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Tag: SLURM
NYU High Performance Computing – HPC Projects
Depending on your role, you will see the corresponding interface at the Portal. HPC Project Owner You can register an HPC project if you are a full-time faculty and sponsoring a currently active HPC account for research or instruction. If you are a part-time faculty teaching a course, please get…
Futurama: Hit & Run – Demo – Trailer 2 | Topic
Slurm Team youtu.be/o5MliascY_Q Futurama: Hit & Run the demo is set to release Late August – Early September! Not long now! Futurama: Hit & Run the demo is set to release Late August – Early September! Not long now! dimitarkol05 Great Trailer theALVA_YT2022 Hi! I’m a youtuber and I…
Buy Slurm Bottle Cap style pin #Futurama #MadeInUSA Online at desertcart Antigua and Barbuda
Disclaimer: The price shown above includes all applicable taxes and fees. The information provided above is for reference purposes only. Products may go out of stock and delivery estimates may change at any time. desertcart does not validate any claims made in the product descriptions above. For additional information, please…
Classifier and Heuristic Quality Filtering
While the following steps can be run manually using the commands given, we also provide a SLURM script in the examples folder that follows the same procedure. It must be filled in with the necessary parameters described below before running. The classifier-based filtering approach we have implemented follows closely to…
Cluster Information – SLING user documentation
Slurm offers a range of commands for interacting with the cluster. In this section, we will explore some examples of using the sinfo, squeue, scontrol, and sacct commands, which provide valuable insights into the cluster’s configuration and status. For comprehensive information on all the commands supported by Slurm, please refer…
Downstream Task Decontamination/Deduplication – NVIDIA Docs
While the following steps can be run manually using the commands given, we also provide a SLURM script in the examples folder that follows the same procedure. It must be filled in with the necessary parameters described below before running. Within the NeMo Data Curator, users can use the prepare_task_data,…
[slurm-users] GPU devices mapping with job’s cgroup in cgroups v2 using eBPF
Hello all, Happy new year! We have recently upgraded the cgroups on our SLURM cluster to v2. In cgroups v1, the interface `/devices.list` used to have the information of which device has been attached to that particular cgroup. From my understanding, cgroups v2 use eBPF to manage devices and so…
slurm fails on disconnected standalone computer/node
Hi, I have a setup similar to the one of the original reporter. My NodeName is localhost . The error messages at booting time scared me, so I dug the issue. I also related this issue to my observation that slurm fails to launch jobs when my standalone computer is…
hpc – For SLURM clusters why do we need to specify memory allocation for jobs?
It’s not so much a problem of allocating memory, but of knowing the shape of the workload to place it optimally (or at least non-problematically) in the cluster. The point is so that jobs can be placed on nodes with sufficient memory to handle the task. This avoids problems that…
Debian — File list of package slurm-wlm-mysql-plugin/sid/riscv64
/usr/lib/riscv64-linux-gnu/slurm-wlm/accounting_storage_mysql.so /usr/lib/riscv64-linux-gnu/slurm-wlm/jobcomp_mysql.so /usr/share/doc/slurm-wlm-mysql-plugin/changelog.Debian.gz /usr/share/doc/slurm-wlm-mysql-plugin/copyright /usr/share/lintian/overrides/slurm-wlm-mysql-plugin /usr/lib/riscv64-linux-gnu/slurm-wlm/accounting_storage_mysql.so /usr/lib/riscv64-linux-gnu/slurm-wlm/jobcomp_mysql.so /usr/share/doc/slurm-wlm-mysql-plugin/changelog.Debian.gz /usr/share/doc/slurm-wlm-mysql-plugin/copyright /usr/share/lintian/overrides/slurm-wlm-mysql-plugin Read more here: Source link
[slurm-users] Reproducible irreproducible problem (timeout?)
