Hi Everyone,
this is only short reminder, that there is MedBioNode Space available on Element, internal MedUni Graz communication platform. You can get part over the link:
https://matrix.to/#/#medbionode:medunigraz.at
and post relevant staff around our HPC cluster.
Best regards,
Slave
--
Slave Trajanoski, Phd
Senior Scientist Bioinformatics
CF Computational Bioanalytics, Center for medical research
Medical University Graz
Neue Stiftingtalstraße 6 - West Tower P 4th Floor
8010 Graz
Tel. +43 316 385 73024
E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>
Hi everyone,
Many slurm jobs are running for days, and some of them have been going for almost a week. On the other hand, we have a lot of jobs that need to be done but are waiting for free cluster resources. I strongly advise that you do not start a lot of long-running slurm jobs simultaneously. This will block most of the cluster's resources, making them unavailable to other users. Instead, I suggest that you reduce the number of jobs you start or split them up into smaller pieces if you can. We're following the fair use principle and trying to stay away from rules and restrictions, which often make things more difficult to understand and use, as well as less flexible and efficient. Please take a look at your active jobs today and see where you can trim or pause them so your colleagues can get some work done.
Thanks for your help.
Best regards,
Slave
--
Slave Trajanoski, Phd
Senior Scientist Bioinformatics
CF Computational Bioanalytics, Center for medical research
Medical University Graz
Neue Stiftingtalstraße 6 - West Tower P 4th Floor
8010 Graz
Tel. +43 316 385 73024
E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>
Dear RStudio Server users,
please use the following recommendations for smooth work with RStudio Server, as well as avoiding potential issue for you or possibly causing disturbance to other users too on our MedBioNode cluster. Thanks very much in advance.
To ensure the login node remains stable and responsive for everyone, please follow these guidelines when using the Open Source RStudio Server web interface.
1. Always use "Sign Out" — Don't just close the tab
* The Problem: If you close your browser tab or laptop lid without logging out, your R session stays running in the background on the HPC login node. If you reconnect later from a different network, device, or browser, a duplicate session is created. This wastes system memory and slows down the cluster.
* The Solution: When you are done working for the day, click the Sign Out button in the top-right corner of the RStudio window. This safely terminates your background processes.
2. Clean up your environment before leaving
Before signing out, it is highly recommended to clear your R workspace to prevent bloated session files that slow down your next login:
* Run rm(list = ls()) in your console to clear memory.
* Go to Tools -> Global Options -> General and change “Save workspace to .RData on exit” to Never. This stops RStudio from saving massive, fragmented files to your home directory, which can cause your next session to hang on startup.
Best regards,
Slave
--
Slave Trajanoski, Phd
Senior Scientist Bioinformatics
CF Computational Bioanalytics, Center for medical research
Medical University Graz
Neue Stiftingtalstraße 6 – West Tower P 4th Floor
8010 Graz
Tel. +43 316 385 73024
E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>
