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Condor Project
Computer Sciences Department
University of Wisconsin-Madison
condor-admin@cs.wisc.edu
http://www.cs.wisc.edu/condor
Using Condor
An Introduction
Condor
2
http://www.cs.wisc.edu/condor
Tutorial Outline
›The story of Frieda, the scientist
›Using Condor to manage jobs
›Using Condor to manage resources
›Condor architecture and mechanisms
›Condor on the grid
Flocking
Condor and other grid technologies
›Stop me if you have any questions!
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http://www.cs.wisc.edu/condor
Meet Frieda.
She is a
scientist with
a big problem.
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http://www.cs.wisc.edu/condor
Frieda’s Application …
Run a Parameter Sweep of F(x,y,z) for 20
values of x, 10 values of y and 3 values of z
20×10×3 = 600 combinations
F takes on the average 6 hours to compute on a
“typical” workstation (total = 600 × 6 = 3600 hours)
F requires a “moderate” (256MB) amount of
memory
F performs “moderate” I/O - (x,y,z) is 5 MB and
F(x,y,z) is 50 MB
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http://www.cs.wisc.edu/condor
I have 600
simulations to run.
Where can I get
help?
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http://www.cs.wisc.edu/condor
While sharing a beverage with
some colleagues, she shares her
problem. Somebody asks “Have
you tried Condor? It’s free.”
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http://www.cs.wisc.edu/condor
Getting Condor
› Available as a free download from
http://www.cs.wisc.edu/condor
› Download Condor for your operating
system
Available for most UNIX (including Linux
and Apple’s OS/X) platforms
Also for Windows NT / XP
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http://www.cs.wisc.edu/condor
Condor Releases
› Stable / Developer Releases
Version numbering scheme similar to
that of the (pre 2.6) Linux kernels …
Major.minor.release
• Minor is even (a.b.c): Stable
– Examples: 6.6.3, 6.8.4, 6.8.5
– Very stable, mostly bug fixes
• Minor is odd (a.b.c): Developer
– New features, may have some bugs
– Examples: 6.7.11, 6.9.1, 6.9.2
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http://www.cs.wisc.edu/condor
Frieda Installs a “Personal
Condor” on her machine…
› What do we mean by a “Personal” Condor?
Condor on your own workstation
No root / administrator access required
No system administrator intervention needed
› After installation, Frieda submits her jobs
to her Personal Condor…
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http://www.cs.wisc.edu/condor
personal
Condor
F(3,4,5)
600 Condor
jobs
Frieda's
workstation
Frieda’s Condor Pool
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http://www.cs.wisc.edu/condor
Personal Condor?!
What’s the benefit of a
Condor “Pool” with just one
user and one machine?
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http://www.cs.wisc.edu/condor
Your Personal Condor will ...
› Keep an eye on your jobs and will keep you
posted on their progress
› Implement your policy on the execution
order of the jobs
› Keep a log of your job activities
› Add fault tolerance to your jobs
› Implement your policy on when the jobs can
run on your workstation
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http://www.cs.wisc.edu/condor
Definitions
› Job
The Condor representation of your work
› Machine
The Condor representation of computers
and that can perform the work
› Match Making
Matching a job with a machine “Resource”
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http://www.cs.wisc.edu/condor
Job
Jobs state their requirements and
preferences:
I need a Linux/x86 platform
I want the machine with the most memory
I prefer a machine in the chemistry
department
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http://www.cs.wisc.edu/condor
Machine
Machines state their requirements and
preferences:
Run jobs only when there is no keyboard
activity
I prefer to run Frieda’s jobs
I am a machine in the physics department
Never run jobs belonging to Dr. Smith
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http://www.cs.wisc.edu/condor
The Magic of Matchmaking
› Jobs and machines state their
requirements and preferences
› Condor matches jobs with machines
based on requirements and preferences
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http://www.cs.wisc.edu/condor
Getting Started:
Submitting Jobs to Condor
› Overview:
Choose a “Universe” for your job
Make your job “batch-ready”
Create a submit description file
Run condor_submit to put your job in the
queue
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1. Choose the “Universe”
› Controls how Condor handles jobs
› Choices include:
Vanilla
Standard
Grid
Java
Parallel
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Using the Vanilla Universe
• The Vanilla Universe:
– Allows running almost
any “serial” job
– Provides automatic file
transfer, etc.
– Like vanilla ice cream
• Can be used in just
about any situation
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2. Make your job batch-
ready
Must be able to run in
the background
• No interactive input
• No windows
• No GUI
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Make your job batch-ready
(continued)…
Job can still use STDIN, STDOUT, and
STDERR (the keyboard and the screen),
but files are used for these instead of
the actual devices
Similar to UNIX shell:
• $ ./myprogram <input.txt >output.txt
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3. Create a Submit
Description File
› A plain ASCII text file
› Condor does not care about file extensions
› Tells Condor about your job:
Which executable, universe, input, output and error
files to use, command-line arguments, environment
variables, any special requirements or preferences
(more on this later)
› Can describe many jobs at once (a “cluster”),
each with different input, arguments, output,
etc.
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Simple Submit Description
File
# Simple condor_submit input file
# (Lines beginning with # are comments)
# NOTE: the words on the left side are not
# case sensitive, but filenames are!
Universe = vanilla
Executable = my_job
Output = output.txt
Queue
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4. Run condor_submit
› You give condor_submit the name of
the submit file you have created:
condor_submit my_job.submit
› condor_submit:
Parses the submit file, checks for errors
Creates a “ClassAd” that describes your
job(s)
Puts job(s) in the Job Queue
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ClassAd ?
› Condor’s internal data representation
Similar to classified ads (as the name
implies)
Represent an object & its attributes
• Usually many attributes
Can also describe what an object
matches with
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Example:
MyType = "Job"
TargetType = "Machine"
ClusterId = 1377
Owner = "roy"
Cmd = "sim.exe"
Requirements =
(Arch == "INTEL")
&& (OpSys == "LINUX")
&& (Disk >= DiskUsage)
&& ((Memory * 1024)>=ImageSize)
…
ClassAd Example
String
Number
Boolean
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Example Submit Description
File With Logging
# Example condor_submit input file
# (Lines beginning with # are comments)
# NOTE: the words on the left side are not
# case sensitive, but filenames are!
Universe = vanilla
Executable = /home/frieda/condor/my_job.condor
Log = my_job.log ·Job log (from Condor)
Input = my_job.in ·Program’s standard input
Output = my_job.out ·Program’s standard output
Error = my_job.err ·Program’s standard error
Arguments = -a1 -a2 ·Command line arguments
InitialDir = /home/frieda/condor/run
Queue
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“Clusters” and “Processes”
› If your submit file describes multiple jobs, we call
this a “cluster”
› Each cluster has a unique “cluster number”
› Each job in a cluster is called a “process”
 Process numbers always start at zero
› A Condor “Job ID” is the cluster number, a period,
and the process number (i.e. 2.1)
 A cluster can have a single process
• Job ID = 20.0 ·Cluster 20, process 0
 Or, a cluster can have more than one process
• Job ID: 21.0, 21.1, 21.2 ·Cluster 21, process 0, 1, 2
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Submit File for a Cluster
# Example submit file for a cluster of 2 jobs
# with separate input, output, error and log files
Universe = vanilla
Executable = my_job
Arguments = -x 0
log = my_job_0.log
Input = my_job_0.in
Output = my_job_0.out
Error = my_job_0.err
Queue ·Job 2.0 (cluster 2, process 0)
Arguments = -x 1
log = my_job_1.log
Input = my_job_1.in
Output = my_job_1.out
Error = my_job_1.err
Queue ·Job 2.1 (cluster 2, process 1)
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% condor_submit my_job.submit-file
Submitting job(s).
2 job(s) submitted to cluster 2.