I know that sounds improbable, but please readon. I am running a reasonably large job on a University supercomputer (not a national facility) with 12 nodes on 64 core nodes. The job loops through a sequence of commands some of which are single cpu, but with a slow step where…
mysql – Trying to Authenticate the Slurm User via Keys Instead of Password Using the pam Plugin on MariaDB
mysql – Trying to Authenticate the Slurm User via Keys Instead of Password Using the pam Plugin on MariaDB – Database Administrators Stack Exchange Stack Exchange Network Stack Exchange network consists of 183 Q&A communities including Stack Overflow, the largest, most trusted online community for developers to learn, share their…
[slurm-users] Adding an association to a different account
TL,DR: How do you associate an existing user with a second account? I have a user who has a default account, and I want to give them the ability to run jobs in a different account for billback purposes. My understanding is that this is what associations are for, but…
Problem getting GPU solving to work with our Azure CycleCloud / Slurm HPC cluster System
I am using the Azure CycleCloud 8.4 Marketplace image and it is fully updated, along with Slurm version 22.05.8-1. I have configured a GPU Enabled Slurm Partition consisting of some NC24sv3 VMs (which have 4x Nvidia Tesla V100 GPUS in each), but the Slurm Scheduler is showing the Partition as…
Bwa-mem2 indexing not working down stream
Bwa-mem2 indexing not working down stream 0 I am using bwa-mem2 to create my index and to map my reads to the reference genome. This is my indexing code #!/bin/bash #SBATCH -J index #SBATCH -A gts-rro3 #SBATCH -N 1 –ntasks-per-node=24 #SBATCH –mem-per-cpu=8G #SBATCH -t 1:00:00 #SBATCH -o index.out cd $SLURM_SUBMIT_DIR…
mpi – Slurm error ” Allocation requested cores/tasks must be in quarter increments “
Hi I am using the bridges2 supercomputer in PSC for running jobs, when I am trying to submit the job using the script below, I am getting the error sbatch: error: Allocation requested cores/tasks must be in quarter increments of EM node resources (24, 48, 72, 96) sbatch: error: Batch…
[slurm-users] Configuring AMD GPUs
Hello list. I’m reading documentation about gres types, specifically this part: slurm.schedmd.com/gres.conf.html#OPT_File which seems to be relevant to NVidia GPUs, but, correct me if I’m wrong, not so much relevant to AMD GPUs. I couldn’t find any information about AMD GPUs being exposed as files in the same or similar…
slurm @angelicapothecaryote – Tumblr Blog
when I was around twelve I used to sit at the family computer and send hatemail to a white french dude named Jacques who was a self proclaimed communist on Tumblr. This was back in the day when you didn’t need a blog to send anon hate. I had no…
CVE-2023-41914 | SUSE
SchedMD Slurm 23.02.x before 23.02.6 and 22.05.x before 22.05.10 allows filesystem race conditions for gaining ownership of a file, overwriting a file, or deleting files. Please note that this evaluation state might be work in progress, incomplete or outdated. Also information for service packs in the LTSS phase is only…
[QSA-1215232] Slurm vulnerabilities | Qlustar
[QSA-1215232] Slurm vulnerabilities Qlustar Security Advisory 1215232 December 15th, 2023 Summary: Slurm vulnerabilities Package(s) : slurmctld, slurmdbd, qlustar-module-slurm-focal-amd64-12.0.3, qlustar-module-slurm-jammy-amd64-13.1, qlustar-module-slurm-centos8-amd64-13.1 Qlustar releases : 12.0, 13 Affected versions: All versions prior to this update Vulnerability : Privilege escalation Problem type : local Qlustar-specific : no CVE Id(s) : CVE-2023-49933, CVE-2023-49934, CVE-2023-49935,…
Slurm job submisson script: assigning gpus to separate processes when asking for multiple nodes
I’m trying to submit a slurm job that requires 8 gpus. The cluster I am submitting to has 2 gpus per node and therefore I request 4 nodes. I was wondering how can I construct my job submission script so that 32 processes are split amongst the 8 gpus (4…
Download Slurm Dashboard 0.0.3 Extension (Vsix File) for VS Code
You are about to download the Slurm Dashboard Vsix v0.0.3 file for Visual Studio Code 1.85.0 and up: Slurm Dashboard, A dashboard for the Slurm workload manager. … Please note that the Slurm Dashboard Vsix file v0.0.3 on VsixHub is the original file archived from the Visual Studio Marketplace. You…
