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SLURM Workshop: Practical Use Cases for Data Analysis on MedBioNode

by Trajanoski, Slave

Dear MedBioNode users, I’d like to draw your attention to our new free course we’re organizing in spring to help you mastering your SLURM knowledge. Several regular proficient cluster users will share their SLURM experience with you and answer your questions, as well as try to solve your problems with data analysis on our MedBioNode. Register to get your place over the MERAG website under the topic MedBioNode. Below you’ll find the official inviation. https://zmf.medunigraz.at/merag SLURM Workshop: Practical Use Cases for Data Analysis on MedBioNode Join us for an engaging SLURM Workshop at the university, where experts will showcase how they leverage SLURM for data analysis on the MedBioNode cluster. This session, taking place from 13:00 to 16:00, will feature a series of presentations by researchers and professionals who use SLURM in their daily work. Through real-world use cases, you'll gain insights into efficient job scheduling, resource management, and performance optimization for computational workloads. Whether you're a beginner or an advanced user, this workshop will provide valuable knowledge and best practices to enhance your workflow on MedBioNode. For those who wish to practice or participate in hands-on exercises, please bring your own laptop with an operational University WiFi connection. 📍 Location: MedCampus 📅 Date: 09.04.2025 ⏰ Time: 13:00 – 16:00 Don't miss this opportunity to learn from experienced users and improve your SLURM skills! Best regards, Slave From: Trajanoski, Slave Sent: Monday, 27 January 2025 15:40 To: Plank, Gernot <gernot.plank(a)medunigraz.at<mailto:gernot.plank@medunigraz.at>>; marija.durdevic(a)medunigraz.at<mailto:marija.durdevic@medunigraz.at>; Diener, Christian <christian.diener(a)medunigraz.at<mailto:christian.diener@medunigraz.at>>; 'Isaac Lazzeri (isaac.lazzeri(a)medunigraz.at<mailto:isaac.lazzeri@medunigraz.at>)' <isaac.lazzeri(a)medunigraz.at<mailto:isaac.lazzeri@medunigraz.at>>; Sánchez Murcia, Pedro Alejandro <pedro.murcia(a)medunigraz.at<mailto:pedro.murcia@medunigraz.at>> Subject: SLURM Workshop poll for date and time Dear colleagues, first of all I’d like to thank you all for your participation to our MedBioNode SLURM Workshop. Herewith I’d like to find appropriate date and therefore I’ll need your input in the current meeting poll: https://www.termino.gv.at/meet/p/a6f702a57bf2853c8a9cea82511b2a07-411341 Please provide me your answers until Wednesday, 29.01.2025, so I can book the room and start with the further preparations. Best regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 4 months

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using GPFS for wrtiting data

by Trajanoski, Slave

Dear MedBioNode users, I can report that the issue is not present anymore. Unfortunately we could detect the process causing this extreme GPFS IO operation, since this activity has stopped. Herewith I'd like just to emphasize the importance of avoiding high data writing on GPFS, since it affects all users in doing there normal work. GPFS is the home directory location for all MedBioNode users. In case you have such situations there are different solutions to accomplish this. Please contact me if you need some assistance. Thanks for your cooperation. Regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 8 months

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using GPFS for wrtiting data

by Trajanoski, Slave

Dear MedBioNode users, we have currently issue that some user process puts heavy writing load in home directory (/home/gpfs) causing that it is impossible to work. Thanks for your understanding. Regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 8 months

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GPU node sx138 downtime 18.10.2024 09.00 - 10.30

by Trajanoski, Slave

Dear MedBioNode users, since the scheduled maintenance work with external company on GPU node sx088 today was successfully finished, the same work is scheduled for the second node sx138 on Friday 18.10.2024 from 09.00 until 10.30 . Please plan your job execution on this node only accordingly, since the node will be shutdown during this time. Thanks for your understanding. Regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 8 months

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GPU node sx088 downtime 14.10.2024 13.00-17.00

by Trajanoski, Slave

Just a reminder of the planned downtime for sx088. Thanks. From: Trajanoski, Slave Sent: Monday, 30 September 2024 13:24 To: medbionode(a)lists.medunigraz.at Subject: GPU node downtime 14.10.2024 13.00-17.00 Importance: High Dear MedBioNode users, we have scheduled maintenance work with external company on GPU node sx088 on 14.10.2024 from 13.00 until 17.00. Please plan your job execution on this node only accordingly, since the node will be shutdown during this time. Thanks for your understanding. Regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 8 months

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GPU node downtime 14.10.2024 13.00-17.00

by Trajanoski, Slave

Dear MedBioNode users, we have scheduled maintenance work with external company on GPU node sx088 on 14.10.2024 from 13.00 until 17.00. Please plan your job execution on this node only accordingly, since the node will be shutdown during this time. Thanks for your understanding. Regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 8 months

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new CPU node sy178 available

by Trajanoski, Slave

Dear MedBioNode users, great news for our cluster. Since today we have additional computational node sy178 as part of the CPU partition. Best regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 9 months

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new GPU resource sy129

by Trajanoski, Slave

Dear MedBioNode users, just short reminder for the users that run GPU based slurm jobs. Since several months there is new GPU node based on latest NVIDIA H100 Tensor Core GPU cards found by the name sy129 and they're addressed with h100 in slurm, or you can just request general GPU resource in slurm and the first available a100 or h100 will be assigned to your job. With this we have I total 12 GPUs on MedBioNode. Best regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 9 months

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RStudio server upgrade to R 4.4.1

by Trajanoski, Slave

Dear RStudio users, we're upgrading the current R 4.2.3 to the very latest R 4.4.1 on our RStudio server. The transition is planned for Monday 26 August 2024, when there will be short downtime of the RStudio server. I've installed all present R packages (858) on the existing R 4.2.3 to be also available on the new R 4.4.1. Thanks for your understanding and your cooperation. Best regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 10 months

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New GPU node sy129

by Trajanoski, Slave

Dear MedBioNode users, I have great news for you. Since Monday there is a new GPU node based on latest NVIDIA H100 Tensor Core GPU cards found by the name sy129. Please adopt your scripts adequately to use this new cluster resource. You can check its configuration with “scontrol show node sy129”. Best regards, Slave -- Slave Trajanoski, Phd Senior Scientist Bioinformatics CF Computational Bioanalytics, Center for medical research Medical University Graz Neue Stiftingtalstraße 6-West, Turm/Stiege:P, 4.Stock 8010 Graz Tel. +43 316 385 73024 E-Mail: slave.trajanoski(a)medunigraz.at<mailto:slave.trajanoski@medunigraz.at>

1 year, 12 months

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