most appropriate queue
for your job based on your chosen resources.
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
I
Some research groups have their own queues.
I
These may operate on their own computing
resources.
I
You should only select a queue if you’ve been told to
use a specific queue.
Moving a Job to a different Queue
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
A job can also be moved to a different queue after it has
been submitted.
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
I
Use the qmove command.
I
Specify the new queue, and the job to move.
I
Job must satisfy requirements of destination queue.
For example:
qmove myqueue 12345.foo
Conclusion
Job Arrays
These allow multiple jobs which differ only by a single
index to be managed as a single unit.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
I
I
I
Use a script in the same way as with single jobs.
Differentiate each subjob using the
$PBS ARRAY INDEX and $PBS JOBID shell
variables.
All other parameters are identical.
To create a job array use the #PBS -J [X]-[Y]:[Z]
switch.
I
I
I
X - Starting index
Y - Ending index (inclusive)
Z - Optional step
Can use the array index as an index to an array of
parameters in the script.
Examples: array.pbs, array2.pbs
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Job Arrays
These allow multiple jobs which differ only by a single
index to be managed as a single unit.
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
I
I
I
Use a script in the same way as with single jobs.
Differentiate each subjob using the
$PBS ARRAY INDEX and $PBS JOBID shell
variables.
All other parameters are identical.
To create a job array use the #PBS -J [X]-[Y]:[Z]
switch.
I
I
I
X - Starting index
Y - Ending index (inclusive)
Z - Optional step
Can use the array index as an index to an array of
parameters in the script.
Examples: array.pbs, array2.pbs
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Submitting MPI Jobs
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
I
I
I
Request resources, for example
#PBS -l select=10:ncpus=1:mem=2gb
The resources of each chunk is the amount of
resources required for each rank of your MPI job.
You can optionally place the chunks depending on
the requirements of your job. Options are:
I
I
I
free - chunks can be placed any host (default).
pack - all chunks are on the same host.
scatter - all chunks are from separate hosts.
e.g. #PBS -l place=pack
Note: Currently when running MPI jobs, you need to
confine your job to a single network.
Organisation
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
Outline
PBS Pro and CSC
Chris Cantwell
PhD Seminars
PhD Seminars
Introduction
Organisation
Introduction
PBS and CSC
Overview
Organisation
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
PBS and CSC
Overview
Submitting and Monitoring Jobs
Working with Jobs
More PBS fun
Conclusion
Conclusion
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
This is only an overview of the most common ways of
using PBS. We’ve covered:
PBS and CSC
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
I
Writing PBS scripts.
I
Submitting and monitoring jobs using qsub and
qstat
I
Managing and altering jobs using qalter and qdel.
I
Using job arrays and multi-processor jobs.
There are many more features available.
Conclusion
Available Resources
PBS Pro and CSC
Chris Cantwell
PhD Seminars
Introduction
Organisation
PBS and CSC
The following resources will be made available for
download and use from the website.
Overview
Submitting and Monitoring
Jobs
Working with Jobs
More PBS fun
Conclusion
I
This presentation
I
A PBS Quick Reference.
I
All the examples shown today.
Also use the CSC User Forum if you have questions:
Local → User Forum
PBS Pro and CSC
References
Chris Cantwell
PhD Seminars
Introduction
Some places to find additional information:
Organisation
PBS and CSC
Overview
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CSC Website
Submitting and Monitoring
Jobs
Working with Jobs
www.csc.warwick.ac.uk
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PBS Professional 9.1 User’s Guide, Altair, October
24th 2007.
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Information on the CoW:
Local → Desktop Computing → Support → CoW
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To use the CoW you need a CSC computer account
Local → Desktop Computing → Your Account →
Application Form
More PBS fun
Conclusion