CVE-2023-49933 CVE-2023-49935 CVE-2023-49936 CVE-2023-49937 CVE-2023-49938
Source: slurm-wlm Version: 23.02.6-1 Severity: grave Tags: security upstream X-Debbugs-Cc: car…@debian.org, Debian Security Team <t…@security.debian.org> Hi Gennaro, The following vulnerabilities were published for slurm-wlm. CVE-2023-49933[0]: | An issue was discovered in SchedMD Slurm 22.05.x, 23.02.x, and | 23.11.x. There is Improper Enforcement of Message Integrity During | Transmission in a…
How To Install slurm-doc on Rocky Linux 8
In this tutorial we learn how to install slurm-doc on Rocky Linux 8. slurm-doc is Slurm documentation Introduction In this tutorial we learn how to install slurm-doc on Rocky Linux 8. What is slurm-doc Documentation package for Slurm. Includes documentation and html-based configuration tools for Slurm. We can use yum…
How to run multiple PLAMS jobs through SLURM (video tip of the week)
14 December 2023 In this video tip of the week, we’ll show how easy it is to run several PLAMS jobs through the SLURM queueing system, both on one and across several nodes. See also the PLAMS cookbook for more information on parallel execution of PLAMS jobs. You have already…
[slurm-users] Slurm versions 23.11.1, 23.02.7, 22.05.11 are now available (CVE-2023-49933 through CVE-2023-49938)
Slurm versions 23.11.1, 23.02.7, 22.05.11 are now available and address a number of recently-discovered security issues. They’ve been assigned CVE-2023-49933 through CVE-2023-49938. SchedMD customers were informed on November 29th and provided a patch on request; this process is documented in our security policy. [1] There are no mitigations available for…
gpu – slurm – dynamic allocation
Thanks for reading this question I am interested in implementing a dynamic and fair distribution of GPUs based on current usage situations. For instance, in a server with 12 GPUs and 3 users, I would initially allocate 4 GPUs to each user fairly. As the situation changes, if one user…
[slurm-users] How to check the bench mark capacity of the SLURM setup
On 12/13/23 10:44, John Joseph wrote: > Thanks for the mail, and sorry for not properly explaining what info I was > requesting, what actually I meant was that how could we could do a check > how the HPC system I set is working. > > Eg a program…
[slurm-users] powersave: excluding nodes
I configured my slurm.conf with SuspendExcNodes=node[01-12]:2,node[13-32]:2,node[33-34]:1,nodegpu[01-02]:1 SuspendExcStates=down,drain,fail,maint,not_responding,reserved #SuspendExcParts= (the nodes in the different groups have different amounts of physical memory). Unfortunately, it seems to me that slurm does not honor such a setting and excludes only the two nodes from one group, but shuts off everything else. Is there…
sbatch – All slurm jobs fail silently with exit code 0:53
It turns out that the directory containing the files that slurm was supposed to write stdout and stderr to didn’t exist. In my submit.sh script, the relevant lines were: #SBATCH –output=log/%j.out # where to store the output ( %j is the JOBID ) #SBATCH –error=log/%j.err # where to store error…
Unable to start Model Training with Ray Train on SLURM Cluster – Ray Libraries (Data, Train, Tune, Serve)
I’d like to set up a Slurm cluster with a master + n worker nodes, then run a HPO framework which runs the training (done with Ray Train) in a spawned process. Each spawn process is on a separate node. When I have 2 interactive SLURM nodes I am able…
Troubleshooting an Unhandled error in Parallel Computation on a Slurm Cluster – General Usage
Hello Julia community! I’m encountering an issue with distributing some computation across threads of multiple nodes in a Slurm cluster. I’m using Distributed.jl, SlurmClusterManager.jl, and SharedArrays.jl to parallelize my code. Part 1: Setting Up Environment and Parameters # Load environment on main process import Pkg pkgdir = dirname(@__FILE__) Pkg.activate(pkgdir *…
[slurm-users] Recommendation on running multiple jobs
Dear Users, May I have your guidance? How to run the multiple job in the server, We have 2 servers Platinum and Cerium, when I launch the 2 job in Platinum the tool launches successfully and distribute the job to 2 different servers. but while launching the 3rd…
bash – Running task once in a slurm script with job array