% condor_q
-- Submitter: perdita.cs.wisc.edu : <128.105.165.34:1027> :
ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD
1.0 frieda 4/15 06:52 0+00:02:11 R 0 0.0 my_job –a1 –a2
2.0 frieda 4/15 06:56 0+00:00:00 I 0 0.0 my_job –x 0
2.1 frieda 4/15 06:56 0+00:00:00 I 0 0.0 my_job –x 1
3 jobs; 2 idle, 1 running, 0 held
%
Submitting The Job
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Back to our 600 jobs…
› We could put all input, output, error &
log files in the one directory
One of each type for each job
That’d be 2400 files (4 files × 600 jobs)
Difficult to sort through
› Better: Create a subdirectory for
each run
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Organize your files and
directories for big runs
› Create subdirectories for each “run”
run_0, run_1, … run_599
› Create input files in each of these
run_0/simulation.in
run_1/simulation.in
…
run_599/simulation.in
› The output, error & log files for each job
will be created by Condor from your job’s
output
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Frieda’s simulation directory
sim.exe
sim.sub
run_0
run_599
simulation.in
simulation.out
simulation.err
simulation.log
simulation.in
simulation.out
simulation.err
simulation.log
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http://www.cs.wisc.edu/condor
Submit Description File for
600 Jobs
# Cluster of 600 jobs with different directories
Universe = vanilla
Executable = sim
Log = simulation.log
...
Arguments = -x 0
InitialDir = run_0 ·Log, input, output & error files -> run_0
Queue ·Job 3.0 (Cluster 3, Process 0)
Arguments = -x 1
InitialDir = run_1 ·Log, input, output & error files -> run_1
Queue ·Job 3.1 (Cluster 3, Process 1)
·Do this 598 more times…………
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Submit File for a Big Cluster
of Jobs
› We just submitted 1 cluster with 600
processes
› All the input/output files will be in
different directories
› The submit file is pretty unwieldy (over
1200 lines)
› Isn’t there a better way?
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http://www.cs.wisc.edu/condor
Submit File for a Big Cluster
of Jobs (the better way) #1
› We can queue all 600 in 1 “Queue”
command
Queue 600
› Condor provides $(Process) and
$(Cluster)
$(Process) will be expanded to the
process number for each job in the cluster
• 0, 1, … 599
$(Cluster) will be expanded to the
cluster number
• Will be 4 for all jobs in this cluster
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Submit File for a Big Cluster
of Jobs (the better way) #2
› The initial directory for each job can
be specified using $(Process)
InitialDir = run_$(Process)
Condor will expand these to “run_0”,
“run_1”, … “run_599” directories
› Similarly, arguments can be variable
Arguments = -x $(Process)
Condor will expand these to “-x 0”,
“-x 1”, … “-x 599”
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http://www.cs.wisc.edu/condor
Better Submit File for 600
Jobs
# Example condor_submit input file that defines
# a cluster of 600 jobs with different directories
Universe = vanilla
Executable = my_job
Log = my_job.log
Input = my_job.in
Output = my_job.out
Error = my_job.err
Arguments = –x $(Process) ·–x 0, -x 1, … -x 599
InitialDir = run_$(Process) ·run_0 … run_599
Queue 600 ·Jobs 4.0 … 4.599
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http://www.cs.wisc.edu/condor
Now, we submit it…
$ condor_submit my_job.submit
Submitting job(s)
......................................................
......................................................
......................................................
......................................................
.......................................
Logging submit event(s)
......................................................
......................................................
......................................................
......................................................
.......................................
600 job(s) submitted to cluster 4.
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And, Check the queue
$ condor_q
-- Submitter: x.cs.wisc.edu : <128.105.121.53:510> : x.cs.wisc.edu
ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD
4.0 frieda 4/20 12:08 0+00:00:05 R 0 9.8 my_job -arg1 –x 0
4.1 frieda 4/20 12:08 0+00:00:03 I 0 9.8 my_job -arg1 –x 1
4.2 frieda 4/20 12:08 0+00:00:01 I 0 9.8 my_job -arg1 –x 2
4.3 frieda 4/20 12:08 0+00:00:00 I 0 9.8 my_job -arg1 –x 3
...
4.598 frieda 4/20 12:08 0+00:00:00 I 0 9.8 my_job -arg1 –x 598
4.599 frieda 4/20 12:08 0+00:00:00 I 0 9.8 my_job -arg1 –x 599
600 jobs; 599 idle, 1 running, 0 held
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http://www.cs.wisc.edu/condor
Removing jobs
› If you want to remove a job from the
Condor queue, you use condor_rm
› You can only remove jobs that you
own
› Privileged user can remove any jobs
“root” on UNIX
“administrator” on Windows
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Removing jobs (continued)
› Remove an entire cluster:
condor_rm 4 ·Removes the whole cluster
› Remove a specific job from a cluster:
condor_rm 4.0 ·Removes a single job
› Or, remove all of your jobs with “-a”
condor_rm -a ·Removes all jobs / clusters
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Another Universe
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How can my jobs
access their data
files?
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Access to Data in Condor
› Use shared filesystem if available
› No shared filesystem?
Condor can transfer files
• Can automatically send back changed files
• transfer of multiple files
• Can be encrypted over the wire
Remote I/O Socket
Standard Universe can use remote
system calls (more on this later)
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Condor File Transfer
› ShouldTransferFiles = YES
 Always transfer files to execution site
› ShouldTransferFiles = NO
 Rely on a shared filesystem
› ShouldTransferFiles = IF_NEEDED
 Will automatically transfer the files if the submit and
execute machine are not in the same FileSystemDomain
Universe = vanilla
Executable = my_job
Log = my_job.log
ShouldTransferFiles = IF_NEEDED
Transfer_input_files = dataset.$(Process), common.data
Transfer_output_files = TheAnswer.dat
Queue 600
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Specify Requirements
› An expression (syntax similar to C or Java)
› Must evaluate to True for a match to be
made
Universe = vanilla
Executable = my_job
Log = my_job.log
InitialDir = run_$(Process)
Requirements = Memory >= 256 && Disk > 10000
Queue 600
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Advanced Requirements
› Requirements can match custom attributes in your
Machine Ad
 Can be added by hand to each machine
 Or, automatically using the “Hawkeye” mechanism
Universe = vanilla
Executable = my_job
Log = my_job.log
InitialDir = run_$(Process)
Requirements = Memory >= 256 && Disk > 10000 
&& ( HaveProg =!= UNDEFINED && HaveProg) )
Queue 600
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And, Specify Rank
› All matches which meet the requirements
can be sorted by preference with a Rank
expression.
› Higher the Rank, the better the match
Universe = vanilla
Executable = my_job
Log = my_job.log
Arguments = -arg1 –arg2
InitialDir = run_$(Process)
Requirements = Memory >= 256 && Disk > 10000
Rank = (KFLOPS*10000) + Memory
Queue 600
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Check the queue
› Check the queue with condor_q:
bash-2.05a$ condor_q
-- Submitter: x.cs.wisc.edu : <128.105.121.53:510> :x.cs.wisc.edu
ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD
5.0 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 0
5.1 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 1
5.2 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 2
5.3 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 3
5.4 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 4
5.5 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 5
5.6 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 6
5.7 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 7
6.0 frieda 4/20 13:22 0+00:00:00 H 0 9.8 my_job -arg1 –arg2
8 jobs; 8 idle, 0 running, 1 held
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Look at jobs on hold
% condor_q –hold
-- Submiter: x.cs.wisc.edu : <128.105.121.53:510>
:x.cs.wisc.edu
ID OWNER HELD_SINCE HOLD_REASON
6.0 frieda 4/20 13:23 Error from starter
on vm1@skywalker.cs.wisc
9 jobs; 8 idle, 0 running, 1 held
Or, See full details for a job
% condor_q –l 6.0
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http://www.cs.wisc.edu/condor
Check machine status
› Verify that there are idle machines with condor_status:
bash-2.05a$ condor_status
Name OpSys Arch State Activity LoadAv Mem ActvtyTime
vm1@tonic.c LINUX INTEL Claimed Busy 0.000 501 0+00:00:20
vm2@tonic.c LINUX INTEL Claimed Busy 0.000 501 0+00:00:19
vm3@tonic.c LINUX INTEL Claimed Busy 0.040 501 0+00:00:17
vm4@tonic.c LINUX INTEL Claimed Busy 0.000 501 0+00:00:05
Total Owner Claimed Unclaimed Matched Preempting
INTEL/LINUX 4 0 4 0 0 0
Total 4 0 4 0 0 0
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Look in Job Log
› Look in your job log for clues:
bash-2.05a$ cat my_job.log
000 (031.000.000) 04/20 14:47:31 Job submitted from host:
<128.105.121.53:48740>
...
