In this lesson, we'll learn how to troubleshoot jobs that never start or fail in unexpected ways.
Diagnostics with condor_q
condor_q command shows the status of the jobs and it can be used
to diagnose why jobs are not running. Using the
condor_q can show you detailed information about why a job isn't
starting on a specific pool. Since OSG Connect sends jobs to many places, we also need to
specify a pool name with the
Unless you know a specific pool you would like to query, checking the
flock.opensciencegrid.org pool is usually a good place to start.
$ condor_q -better-analyze JOB-ID -pool POOL-NAME
Let's do an example. First we'll need to login as usual, and then load the tutorial error101.
$ ssh email@example.com $ tutorial error101 $ cd tutorial-error101 $ condor_submit error101_job.submit
We'll check the job status the normal way:
For some reason, our job is still idle. Why? Try using
-better-analyze to find out. Remember that you will also need to
specify a pool name. In this case we'll use
$ condor_q -better-analyze JOB-ID -pool flock.opensciencegrid.org # Produces a long ouput. # The following lines are part of the output regarding the job requirements. The Requirements expression for your job reduces to these conditions: Slots Step Matched Condition ----- -------- ---------  10674 TARGET.Arch == "X86_64"  10674 TARGET.OpSys == "LINUX"  10674 TARGET.Disk >= RequestDisk  0 TARGET.Memory >= RequestMemory  10674 TARGET.HasFileTransfer
By looking through the match conditions, we see that many nodes match our requests for the Linux operating system and the x86_64 architecture, but none of them match our requirement for 51200 MB of memory.
Let's look at our submit script and see if we can find the source of this error:
$ cat error101_job.submit Universe = vanilla Executable = error101.sh # to sleep an hour Arguments = 3600 request_memory = 2 TB Error = job.err Output = job.out Log = job.log Queue 1
request_memory line? We are asking for 2 Terabytes of memory, when we meant to only
ask for 2 Gigabytes of memory. Our job is not matching any available job slots because
none of the slots offer 2 TB of memory. Let's fix that by changing that line to read
request_memory = 2 GB.
$ nano error101_job.submit
Let's cancel our idle job with the
condor_rm command and then resubmit our edited job:
$ condor_rm JOB-ID $ condor_submit error101_job.submit
Alternatively, you can edit the resource requirements of the idle job in queue:
condor_qedit JOB_ID RequestMemory 2048
Held jobs and condor_release
Occasionally, a job can fail in various ways and go into "Held" state. Held state means that the job has encountered some error, and cannot run. This doesn't necessarily mean that your job has failed, but, for whatever reason, Condor cannot fulfill your request(s).
In this particular case, a user had this in his or her Condor submit file:
transfer_output_files = outputfile
However, when the job executed, it went into Held state:
$ condor_q -analyze 372993.0 -- Submitter: login01.osgconnect.net : <126.96.36.199:56174> : login01.osgconnect.net --- 372993.000: Request is held. Hold reason: Error from firstname.lastname@example.org: STARTER at 10.3.11.39 failed to send file(s) to <188.8.131.52:40485>: error reading from /wntmp/condor/compute-6-28/execute/dir_9368/glide_J6I1HT/execute/dir_16393/outputfile: (errno 2) No such file or directory; SHADOW failed to receive file(s) from <184.108.40.206:50805>
Let's break down this error message piece by piece:
Hold reason: Error from email@example.com: STARTER at 10.3.11.39 failed to send file(s) to <220.127.116.11:40485>
This part is quite cryptic, but it simply means that the worker node where your job executed (firstname.lastname@example.org or 10.3.11.39) tried to transfer a file to the OSG Connect login node (18.104.22.168) but did not succeed. The next part explains why:
error reading from /wntmp/condor/compute-6-28/execute/dir_9368/glide_J6I1HT/execute/dir_16393/outputfile: (errno 2) No such file or directory
This bit has the full path of the file that Condor tried to transfer back to
login.osgconnect.net. The reason why the file transfer failed is because
outputfile was never created on the worker node. Remember that at the beginning we said that the user specifically requested
transfer_outputfiles = outputfile! Condor could not complete this request, and so the job went into Held state instead of finishing normally.
It's quite possible that the error was simply transient, and if we retry, the job will succeed. We can re-queue a job that is in Held state by using
Retries with periodic_release
It is important to consider that computing on the Open Science Grid is a very heterogenous environment. You might have a job that works at 95% of remote sites, but inexplicably fails elsewhere. What to do, then?
Fortunately, we can ask Condor to check if the job failed by looking at its exit code. If you are familiar with UNIX systems, you may be aware that a successful program returns "0". Anything other than 0 might be considered a failure, and so we can ask Condor to monitor for these and retry if it detects any such failures.
This can be accomplished by adding the following lines to your submit file:
# Send the job to Held state on failure. on_exit_hold = (ExitBySignal == True) || (ExitCode != 0) # Periodically retry the jobs every 10 minutes, up to a maximum of 5 retries. periodic_release = (NumJobStarts < 5) && ((CurrentTime - EnteredCurrentStatus) > 600)
This page was updated on Dec 22, 2020 at 22:54 from tutorials/tutorial-error101/README.md.