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Troubleshooting Jobs – 38 Oxford 206
Are you not getting the expected output from your job? Is your job running slower than expected? In this seminar, we will focus on increasing your troubleshooting skills and how to translate common errors. There are a few simple things to include in every job script that will help, as well, there are some common Unix tools to learn. In addition, we will cover the types of information you need to provide RC when you do encounter the unexpected. More-or-less, "help us, help you" to accelerate the time to solution. You are encouraged to bring your laptop and follow along with the examples.
REGISTRATION: Harvard Training Portal (Harvard Key login required)
See FASRC catalog including past sessions: FAS RC @ Harvard Training Portal (Harvard Key login required)
LOCATION: 38 Oxford
38/52 Oxford St.
Cambridge, MA 02138 (Map)
FAS RC Office Hours Wed. 12-3PM
Research Computing holds office hours Wednesdays, 12PM-3PM, at 38 Oxford Street, second floor, room 206. Research Computing staff is on hand to answer questions and troubleshoot problems.
For directions or additional dates, see our Office Hours page: https://www.rc.fas.harvard.edu/training/office-hours/
Additionally, we offer training sessions before office hours on certain dates. See our Training Calendar for details: https://www.rc.fas.harvard.edu/upcoming-training/
HCSPH Office Hours (Kresge 205)
Office hours for HCSPH are held jointly between FAS Research Computing and the HCSPH BioInformatics Core every other Tuesday from 2:00PM - 3:30PM in Kresge 205.
See our Office Hours page for additional dates: https://www.rc.fas.harvard.edu/training/office-hours/
Additionally, we often offer training sessions at the beginning of some sessions.
See our training calendar for dates and topics: https://www.rc.fas.harvard.edu/upcoming-training/
More information for HCSPH users can also be found on the HCSPH Research Computing page.
Parallel Job Workflows on Odyssey – 38 Oxford 206
There are three main types of parallel workflows: pleasantly parallel (job-array), tightly coupled (SMP threads), distributed parallelism (MPI). Each of these workflows has a different requirement when submitting to the SLURM job scheduler. In this session, we will cover the basic concepts around parallel processing and provide examples on how best to submit these types of jobs.
REGISTRATION: Harvard Training Portal (Harvard Key login required)
See FASRC catalog including past sessions: FAS RC @ Harvard Training Portal (Harvard Key login required)
LOCATION: 38 Oxford
38/52 Oxford St.
Cambridge, MA 02138 (Map)
FAS RC Office Hours Wed. 12-3PM
Research Computing holds office hours Wednesdays, 12PM-3PM, at 38 Oxford Street, second floor, room 206. Research Computing staff is on hand to answer questions and troubleshoot problems.
For directions or additional dates, see our Office Hours page: https://www.rc.fas.harvard.edu/training/office-hours/
Additionally, we offer training sessions before office hours on certain dates. See our Training Calendar for details: https://www.rc.fas.harvard.edu/upcoming-training/
FAS RC Office Hours Wed. 12-3PM
Research Computing holds office hours Wednesdays, 12PM-3PM, at 38 Oxford Street, second floor, room 206. Research Computing staff is on hand to answer questions and troubleshoot problems.
For directions or additional dates, see our Office Hours page: https://www.rc.fas.harvard.edu/training/office-hours/
Additionally, we offer training sessions before office hours on certain dates. See our Training Calendar for details: https://www.rc.fas.harvard.edu/upcoming-training/
HCSPH Office Hours (Kresge 205)
Office hours for HCSPH are held jointly between FAS Research Computing and the HCSPH BioInformatics Core every other Tuesday from 2:00PM - 3:30PM in Kresge 205.
See our Office Hours page for additional dates: https://www.rc.fas.harvard.edu/training/office-hours/
Additionally, we often offer training sessions at the beginning of some sessions.
See our training calendar for dates and topics: https://www.rc.fas.harvard.edu/upcoming-training/
More information for HCSPH users can also be found on the HCSPH Research Computing page.
FAS RC Office Hours Wed. 12-3PM
Research Computing holds office hours Wednesdays, 12PM-3PM, at 38 Oxford Street, second floor, room 206. Research Computing staff is on hand to answer questions and troubleshoot problems.
For directions or additional dates, see our Office Hours page: https://www.rc.fas.harvard.edu/training/office-hours/
Additionally, we offer training sessions before office hours on certain dates. See our Training Calendar for details: https://www.rc.fas.harvard.edu/upcoming-training/
MGHPCC data center annual power downtime 5/22/18
Each year our primary data center, MGHPCC (Holyoke), performs a full power shutdown for electrical maintenance. This requires us to power down all FASRC systems at MGHPCC starting the evening before. It also allows us a window to fit in maintenance, including the CentOS 7 cluster upgrade, that would otherwise require us shutting off various resources during normal operations. Note that this power event will mean the termination of all running jobs as power to the entire facility will be out.
SCHEDULE
- Monday 5/21/18 at 6PM: All running jobs will be terminated and we will begin powering down all devices at MGHPCC/Holyoke.
- Tuesday 5/22/18: Power will be out the entire day as MGHPCC performs their work. Harvard network updates 9pm-1am.
- Wednesday 5/23/18: We expect to be back to normal operations by approximately 8PM.
WHAT IS AFFECTED
- Resources in Holyoke will be affected for the duration of the event. This includes the compute cluster, scheduler, regal, and storage housed at MGHPCC
- Resources in Boston and Cambridge, including storage, are likely to be affected by network updates which will take place Tuesday night 5/22/18 between 9PM and 1AM. Please plan accordingly.
A list of affected storage will be posted here as soon as it is complete.
CENTOS 7 UPGRADE (O3)
During this event, once basic power is available to us, we will also be upgrading all of our partitions to CentOS 7 as part of the "O3" (Odyssey 3) update. Please note this will affect all users of the cluster once complete on 5/23/18. Labs with their own partitions are being contacted individually to facilitate the upgrade of their partitions and to move early where possible to lessen the impact. NCF and ATLAS are not a part of this upgrade.
A CentOS 7 testing queue (test7) is available now for you to test your code prior to this upgrade. A CentOS 7 login node (login7.rc.fas.harvard.edu) is available as well. More details on O3/CentOS 7 and test resources can be found on our O3 page.
We encourage all cluster users to begin testing in advance of this upgrade.
Reminder: During the downtime, all jobs still running will be terminated on Monday evening. As power will be out at MGHPCC and the cluster will be upgraded to CentOS7, jobs cannot be paused, they must be stopped before we begin power-down.
We will notify the community via our email lists when we are back to normal operations. You can also check back here or on our Status Page