007 (031.000.000) 04/20 15:02:00 Shadow exception!
Error from starter on gig06.stat.wisc.edu: Failed
to open '/scratch.1/frieda/workspace/v67/condor-
test/test3/run_0/my_job.in' as standard input: No such
file or directory (errno 2)
0 - Run Bytes Sent By Job
0 - Run Bytes Received By Job
...
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Still not running?
Exercise a little patience
› On a busy pool, it can take a while
to match and start your jobs
› Wait at least a negotiation cycle
or two (typically 5 minutes)
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Look to condor_q for help:
condor_q -analyze
bash-2.05a$ condor_q -ana 29
---
029.000: Run analysis summary. Of 1243 machines,
1243 are rejected by your job's requirements
0 are available to run your job
WARNING: Be advised:
No resources matched request's constraints
Check the Requirements expression below:
Requirements = ((Memory > 8192)) && (Arch == "INTEL") &&
(OpSys == "LINUX") && (Disk >= DiskUsage) &&
(TARGET.FileSystemDomain == MY.FileSystemDomain)
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Better analysis (Linux only):
condor_q –better-analyze
bash-2.05a$ condor_q -better-ana 29
The Requirements expression for your job is:
( ( target.Memory > 8192 ) ) && ( target.Arch == "INTEL" ) &&
( target.OpSys == "LINUX" ) && ( target.Disk >= DiskUsage ) &&
( TARGET.FileSystemDomain == MY.FileSystemDomain )
Condition Machines Matched Suggestion
--------- ---------------- ----------
1 ( ( target.Memory > 8192 ) ) 0 MODIFY TO 4000
2 ( TARGET.FileSystemDomain == "cs.wisc.edu" )584
3 ( target.Arch == "INTEL" ) 1078
4 ( target.OpSys == "LINUX" ) 1100
5 ( target.Disk >= 13 ) 1243
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Learn about available
resources:
bash-2.05a$ condor_status –const 'Memory > 8192'
(no output means no matches)
bash-2.05a$ condor_status -const 'Memory > 4096'
Name OpSys Arch State Activ LoadAv Mem ActvtyTime
vm1@s0-03.cs. LINUX X86_64 Unclaimed Idle 0.000 5980 1+05:35:05
vm2@s0-03.cs. LINUX X86_64 Unclaimed Idle 0.000 5980 13+05:37:03
vm1@s0-04.cs. LINUX X86_64 Unclaimed Idle 0.000 7988 1+06:00:05
vm2@s0-04.cs. LINUX X86_64 Unclaimed Idle 0.000 7988 13+06:03:47
Total Owner Claimed Unclaimed Matched Preempting
X86_64/LINUX 4 0 0 4 0 0
Total 4 0 0 4 0 0
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Job Policy Expressions
› User can supply job policy expressions in
the submit file.
› Can be used to describe a successful run.
on_exit_remove = <expression>
on_exit_hold = <expression>
periodic_remove = <expression>
periodic_hold = <expression>
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Job Policy Examples
› Do not remove if exits with a signal:
 on_exit_remove = ExitBySignal == False
› Place on hold if exits with nonzero status
or ran for less than an hour:
on_exit_hold = ( (ExitBySignal==False)
&& (ExitSignal != 0) ) || (
(ServerStartTime - JobStartDate) < 3600)
› Place on hold if job has spent more than
50% of its time suspended:
 periodic_hold = CumulativeSuspensionTime >
(RemoteWallClockTime / 2.0)
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Insert ClassAd attributes
› Special purpose usage
› In the submit description file,
introduce an attribute for the job
+Department = biochemistry
causes the ClassAd to contain
Department = ”biochemistry”
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My new jobs run for 20
days…
› What happens when a job is
forced off it’s CPU?
 Preempted by higher priority
user or job
Vacated because of user activity
› How can I add fault tolerance
to my jobs?
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Condor’s Standard Universe
to the rescue!
› Support for transparent process
checkpoint and restart
› Remote system calls (remote I/O)
Your job can read / write files
as if they were local
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Remote System Calls in
the Standard Universe
› I/O system calls are trapped and sent back
to the submit machine
Examples: open a file, write to a file
› No source code changes typically required
› Programming language independent
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Process Checkpointing in the
Standard Universe
› Condor’s process checkpointing provides a
mechanism to automatically save the
state of a job
› The process can then be restarted from
right where it was checkpointed
After preemption, crash, etc.
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Checkpointing:
Process Starts
checkpoint: the entire state of a program,
saved in a file
 CPU registers, memory image, I/O
time
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Checkpointing:
Process Checkpointed
time
1 2 3
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Checkpointing:
Process Killed
time
3
3
Killed!
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Checkpointing:
Process Resumed
time
3
3
goodput badput goodput
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When will Condor
checkpoint your job?
› Periodically, if desired
For fault tolerance
› When your job is preempted by a higher
priority job
› When your job is vacated because the
execution machine becomes busy
› When you explicitly run condor_checkpoint,
condor_vacate, condor_off or
condor_restart command
70
http://www.cs.wisc.edu/condor
Making the Standard
Universe Work
› The job must be relinked with Condor’s
standard universe support library
› To relink, place condor_compile in front of
the command used to link the job:
% condor_compile gcc -o myjob myjob.c
- OR -
% condor_compile f77 -o myjob filea.f fileb.f
- OR -
% condor_compile make –f MyMakefile
71
http://www.cs.wisc.edu/condor
Limitations of the
Standard Universe
› Condor’s checkpointing is not at the kernel
level.
Standard Universe the job may not:
• Fork()
• Use kernel threads
• Use some forms of IPC, such as pipes and shared
memory
› Must have access to source code to relink
› Many typical scientific jobs are OK
72
http://www.cs.wisc.edu/condor
“Grid” Universe
› All handled in your submit file
› Supports a number of “back end” types:
Globus: GT2, GT3, GT4
NorduGrid
UNICORE
Condor
PBS
LSF
73
http://www.cs.wisc.edu/condor
My jobs have have
dependencies…
Can Condor help solve my
dependency problems?
74
http://www.cs.wisc.edu/condor
Frieda learns DAGMan
› Directed Acyclic Graph Manager
› DAGMan allows you to specify the
dependencies between your Condor jobs, so
it can manage them automatically for you.
› (e.g., “Don’t run job “B” until job “A” has
completed successfully.”)
75
http://www.cs.wisc.edu/condor
What is a DAG?
› A DAG is the data structure
used by DAGMan to represent
these dependencies.
› Each job is a “node” in the
DAG.
› Each node can have any
number of “parent” or
“children” nodes – as long as
there are no loops!
Job
A
Job
B
Job
C
Job
D
76
http://www.cs.wisc.edu/condor
Defining a DAG
› A DAG is defined by a .dag file, listing each of its
nodes and their dependencies:
# diamond.dag
Job A a.sub
Job B b.sub
Job C c.sub
Job D d.sub
Parent A Child B C
Parent B C Child D
› each node will run the Condor job specified by its
accompanying Condor submit file
Job A
Job B Job C
Job D
77
http://www.cs.wisc.edu/condor
Submitting a DAG
› To start your DAG, just run
condor_submit_dag with your .dag file,
and Condor will start a personal DAGMan
daemon which to begin running your jobs:
% condor_submit_dag diamond.dag
› condor_submit_dag is run by the schedd
DAGMan daemon itself is “watched” by Condor,
so you don’t have to
78
http://www.cs.wisc.edu/condor
DAGMan
Running a DAG
› DAGMan acts as a “meta-scheduler”,
managing the submission of your jobs to
Condor based on the DAG dependencies.