I am running a couple of jobs in parallel using the following slurm script: #!/bin/bash #SBATCH –job-name=”example” #SBATCH –account=”st-me-1″ #SBATCH –array=0-9 #SBATCH –nodes=1 #SBATCH –ntasks-per-node=8 #SBATCH –time=1:00:00 #SBATCH –mem=32000mb # Change directory into the job dir cd $SLURM_SUBMIT_DIR # Load conda environment source ~/.bashrc # Activate conda environment conda activate…
cluster – Slurm nodes randomly dropping
I’ve set up a cluster using Slurm, consisting of a head node, 16 compute nodes, and an NAS with NFS-4 network shared storage. I’ve recently installed Slurm on Ubuntu v22 via apt (sinfo -V reveals slurm-wlm 21.08.5). I’ve tested with some single-node and multi-node jobs, and I can get jobs…
[slurm-users] SlurmdSpoolDir full
Dear slurm-user list, during a larger cluster run (the same I mentioned earlier 242 nodes), I got the error “SlurmdSpoolDir full”. The SlurmdSpoolDir is apparently a directory on the workers that is used for job state information (slurm.schedmd.com/slurm.conf.html#OPT_SlurmdSpoolDir). However, I was unable to find more precise information on that dictionary. We compute all data on…
[slurm-users] Troubleshooting job stuck in Pending state
Hi folks, I’m looking for some advice on how to troubleshoot jobs we occasionally see on our cluster that are stuck in a pending state despite sufficient matching resources being free. In the case I’m trying to troubleshoot the Reason field lists (Priority) but to find any way to…
HoldStill – SLURM! ft. Sleeme Yace MP3 Download & Lyrics
Listen to HoldStill SLURM! ft. Sleeme Yace MP3 song. SLURM! ft. Sleeme Yace song from album Sluts Vs. Whores is released in 2023. The duration of song is 00:01:43. The song is sung by HoldStill. Related Tags: SLURM! ft. Sleeme Yace, SLURM! ft. Sleeme Yace song, SLURM! ft. Sleeme Yace…
Run multiple independent experiments (with slurm) – Ray Tune
Medium: my experiments are needlessly repeated many times I’m using Ray Tune (v 2.1.0 – can’t update to newer version) to run hyperparameter optimisations. I need to do multiple independent experiments with the same scheduler, same search space, same trainable but slightly different config (different architecture).I launch these experiments on…
python – Linux, Slurm: kill slurm jub when monitoring process get suddenly killed
Closed. This question needs debugging details. It is not currently accepting answers. I have a python process which calls sbatch command, gets id number of slurm task and proceeds with monitoring this task (running, pemding or finished) and displaying this info to a user. The user may suddenly kill the…
[slurm-users] Time spent in PENDING/Priority
We use Prometheus as our primary metric tool, and I recently added a metric for jobs in PENDING for the specific reason of “priority”. So we’ll have some nice data for when we are preparing for FY 2025, I suppose, the problem is for this past year we are stuck…
slurm – how to cancel several jobs based on the job name
I am running several jobs on a cluster, however I want cancel multiple jobs based on its name instead of the job id. I read the slurm documentation and I see I can cancel them using scancel -n jobname but instead of doing 1 by 1, i want to mass…
linux – MPI_Init_thread Error When Integrating LAMMPS and Parallel Python in Slurm Script
I am attempting to submit a Slurm script on my school’s clusters, aiming to perform LAMMPS calculations and post-processing with MPI-based parallel Python in a single script. However, I encountered an error. After experimenting, I have distilled the script to its minimal form that consistently triggers the error. my Slurm…
[slurm-users] Issues with orphaned jobs after update
Hi, Yesterday, an upgrade to slurm from 22.05.4 to 23.11.0 went sideways and I ended up losing a number of jobs on the compute nodes. Ultimately, the installation seems to be successful but I now have some issues with job remnants it appears. About once per minute (per job), the slurmctld…
Slurm REST API in AWS ParallelCluster
This post was contributed by Sean Smith, Sr HPC Solution Architect, and Ryan Kilpadi, SDE Intern, HPC AWS ParallelCluster offers powerful compute capabilities for problems ranging from discovering new drugs, to designing F1 race cars, to predicting the weather. In all these cases there’s a need for a human to…
When is RESUME an invalid node state?