Condor
Job
Queue
B C
D
A
A
.dag
File
79
http://www.cs.wisc.edu/condor
DAGMan
Running a DAG (cont’d)
› DAGMan holds & submits jobs to the
Condor queue at the appropriate times.
Condor
Job
Queue D
B
C
B
A
C
80
http://www.cs.wisc.edu/condor
Running a DAG (cont’d)
› In case of a job failure, DAGMan continues until it
can no longer make progress, and then creates a
“rescue” file with the current state of the DAG.
Condor
Job
Queue
DAGMan
X
D
A
B
Rescue
File
81
http://www.cs.wisc.edu/condor
Recovering a DAG
› Once the failed job is ready to be re-run,
the rescue file can be used to restore the
prior state of the DAG.
Condor
Job
Queue
Rescue
File
C
DAGMan D
A
B C
82
http://www.cs.wisc.edu/condor
DAGMan
Recovering a DAG (cont’d)
› Once that job completes, DAGMan will
continue the DAG as if the failure never
happened.
Condor
Job
Queue
C
D
A
B
D
83
http://www.cs.wisc.edu/condor
DAGMan
Finishing a DAG
› Once the DAG is complete, the DAGMan
job itself is finished, and exits.
Condor
Job
Queue
C
D
A
B
84
http://www.cs.wisc.edu/condor
Additional DAGMan
Features
› Provides other handy features
for job management…
nodes can have PRE & POST scripts
failed nodes can be automatically re-
tried a configurable number of times
job submission can be “throttled”
85
http://www.cs.wisc.edu/condor
General User Commands
› condor_status View Pool Status
› condor_q View Job Queue
› condor_submit Submit new Jobs
› condor_rm Remove Jobs
› condor_prio Intra-User Prios
› condor_history Completed Job Info
› condor_submit_dag Submit new DAG
› condor_checkpoint Force a checkpoint
› condor_compile Link Condor library
86
http://www.cs.wisc.edu/condor
Condor Job Universes
• Serial Jobs
• Vanilla Universe
• Standard
Universe
• Grid Universe
• Scheduler
• Local Universe
• Java Universe
• Parallel Jobs
• MPI Universe
• PVM Universe
• Parallel Universe
87
http://www.cs.wisc.edu/condor
Why have a special
Universe for Java jobs?
› Java Universe provides more than just
inserting “java” at the start of the execute
line of a vanilla job:
Knows which machines have a JVM installed
Knows the location, version, and performance of
JVM on each machine
Knows about jar files, etc.
Provides more information about Java job
completion than just JVM exit code
• Program runs in a Java wrapper, allowing Condor to
report Java exceptions, etc.
88
http://www.cs.wisc.edu/condor
Universe Java Job
› Example Java Universe Submit file:
Universe = java
Executable = Main.class
jar_files = MyLibrary.jar
Input = infile
Output = outfile
Arguments = Main 1 2 3
Queue
89
http://www.cs.wisc.edu/condor
Java support, cont.
bash-2.05a$ condor_status –java
Name JavaVendor Ver State Actv LoadAv Mem
abulafia.cs Sun Microsy 1.5.0_ Claimed Busy 0.180 503
acme.cs.wis Sun Microsy 1.5.0_ Unclaimed Idle 0.000 503
adelie01.cs Sun Microsy 1.5.0_ Claimed Busy 0.000 1002
adelie02.cs Sun Microsy 1.5.0_ Claimed Busy 0.000 1002
…
Total Owner Claimed Unclaimed Matched Preempting
INTEL/LINUX 965 179 516 250 20 0
INTEL/WINNT50 102 6 65 31 0 0
SUN4u/SOLARIS28 1 0 0 1 0 0
X86_64/LINUX 128 2 106 20 0 0
Total 1196 187 687 302 20 0
90
http://www.cs.wisc.edu/condor
Frieda wants Condor features
on remote resources
› She wants to run standard universe
jobs on Grid-managed resources
For matchmaking and dynamic scheduling
of jobs
For job checkpointing and migration
For remote system calls
91
http://www.cs.wisc.edu/condor
Condor GlideIn
› Frieda can use the Grid Universe to run
Condor daemons on Grid resources
› When the resources run these GlideIn
jobs, they will temporarily join her Condor
Pool
› She can then submit Standard, Vanilla,
PVM, or MPI Universe jobs and they will be
matched and run on the remote resources
› Currently only supports Globus GT2
We hope to fix this limitation
92
http://www.cs.wisc.edu/condor
Friendly
Condor Pool
600
Condor
jobs
Remote
Grid
PBS LSF
Condor
Condor Pool
glide-in
jobs
93
http://www.cs.wisc.edu/condor
How It Works
Manager
LSF
User Job
Startd
Personal Condor Remote Resource
Condor jobs
GlideIn
jobs
Starter
Schedd
Collector &
Negotiator
Grid
Manager
Shadow
Master
94
http://www.cs.wisc.edu/condor
GlideIn Concerns
› What if the remote resource kills my GlideIn job?
 That resource will disappear from your pool and your jobs
will be rescheduled on other machines
 Standard universe jobs will resume from their last
checkpoint like usual
› What if all my jobs are completed before a
GlideIn job runs?
 If a GlideIn Condor daemon is not matched with a job in
10 minutes, it terminates, freeing the resource
95
http://www.cs.wisc.edu/condor
In Review
With Condor’s help, Frieda can:
Manage her compute job workload
Access local machines
Access remote Condor Pools via flocking
Access remote compute resources on
the Grid via “Grid Universe” jobs
Carve out her own personal Condor Pool
from the Grid with GlideIn technology
96
http://www.cs.wisc.edu/condor
Advanced Topics
97
http://www.cs.wisc.edu/condor
Administrator Commands
› condor_vacate Leave a machine now
› condor_on Start Condor
› condor_off Stop Condor
› condor_reconfig Reconfig on-the-fly
› condor_config_val View/set config
› condor_userprio User Priorities
› condor_stats View detailed usage
accounting stats
98
http://www.cs.wisc.edu/condor
My boss wants to watch what
Condor is doing
99
http://www.cs.wisc.edu/condor
Use CondorView!
› Provides visual graphs of current and past
utilization
› Data is derived from Condor's own accounting
statistics
› Interactive Java applet
› Quickly and easily view:
 How much Condor is being used
 How many cycles are being delivered
 Who is using them
 Utilization by machine platform or by user
100
http://www.cs.wisc.edu/condor
CondorView Usage Graph
101
http://www.cs.wisc.edu/condor
A Common Question
› My Personal Condor is flocking with a bunch of
Solaris and Linux machines, and also doing a
GlideIn to a SGI O2K. I do not want to statically
partition my jobs.
 Solution: In your submit file, specify:
Executable = myjob.$$(OpSys).$$(Arch)
Requirements = (Arch==“INTEL” && OpSys==“LINUX”)
||(Arch==“SUN4u” && OpSys==“SOLARIS8” )
||(Arch==“SGI” && OpSys==“IRIX65”)
 The “$$(xxx)” notation is replaced with attributes from
the machine ClassAd which was matched with your job.
102
http://www.cs.wisc.edu/condor
Thank you!
Check us out on the Web:
http://www.condorproject.org
Email:
condor-admin@cs.wisc.edu

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condor_user_tutorial.ppt

  • 1. Condor Project Computer Sciences Department University of Wisconsin-Madison condor-admin@cs.wisc.edu http://www.cs.wisc.edu/condor Using Condor An Introduction Condor
  • 2. 2 http://www.cs.wisc.edu/condor Tutorial Outline ›The story of Frieda, the scientist ›Using Condor to manage jobs ›Using Condor to manage resources ›Condor architecture and mechanisms ›Condor on the grid Flocking Condor and other grid technologies ›Stop me if you have any questions!
  • 3. 3 http://www.cs.wisc.edu/condor Meet Frieda. She is a scientist with a big problem.
  • 4. 4 http://www.cs.wisc.edu/condor Frieda’s Application … Run a Parameter Sweep of F(x,y,z) for 20 values of x, 10 values of y and 3 values of z 20×10×3 = 600 combinations F takes on the average 6 hours to compute on a “typical” workstation (total = 600 × 6 = 3600 hours) F requires a “moderate” (256MB) amount of memory F performs “moderate” I/O - (x,y,z) is 5 MB and F(x,y,z) is 50 MB
  • 6. 6 http://www.cs.wisc.edu/condor While sharing a beverage with some colleagues, she shares her problem. Somebody asks “Have you tried Condor? It’s free.”
  • 7. 7 http://www.cs.wisc.edu/condor Getting Condor › Available as a free download from http://www.cs.wisc.edu/condor › Download Condor for your operating system Available for most UNIX (including Linux and Apple’s OS/X) platforms Also for Windows NT / XP
  • 8. 8 http://www.cs.wisc.edu/condor Condor Releases › Stable / Developer Releases Version numbering scheme similar to that of the (pre 2.6) Linux kernels … Major.minor.release • Minor is even (a.b.c): Stable – Examples: 6.6.3, 6.8.4, 6.8.5 – Very stable, mostly bug fixes • Minor is odd (a.b.c): Developer – New features, may have some bugs – Examples: 6.7.11, 6.9.1, 6.9.2
  • 9. 9 http://www.cs.wisc.edu/condor Frieda Installs a “Personal Condor” on her machine… › What do we mean by a “Personal” Condor? Condor on your own workstation No root / administrator access required No system administrator intervention needed › After installation, Frieda submits her jobs to her Personal Condor…
  • 11. 11 http://www.cs.wisc.edu/condor Personal Condor?! What’s the benefit of a Condor “Pool” with just one user and one machine?
  • 12. 12 http://www.cs.wisc.edu/condor Your Personal Condor will ... › Keep an eye on your jobs and will keep you posted on their progress › Implement your policy on the execution order of the jobs › Keep a log of your job activities › Add fault tolerance to your jobs › Implement your policy on when the jobs can run on your workstation
  • 13. 13 http://www.cs.wisc.edu/condor Definitions › Job The Condor representation of your work › Machine The Condor representation of computers and that can perform the work › Match Making Matching a job with a machine “Resource”
  • 14. 14 http://www.cs.wisc.edu/condor Job Jobs state their requirements and preferences: I need a Linux/x86 platform I want the machine with the most memory I prefer a machine in the chemistry department
  • 15. 15 http://www.cs.wisc.edu/condor Machine Machines state their requirements and preferences: Run jobs only when there is no keyboard activity I prefer to run Frieda’s jobs I am a machine in the physics department Never run jobs belonging to Dr. Smith
  • 16. 16 http://www.cs.wisc.edu/condor The Magic of Matchmaking › Jobs and machines state their requirements and preferences › Condor matches jobs with machines based on requirements and preferences
  • 17. 17 http://www.cs.wisc.edu/condor Getting Started: Submitting Jobs to Condor › Overview: Choose a “Universe” for your job Make your job “batch-ready” Create a submit description file Run condor_submit to put your job in the queue
  • 18. 18 http://www.cs.wisc.edu/condor 1. Choose the “Universe” › Controls how Condor handles jobs › Choices include: Vanilla Standard Grid Java Parallel
  • 19. 19 http://www.cs.wisc.edu/condor Using the Vanilla Universe • The Vanilla Universe: – Allows running almost any “serial” job – Provides automatic file transfer, etc. – Like vanilla ice cream • Can be used in just about any situation
  • 20. 20 http://www.cs.wisc.edu/condor 2. Make your job batch- ready Must be able to run in the background • No interactive input • No windows • No GUI
  • 21. 21 http://www.cs.wisc.edu/condor Make your job batch-ready (continued)… Job can still use STDIN, STDOUT, and STDERR (the keyboard and the screen), but files are used for these instead of the actual devices Similar to UNIX shell: • $ ./myprogram <input.txt >output.txt
  • 22. 22 http://www.cs.wisc.edu/condor 3. Create a Submit Description File › A plain ASCII text file › Condor does not care about file extensions › Tells Condor about your job: Which executable, universe, input, output and error files to use, command-line arguments, environment variables, any special requirements or preferences (more on this later) › Can describe many jobs at once (a “cluster”), each with different input, arguments, output, etc.
  • 23. 23 http://www.cs.wisc.edu/condor Simple Submit Description File # Simple condor_submit input file # (Lines beginning with # are comments) # NOTE: the words on the left side are not # case sensitive, but filenames are! Universe = vanilla Executable = my_job Output = output.txt Queue
  • 24. 24 http://www.cs.wisc.edu/condor 4. Run condor_submit › You give condor_submit the name of the submit file you have created: condor_submit my_job.submit › condor_submit: Parses the submit file, checks for errors Creates a “ClassAd” that describes your job(s) Puts job(s) in the Job Queue
  • 25. 25 http://www.cs.wisc.edu/condor ClassAd ? › Condor’s internal data representation Similar to classified ads (as the name implies) Represent an object & its attributes • Usually many attributes Can also describe what an object matches with
  • 26. 26 http://www.cs.wisc.edu/condor Example: MyType = "Job" TargetType = "Machine" ClusterId = 1377 Owner = "roy" Cmd = "sim.exe" Requirements = (Arch == "INTEL") && (OpSys == "LINUX") && (Disk >= DiskUsage) && ((Memory * 1024)>=ImageSize) … ClassAd Example String Number Boolean
  • 27. 27 http://www.cs.wisc.edu/condor Example Submit Description File With Logging # Example condor_submit input file # (Lines beginning with # are comments) # NOTE: the words on the left side are not # case sensitive, but filenames are! Universe = vanilla Executable = /home/frieda/condor/my_job.condor Log = my_job.log ·Job log (from Condor) Input = my_job.in ·Program’s standard input Output = my_job.out ·Program’s standard output Error = my_job.err ·Program’s standard error Arguments = -a1 -a2 ·Command line arguments InitialDir = /home/frieda/condor/run Queue
  • 28. 28 http://www.cs.wisc.edu/condor “Clusters” and “Processes” › If your submit file describes multiple jobs, we call this a “cluster” › Each cluster has a unique “cluster number” › Each job in a cluster is called a “process”  Process numbers always start at zero › A Condor “Job ID” is the cluster number, a period, and the process number (i.e. 2.1)  A cluster can have a single process • Job ID = 20.0 ·Cluster 20, process 0  Or, a cluster can have more than one process • Job ID: 21.0, 21.1, 21.2 ·Cluster 21, process 0, 1, 2
  • 29. 29 http://www.cs.wisc.edu/condor Submit File for a Cluster # Example submit file for a cluster of 2 jobs # with separate input, output, error and log files Universe = vanilla Executable = my_job Arguments = -x 0 log = my_job_0.log Input = my_job_0.in Output = my_job_0.out Error = my_job_0.err Queue ·Job 2.0 (cluster 2, process 0) Arguments = -x 1 log = my_job_1.log Input = my_job_1.in Output = my_job_1.out Error = my_job_1.err Queue ·Job 2.1 (cluster 2, process 1)
  • 30. 30 http://www.cs.wisc.edu/condor % condor_submit my_job.submit-file Submitting job(s). 2 job(s) submitted to cluster 2. % condor_q -- Submitter: perdita.cs.wisc.edu : <128.105.165.34:1027> : ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD 1.0 frieda 4/15 06:52 0+00:02:11 R 0 0.0 my_job –a1 –a2 2.0 frieda 4/15 06:56 0+00:00:00 I 0 0.0 my_job –x 0 2.1 frieda 4/15 06:56 0+00:00:00 I 0 0.0 my_job –x 1 3 jobs; 2 idle, 1 running, 0 held % Submitting The Job
  • 31. 31 http://www.cs.wisc.edu/condor Back to our 600 jobs… › We could put all input, output, error & log files in the one directory One of each type for each job That’d be 2400 files (4 files × 600 jobs) Difficult to sort through › Better: Create a subdirectory for each run
  • 32. 32 http://www.cs.wisc.edu/condor Organize your files and directories for big runs › Create subdirectories for each “run” run_0, run_1, … run_599 › Create input files in each of these run_0/simulation.in run_1/simulation.in … run_599/simulation.in › The output, error & log files for each job will be created by Condor from your job’s output
  • 34. 34 http://www.cs.wisc.edu/condor Submit Description File for 600 Jobs # Cluster of 600 jobs with different directories Universe = vanilla Executable = sim Log = simulation.log ... Arguments = -x 0 InitialDir = run_0 ·Log, input, output & error files -> run_0 Queue ·Job 3.0 (Cluster 3, Process 0) Arguments = -x 1 InitialDir = run_1 ·Log, input, output & error files -> run_1 Queue ·Job 3.1 (Cluster 3, Process 1) ·Do this 598 more times…………
  • 35. 35 http://www.cs.wisc.edu/condor Submit File for a Big Cluster of Jobs › We just submitted 1 cluster with 600 processes › All the input/output files will be in different directories › The submit file is pretty unwieldy (over 1200 lines) › Isn’t there a better way?