Hi Xaver, Your version of Slurm may matter for your power saving experience. Do you run an updated version? /Ole On 12/6/23 10:54, Xaver Stiensmeier wrote: > Hi Ole, > > I will double check, but I am very sure that giving a reason is possible > as it has been done at…
Planning to use Kubernetes of a system in which already has SLURM configured – General Discussions
Dear All,Good morningWe have 4 nodes which is already installed with Ubuntu 22.04 , SLURM and we are not usinging much of HPC on this system.In order to make use of the existing hardware we plan to install Kubernetes on the same machine which has SLURM installed , my concern…
[slurm-users] Disabling SWAP space will it effect SLURM working
Hi Joseph, This might depend on the rest of your configuration, but in general swap should not be needed for anything on Linux. BUT: you might get OOM killer messages in your system logs, and SLURM might fall victim to the OOM killer (OOM = Out Of Memory) if you…
python – SLURM: Run Same Parallel Script on Multiple Files
First, you need to be careful with your usage of –ntasks-per-node. The directives for sbatch can be a little bit confusing at first: –nodes — this is the number of nodes that you are requesting for your job. Note: the number of CPUs per node entirely depends on the cluster…
Slurping Down Slurm by VivaciousVox97 — Fur Affinity [dot] net
It would appear the ladies of Planet Express have won another trip to Wormulon’s Slurm Factory, and are now allowed all the Slurm they can drink. Due to its highly addictive taste, Leela and Amy cannot seem to stop, especially the latter. Turanga Leela and Amy Wong © Matt Groening…
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Futurama Season 2 is an animated sci-fi sitcom that follows the adventures of Philip J. Fry, a cryogenical who had been preserved for 1000 years but is brought back to life in 2999. Moreover, it was created by Matt Groening and released by Fox Broadcasting Company in November 1999. Here’s…
Sorted bam files are empty after sorting them from bam
Sorted bam files are empty after sorting them from bam 0 Hi, I have been working with all my DNA analysis files in parallels but I got to a point where I had about 15 files get stuck on one step. Specifically, I notice something is wrong because the files…
EVE Search – Slurm Worm’s posting statistics
User statistics forSlurm Worm General statistics Total posts 6 (view posts) Ranked #307600 Likes 0 First post 2013-06-28 22:00:00 (in thread WTS Good Freighter Pilot) Last post 2013-06-30 02:18:00 (in thread WTS – 43.7M+ SP) Duration 2 days (active period), 3812 days (since first post) Daily average 3,0 posts/day…
Kill Slurm Job when browser tab closes – JupyterHub
pgierz December 4, 2023, 9:22am 1 Hello, I’m deploying an HPC-enabled Jupyterhub which will use a SLURM spawner. I would like to communicate to SLURM to cancel the scheduler jobs when the browser tab is closed. Is it possible to send signals to the system on a browser-tab-close action? (sorry…
HPC Kubernetes: AI Training on 3,500 GPUs
To date, Kubernetes has largely steered clear of the high-performance computing (HPC), or supercomputing space. But with such a premium being put on GPUs for large machine learning these days, Kubernetes could provide a more dynamic way for managing vast fleets of GPUs, with the little help from tools that…
Resolving Slurm cgroups Plugin Errors on Ubuntu 22.04 Nodes
I’m working with Slurm and facing issues specifically with the cgroups plugin on Ubuntu 22.04 nodes. Our team is relatively new to Slurm, and we’ve been trying to optimize our resource management for complex computing tasks. However, we’ve encountered a series of errors that are proving difficult to resolve. Here’s…