  • 36. 36 http://www.cs.wisc.edu/condor Submit File for a Big Cluster of Jobs (the better way) #1 › We can queue all 600 in 1 “Queue” command Queue 600 › Condor provides $(Process) and $(Cluster) $(Process) will be expanded to the process number for each job in the cluster • 0, 1, … 599 $(Cluster) will be expanded to the cluster number • Will be 4 for all jobs in this cluster
  • 37. 37 http://www.cs.wisc.edu/condor Submit File for a Big Cluster of Jobs (the better way) #2 › The initial directory for each job can be specified using $(Process) InitialDir = run_$(Process) Condor will expand these to “run_0”, “run_1”, … “run_599” directories › Similarly, arguments can be variable Arguments = -x $(Process) Condor will expand these to “-x 0”, “-x 1”, … “-x 599”
  • 38. 38 http://www.cs.wisc.edu/condor Better Submit File for 600 Jobs # Example condor_submit input file that defines # a cluster of 600 jobs with different directories Universe = vanilla Executable = my_job Log = my_job.log Input = my_job.in Output = my_job.out Error = my_job.err Arguments = –x $(Process) ·–x 0, -x 1, … -x 599 InitialDir = run_$(Process) ·run_0 … run_599 Queue 600 ·Jobs 4.0 … 4.599
  • 39. 39 http://www.cs.wisc.edu/condor Now, we submit it… $ condor_submit my_job.submit Submitting job(s) ...................................................... ...................................................... ...................................................... ...................................................... ....................................... Logging submit event(s) ...................................................... ...................................................... ...................................................... ...................................................... ....................................... 600 job(s) submitted to cluster 4.
  • 40. 40 http://www.cs.wisc.edu/condor And, Check the queue $ condor_q -- Submitter: x.cs.wisc.edu : <128.105.121.53:510> : x.cs.wisc.edu ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD 4.0 frieda 4/20 12:08 0+00:00:05 R 0 9.8 my_job -arg1 –x 0 4.1 frieda 4/20 12:08 0+00:00:03 I 0 9.8 my_job -arg1 –x 1 4.2 frieda 4/20 12:08 0+00:00:01 I 0 9.8 my_job -arg1 –x 2 4.3 frieda 4/20 12:08 0+00:00:00 I 0 9.8 my_job -arg1 –x 3 ... 4.598 frieda 4/20 12:08 0+00:00:00 I 0 9.8 my_job -arg1 –x 598 4.599 frieda 4/20 12:08 0+00:00:00 I 0 9.8 my_job -arg1 –x 599 600 jobs; 599 idle, 1 running, 0 held
  • 41. 41 http://www.cs.wisc.edu/condor Removing jobs › If you want to remove a job from the Condor queue, you use condor_rm › You can only remove jobs that you own › Privileged user can remove any jobs “root” on UNIX “administrator” on Windows
  • 42. 42 http://www.cs.wisc.edu/condor Removing jobs (continued) › Remove an entire cluster: condor_rm 4 ·Removes the whole cluster › Remove a specific job from a cluster: condor_rm 4.0 ·Removes a single job › Or, remove all of your jobs with “-a” condor_rm -a ·Removes all jobs / clusters
  • 44. 44 http://www.cs.wisc.edu/condor How can my jobs access their data files?
  • 45. 45 http://www.cs.wisc.edu/condor Access to Data in Condor › Use shared filesystem if available › No shared filesystem? Condor can transfer files • Can automatically send back changed files • transfer of multiple files • Can be encrypted over the wire Remote I/O Socket Standard Universe can use remote system calls (more on this later)
  • 46. 46 http://www.cs.wisc.edu/condor Condor File Transfer › ShouldTransferFiles = YES  Always transfer files to execution site › ShouldTransferFiles = NO  Rely on a shared filesystem › ShouldTransferFiles = IF_NEEDED  Will automatically transfer the files if the submit and execute machine are not in the same FileSystemDomain Universe = vanilla Executable = my_job Log = my_job.log ShouldTransferFiles = IF_NEEDED Transfer_input_files = dataset.$(Process), common.data Transfer_output_files = TheAnswer.dat Queue 600
  • 47. 47 http://www.cs.wisc.edu/condor Specify Requirements › An expression (syntax similar to C or Java) › Must evaluate to True for a match to be made Universe = vanilla Executable = my_job Log = my_job.log InitialDir = run_$(Process) Requirements = Memory >= 256 && Disk > 10000 Queue 600
  • 48. 48 http://www.cs.wisc.edu/condor Advanced Requirements › Requirements can match custom attributes in your Machine Ad  Can be added by hand to each machine  Or, automatically using the “Hawkeye” mechanism Universe = vanilla Executable = my_job Log = my_job.log InitialDir = run_$(Process) Requirements = Memory >= 256 && Disk > 10000 && ( HaveProg =!= UNDEFINED && HaveProg) ) Queue 600
  • 49. 49 http://www.cs.wisc.edu/condor And, Specify Rank › All matches which meet the requirements can be sorted by preference with a Rank expression. › Higher the Rank, the better the match Universe = vanilla Executable = my_job Log = my_job.log Arguments = -arg1 –arg2 InitialDir = run_$(Process) Requirements = Memory >= 256 && Disk > 10000 Rank = (KFLOPS*10000) + Memory Queue 600
  • 50. 50 http://www.cs.wisc.edu/condor Check the queue › Check the queue with condor_q: bash-2.05a$ condor_q -- Submitter: x.cs.wisc.edu : <128.105.121.53:510> :x.cs.wisc.edu ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD 5.0 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 0 5.1 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 1 5.2 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 2 5.3 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 3 5.4 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 4 5.5 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 5 5.6 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 6 5.7 frieda 4/20 12:23 0+00:00:00 I 0 9.8 my_job -arg1 –n 7 6.0 frieda 4/20 13:22 0+00:00:00 H 0 9.8 my_job -arg1 –arg2 8 jobs; 8 idle, 0 running, 1 held
  • 51. 51 http://www.cs.wisc.edu/condor Look at jobs on hold % condor_q –hold -- Submiter: x.cs.wisc.edu : <128.105.121.53:510> :x.cs.wisc.edu ID OWNER HELD_SINCE HOLD_REASON 6.0 frieda 4/20 13:23 Error from starter on vm1@skywalker.cs.wisc 9 jobs; 8 idle, 0 running, 1 held Or, See full details for a job % condor_q –l 6.0
  • 52. 52 http://www.cs.wisc.edu/condor Check machine status › Verify that there are idle machines with condor_status: bash-2.05a$ condor_status Name OpSys Arch State Activity LoadAv Mem ActvtyTime vm1@tonic.c LINUX INTEL Claimed Busy 0.000 501 0+00:00:20 vm2@tonic.c LINUX INTEL Claimed Busy 0.000 501 0+00:00:19 vm3@tonic.c LINUX INTEL Claimed Busy 0.040 501 0+00:00:17 vm4@tonic.c LINUX INTEL Claimed Busy 0.000 501 0+00:00:05 Total Owner Claimed Unclaimed Matched Preempting INTEL/LINUX 4 0 4 0 0 0 Total 4 0 4 0 0 0
  • 53. 53 http://www.cs.wisc.edu/condor Look in Job Log › Look in your job log for clues: bash-2.05a$ cat my_job.log 000 (031.000.000) 04/20 14:47:31 Job submitted from host: <128.105.121.53:48740> ... 007 (031.000.000) 04/20 15:02:00 Shadow exception! Error from starter on gig06.stat.wisc.edu: Failed to open '/scratch.1/frieda/workspace/v67/condor- test/test3/run_0/my_job.in' as standard input: No such file or directory (errno 2) 0 - Run Bytes Sent By Job 0 - Run Bytes Received By Job ...
  • 54. 54 http://www.cs.wisc.edu/condor Still not running? Exercise a little patience › On a busy pool, it can take a while to match and start your jobs › Wait at least a negotiation cycle or two (typically 5 minutes)
  • 55. 55 http://www.cs.wisc.edu/condor Look to condor_q for help: condor_q -analyze bash-2.05a$ condor_q -ana 29 --- 029.000: Run analysis summary. Of 1243 machines, 1243 are rejected by your job's requirements 0 are available to run your job WARNING: Be advised: No resources matched request's constraints Check the Requirements expression below: Requirements = ((Memory > 8192)) && (Arch == "INTEL") && (OpSys == "LINUX") && (Disk >= DiskUsage) && (TARGET.FileSystemDomain == MY.FileSystemDomain)
  • 56. 56 http://www.cs.wisc.edu/condor Better analysis (Linux only): condor_q –better-analyze bash-2.05a$ condor_q -better-ana 29 The Requirements expression for your job is: ( ( target.Memory > 8192 ) ) && ( target.Arch == "INTEL" ) && ( target.OpSys == "LINUX" ) && ( target.Disk >= DiskUsage ) && ( TARGET.FileSystemDomain == MY.FileSystemDomain ) Condition Machines Matched Suggestion --------- ---------------- ---------- 1 ( ( target.Memory > 8192 ) ) 0 MODIFY TO 4000 2 ( TARGET.FileSystemDomain == "cs.wisc.edu" )584 3 ( target.Arch == "INTEL" ) 1078 4 ( target.OpSys == "LINUX" ) 1100 5 ( target.Disk >= 13 ) 1243
  • 57. 57 http://www.cs.wisc.edu/condor Learn about available resources: bash-2.05a$ condor_status –const 'Memory > 8192' (no output means no matches) bash-2.05a$ condor_status -const 'Memory > 4096' Name OpSys Arch State Activ LoadAv Mem ActvtyTime vm1@s0-03.cs. LINUX X86_64 Unclaimed Idle 0.000 5980 1+05:35:05 vm2@s0-03.cs. LINUX X86_64 Unclaimed Idle 0.000 5980 13+05:37:03 vm1@s0-04.cs. LINUX X86_64 Unclaimed Idle 0.000 7988 1+06:00:05 vm2@s0-04.cs. LINUX X86_64 Unclaimed Idle 0.000 7988 13+06:03:47 Total Owner Claimed Unclaimed Matched Preempting X86_64/LINUX 4 0 0 4 0 0 Total 4 0 0 4 0 0
  • 58. 58 http://www.cs.wisc.edu/condor Job Policy Expressions › User can supply job policy expressions in the submit file. › Can be used to describe a successful run. on_exit_remove = <expression> on_exit_hold = <expression> periodic_remove = <expression> periodic_hold = <expression>
  • 59. 59 http://www.cs.wisc.edu/condor Job Policy Examples › Do not remove if exits with a signal:  on_exit_remove = ExitBySignal == False › Place on hold if exits with nonzero status or ran for less than an hour: on_exit_hold = ( (ExitBySignal==False) && (ExitSignal != 0) ) || ( (ServerStartTime - JobStartDate) < 3600) › Place on hold if job has spent more than 50% of its time suspended:  periodic_hold = CumulativeSuspensionTime > (RemoteWallClockTime / 2.0)
  • 60. 60 http://www.cs.wisc.edu/condor Insert ClassAd attributes › Special purpose usage › In the submit description file, introduce an attribute for the job +Department = biochemistry causes the ClassAd to contain Department = ”biochemistry”
  • 61. 61 http://www.cs.wisc.edu/condor My new jobs run for 20 days… › What happens when a job is forced off it’s CPU?  Preempted by higher priority user or job Vacated because of user activity › How can I add fault tolerance to my jobs?
  • 62. 62 http://www.cs.wisc.edu/condor Condor’s Standard Universe to the rescue! › Support for transparent process checkpoint and restart › Remote system calls (remote I/O) Your job can read / write files as if they were local
  • 63. 63 http://www.cs.wisc.edu/condor Remote System Calls in the Standard Universe › I/O system calls are trapped and sent back to the submit machine Examples: open a file, write to a file › No source code changes typically required › Programming language independent
  • 64. 64 http://www.cs.wisc.edu/condor Process Checkpointing in the Standard Universe › Condor’s process checkpointing provides a mechanism to automatically save the state of a job › The process can then be restarted from right where it was checkpointed After preemption, crash, etc.
  • 65. 65 http://www.cs.wisc.edu/condor Checkpointing: Process Starts checkpoint: the entire state of a program, saved in a file  CPU registers, memory image, I/O time
  • 69. 69 http://www.cs.wisc.edu/condor When will Condor checkpoint your job? › Periodically, if desired For fault tolerance › When your job is preempted by a higher priority job › When your job is vacated because the execution machine becomes busy › When you explicitly run condor_checkpoint, condor_vacate, condor_off or condor_restart command
  • 70. 70 http://www.cs.wisc.edu/condor Making the Standard Universe Work › The job must be relinked with Condor’s standard universe support library › To relink, place condor_compile in front of the command used to link the job: % condor_compile gcc -o myjob myjob.c - OR - % condor_compile f77 -o myjob filea.f fileb.f - OR - % condor_compile make –f MyMakefile
  • 71. 71 http://www.cs.wisc.edu/condor Limitations of the Standard Universe › Condor’s checkpointing is not at the kernel level. Standard Universe the job may not: • Fork() • Use kernel threads • Use some forms of IPC, such as pipes and shared memory › Must have access to source code to relink › Many typical scientific jobs are OK
  • 72. 72 http://www.cs.wisc.edu/condor “Grid” Universe › All handled in your submit file › Supports a number of “back end” types: Globus: GT2, GT3, GT4 NorduGrid UNICORE Condor PBS LSF
  • 73. 73 http://www.cs.wisc.edu/condor My jobs have have dependencies… Can Condor help solve my dependency problems?
  • 74. 74 http://www.cs.wisc.edu/condor Frieda learns DAGMan › Directed Acyclic Graph Manager › DAGMan allows you to specify the dependencies between your Condor jobs, so it can manage them automatically for you. › (e.g., “Don’t run job “B” until job “A” has completed successfully.”)