Troubleshooting Slurm cgroups Plugin on Ubuntu 22.04
I’m facing a challenging issue with the Slurm cgroups plugin on a system running Ubuntu 22.04. We’re relatively new to Slurm and started using it for better resource management in complex computing tasks. However, we’ve hit a snag with the cgroups plugin, particularly on our Ubuntu 22.04 nodes. Here’s what…
[slurm-users] Autodetect of nvml is not working in gres.conf
Hi all, If you could offer a little bit more details on your OS and Slurm version that might shed some light. There is an interesting detail about the NVML package if you are using RHEL-like OS. The NVML detection part of the slurm library (/usr/lib64/slurm/gpu_nvml.so) is linked against the…
Puzzling error with ‘importnk2()’ function using SLURM job manager
I have a very specific problem that only occurs when using the SLURM job manager on the high-performance cluster (HPC) of my university. It does not happen when I run the code on the login node of the HPC or on my own computer. When I call FDTD via Python,…
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The Center for Applied Bioinformatics (CAB) at the St. Jude Children’s Research Hospital (SJCRH) is seeking a creative Software Engineer with a strong background in bioinformatics to join our development team to create and maintain our vital analytical infrastructure. The new hire will work closely with a team of computer…
AI startup Imbue spends $150 million on Dell servers
AI startup Imbue, which is building its own foundation models, has inked a $150 million deal with Dell for servers to train its emerging models. The two have co-designed a compute setup running inside AI cloud provider Voltage Park’s facilities, built on Dell PowerEdge XE9680 servers. Imbue, formerly known as…
JupyterHub custom server options drop down menus – Zero to JupyterHub on Kubernetes
gcerar November 27, 2023, 3:22pm 1 Is it possible to achieve something similar on bare-metal Z2JH deployment, as shown in the Figure below? I’m thinking of revamping our cluster and I would offering a selection of docker images, where users could pick any number of GPUs and reserve a certain…
Security update for slurm SUSE-SU-2023:4578-1 | SUSE Support
Announcement ID: SUSE-SU-2023:4578-1 Rating: important References: bsc#1216207 bsc#1216869 Cross-References: CVE-2023-41914 CVSS scores: CVE-2023-41914 ( SUSE ): 8.8 CVSS:3.1/AV:N/AC:L/PR:L/UI:N/S:U/C:H/I:H/A:H CVE-2023-41914 ( NVD ): 7.0 CVSS:3.1/AV:L/AC:H/PR:L/UI:N/S:U/C:H/I:H/A:H Affected Products: HPC Module 15-SP5 openSUSE Leap 15.5 SUSE Linux Enterprise Desktop 15 SP5 SUSE Linux Enterprise High Performance Computing 15 SP5 SUSE Linux Enterprise Micro…
Running STAR on fastq file generated from a RNA-seq experiment
Running STAR on fastq file generated from a RNA-seq experiment 1 Hi, I am new to bioinformatics, especially on the command line. I am trying to run STAR alignment on pairs of fastq.gz files from several samples generated as part of an RNAseq experiment. My goal is to perform splice…
SUSE alert SUSE-SU-2023:4581-1 (slurm_22_05) [LWN.net]
From: sle-security-updates@lists.suse.com To: sle-security-updates@lists.suse.com Subject: SUSE-SU-2023:4581-1: important: Security update for slurm_22_05 Date: Mon, 27 Nov 2023 12:30:18 -0000 Message-ID: <170108821854.634.5846566020364917363@smelt2.prg2.suse.org> # Security update for slurm_22_05 Announcement ID: SUSE-SU-2023:4581-1 Rating: important References: * bsc#1208810 * bsc#1216207 * bsc#1216869 Cross-References: * CVE-2023-41914 CVSS scores: * CVE-2023-41914 (…
Enjoy slurm it’s highly addictive shirt