  • 75. 75 http://www.cs.wisc.edu/condor What is a DAG? › A DAG is the data structure used by DAGMan to represent these dependencies. › Each job is a “node” in the DAG. › Each node can have any number of “parent” or “children” nodes – as long as there are no loops! Job A Job B Job C Job D
  • 76. 76 http://www.cs.wisc.edu/condor Defining a DAG › A DAG is defined by a .dag file, listing each of its nodes and their dependencies: # diamond.dag Job A a.sub Job B b.sub Job C c.sub Job D d.sub Parent A Child B C Parent B C Child D › each node will run the Condor job specified by its accompanying Condor submit file Job A Job B Job C Job D
  • 77. 77 http://www.cs.wisc.edu/condor Submitting a DAG › To start your DAG, just run condor_submit_dag with your .dag file, and Condor will start a personal DAGMan daemon which to begin running your jobs: % condor_submit_dag diamond.dag › condor_submit_dag is run by the schedd DAGMan daemon itself is “watched” by Condor, so you don’t have to
  • 78. 78 http://www.cs.wisc.edu/condor DAGMan Running a DAG › DAGMan acts as a “meta-scheduler”, managing the submission of your jobs to Condor based on the DAG dependencies. Condor Job Queue B C D A A .dag File
  • 79. 79 http://www.cs.wisc.edu/condor DAGMan Running a DAG (cont’d) › DAGMan holds & submits jobs to the Condor queue at the appropriate times. Condor Job Queue D B C B A C
  • 80. 80 http://www.cs.wisc.edu/condor Running a DAG (cont’d) › In case of a job failure, DAGMan continues until it can no longer make progress, and then creates a “rescue” file with the current state of the DAG. Condor Job Queue DAGMan X D A B Rescue File
  • 81. 81 http://www.cs.wisc.edu/condor Recovering a DAG › Once the failed job is ready to be re-run, the rescue file can be used to restore the prior state of the DAG. Condor Job Queue Rescue File C DAGMan D A B C
  • 82. 82 http://www.cs.wisc.edu/condor DAGMan Recovering a DAG (cont’d) › Once that job completes, DAGMan will continue the DAG as if the failure never happened. Condor Job Queue C D A B D
  • 83. 83 http://www.cs.wisc.edu/condor DAGMan Finishing a DAG › Once the DAG is complete, the DAGMan job itself is finished, and exits. Condor Job Queue C D A B
  • 84. 84 http://www.cs.wisc.edu/condor Additional DAGMan Features › Provides other handy features for job management… nodes can have PRE & POST scripts failed nodes can be automatically re- tried a configurable number of times job submission can be “throttled”
  • 85. 85 http://www.cs.wisc.edu/condor General User Commands › condor_status View Pool Status › condor_q View Job Queue › condor_submit Submit new Jobs › condor_rm Remove Jobs › condor_prio Intra-User Prios › condor_history Completed Job Info › condor_submit_dag Submit new DAG › condor_checkpoint Force a checkpoint › condor_compile Link Condor library
  • 86. 86 http://www.cs.wisc.edu/condor Condor Job Universes • Serial Jobs • Vanilla Universe • Standard Universe • Grid Universe • Scheduler • Local Universe • Java Universe • Parallel Jobs • MPI Universe • PVM Universe • Parallel Universe
  • 87. 87 http://www.cs.wisc.edu/condor Why have a special Universe for Java jobs? › Java Universe provides more than just inserting “java” at the start of the execute line of a vanilla job: Knows which machines have a JVM installed Knows the location, version, and performance of JVM on each machine Knows about jar files, etc. Provides more information about Java job completion than just JVM exit code • Program runs in a Java wrapper, allowing Condor to report Java exceptions, etc.
  • 88. 88 http://www.cs.wisc.edu/condor Universe Java Job › Example Java Universe Submit file: Universe = java Executable = Main.class jar_files = MyLibrary.jar Input = infile Output = outfile Arguments = Main 1 2 3 Queue
  • 89. 89 http://www.cs.wisc.edu/condor Java support, cont. bash-2.05a$ condor_status –java Name JavaVendor Ver State Actv LoadAv Mem abulafia.cs Sun Microsy 1.5.0_ Claimed Busy 0.180 503 acme.cs.wis Sun Microsy 1.5.0_ Unclaimed Idle 0.000 503 adelie01.cs Sun Microsy 1.5.0_ Claimed Busy 0.000 1002 adelie02.cs Sun Microsy 1.5.0_ Claimed Busy 0.000 1002 … Total Owner Claimed Unclaimed Matched Preempting INTEL/LINUX 965 179 516 250 20 0 INTEL/WINNT50 102 6 65 31 0 0 SUN4u/SOLARIS28 1 0 0 1 0 0 X86_64/LINUX 128 2 106 20 0 0 Total 1196 187 687 302 20 0
  • 90. 90 http://www.cs.wisc.edu/condor Frieda wants Condor features on remote resources › She wants to run standard universe jobs on Grid-managed resources For matchmaking and dynamic scheduling of jobs For job checkpointing and migration For remote system calls
  • 91. 91 http://www.cs.wisc.edu/condor Condor GlideIn › Frieda can use the Grid Universe to run Condor daemons on Grid resources › When the resources run these GlideIn jobs, they will temporarily join her Condor Pool › She can then submit Standard, Vanilla, PVM, or MPI Universe jobs and they will be matched and run on the remote resources › Currently only supports Globus GT2 We hope to fix this limitation
  • 93. 93 http://www.cs.wisc.edu/condor How It Works Manager LSF User Job Startd Personal Condor Remote Resource Condor jobs GlideIn jobs Starter Schedd Collector & Negotiator Grid Manager Shadow Master
  • 94. 94 http://www.cs.wisc.edu/condor GlideIn Concerns › What if the remote resource kills my GlideIn job?  That resource will disappear from your pool and your jobs will be rescheduled on other machines  Standard universe jobs will resume from their last checkpoint like usual › What if all my jobs are completed before a GlideIn job runs?  If a GlideIn Condor daemon is not matched with a job in 10 minutes, it terminates, freeing the resource
  • 95. 95 http://www.cs.wisc.edu/condor In Review With Condor’s help, Frieda can: Manage her compute job workload Access local machines Access remote Condor Pools via flocking Access remote compute resources on the Grid via “Grid Universe” jobs Carve out her own personal Condor Pool from the Grid with GlideIn technology
  • 97. 97 http://www.cs.wisc.edu/condor Administrator Commands › condor_vacate Leave a machine now › condor_on Start Condor › condor_off Stop Condor › condor_reconfig Reconfig on-the-fly › condor_config_val View/set config › condor_userprio User Priorities › condor_stats View detailed usage accounting stats
  • 98. 98 http://www.cs.wisc.edu/condor My boss wants to watch what Condor is doing
  • 99. 99 http://www.cs.wisc.edu/condor Use CondorView! › Provides visual graphs of current and past utilization › Data is derived from Condor's own accounting statistics › Interactive Java applet › Quickly and easily view:  How much Condor is being used  How many cycles are being delivered  Who is using them  Utilization by machine platform or by user
  • 101. 101 http://www.cs.wisc.edu/condor A Common Question › My Personal Condor is flocking with a bunch of Solaris and Linux machines, and also doing a GlideIn to a SGI O2K. I do not want to statically partition my jobs.  Solution: In your submit file, specify: Executable = myjob.$$(OpSys).$$(Arch) Requirements = (Arch==“INTEL” && OpSys==“LINUX”) ||(Arch==“SUN4u” && OpSys==“SOLARIS8” ) ||(Arch==“SGI” && OpSys==“IRIX65”)  The “$$(xxx)” notation is replaced with attributes from the machine ClassAd which was matched with your job.
  • 102. 102 http://www.cs.wisc.edu/condor Thank you! Check us out on the Web: http://www.condorproject.org Email: condor-admin@cs.wisc.edu

Editor's Notes

  1. In the simplest case…
  2. a DAG is the best data structure to represent a workflow of jobs with dependencies children may not run until their parents have finished – this is why the graph is a directed graph … there’s a direction to the flow of work In this example, called a “diamond” dag, job A must run first; when it finishes, jobs B and C can run together; when they are both finished, D can run; when D is finished the DAG is finished Loops, where two jobs are both descended from one another, are prohibited because they would lead to deadlock – in a loop, neither node could run until the other finished, and so neither would start – this restriction is what makes the graph acyclic
  3. This is all it takes to specify the example “diamond” dag
  4. Just like any other Condor job, you get fault tolerance in case the machine crashes or reboots, or if there’s a network outage And you’re notified when it’s done, and whether it succeeded or failed % condor_q -- Submitter: foo.bar.edu : <128.105.175.133:1027> : foo.bar.edu ID OWNER SUBMITTED RUN_TIME ST PRI SIZE CMD 2456.0 user 3/8 19:22 0+00:00:02 R 0 3.2 condor_dagman -f -
  5. First, job A will be submitted alone…
  6. Once job A completes successfully, jobs B and C will be submitted at the same time…
  7. If job C fails, DAGMan will wait until job B completes, and then will exit, creating a rescue file. Job D will not run. In its log, DAGMan will provide additional details of which node failed and why.
  8. Since jobs A and B have already completed, DAGMan will start by re-submitting job C
  9. If job C fails, DAGMan will wait until job B completes, and then will exit, creating a rescue file.