Introducing the Enjoy Slurm It’s Highly Addictive Shirt! This stylish and comfortable shirt is perfect for any fan of the classic sci-fi show Futurama. Featuring a bright yellow design with the iconic Slurm logo, this shirt is sure to make a statement. The Enjoy Slurm It’s Highly Addictive Shirt is…
Rstudio Server not working for only one user – RStudio IDE
Hello I am an admin of an rstudio-server, I was asked to create a new account today everything seemed to work fine but this new user can’t use Rstudio inside the server. He logs in normally but when selecting new session and using Rstudio as editor the session wont start…
How to run python experiments with Slurm and Conda? | by Hitesh Vaidya | Nov, 2023
source: getyarn.io/yarn-clip/368e3529-f540-4cfa-af28-d40a2ca2b99d As data scientists and researchers, efficiently managing multiple machine learning experiments is fundamental to our work. Tools like Slurm and Conda offer powerful capabilities that streamline the execution of experiments on high-performance computing clusters while ensuring environment consistency and reproducibility. In this blog, we will take a look…
SLURM: RuntimeError: CUDA error: CUDA-capable device(s) is/are busy or unavailable – distributed
I am trying to train EG3D on a slurm cluster using multiple gpus. But am getting the following error: File “/home/dmpribak/ondemand/data/sys/myjobs/projects/default/4/train.py”, line 395, in main launch_training(c=c, desc=desc, outdir=opts.outdir, dry_run=opts.dry_run) File “/home/dmpribak/ondemand/data/sys/myjobs/projects/default/4/train.py”, line 105, in launch_training torch.multiprocessing.spawn(fn=subprocess_fn, args=(c, temp_dir), nprocs=c.num_gpus) File “/home/dmpribak/.conda/envs/eg3d3/lib/python3.11/site-packages/torch/multiprocessing/spawn.py”, line 246, in spawn return start_processes(fn, args, nprocs, join,…
[slurm-users] parastation (mpi)
On 11/24/23 06:16, Heckes, Frank wrote: > My colleagues are using this toolchains on Jülich cluster (especially > Juwels). My question is whether these eb files can be shared ? I would > be interested especially in the ones using NVHPC as core module. If Jülich developed that toolchain then…
Enjoy slurm it’s highly addictive shirt, hoodie, sweater, long sleeve and tank top
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[slurm-users] slurm comunication between versions
Hello I have a curiosity and question in the same time, Will slurm-20.02 which is installed on a management node comunicate with slurm-22.05 installed on a work nodes? They have the same configuration file slurm.conf Or do the version have to be the same. Slurm 20.02 was installed manually and…
[slurm-users] Releasing stale allocated TRES
Hi there, I have a recurring problem with allocated TRES, which are not released after all jobs on that node are finished. The TRES are still marked as allocated and no new jobs can’t be scheduled on that node using those TRES. $ scontrol show node node2 NodeName=node2 Arch=x86_64 CoresPerSocket=64 CPUAlloc=0 CPUTot=256…
resources – Snakemake, slurm and memory
I am struggling to understand how snakemake submits jobs to slurm. When I have a basic slurm sbatch script I usually add a line, such as #SBATCH –mem=5Gto determine that slurm may use 5 gigabytes (and no more) of memory. Now, I am using snakemake together with slurm with snakemake…
[slurm-users] Dynamic MIG Question
Hello All, I am currently working in a research project and we are trying to find out whether we can use NVIDIAs multi-instance GPU (MIG) dynamically in SLURM. For instance: – a user requests a job and wants a GPU but none is available – now SLURM will reconfigure a…
[slurm-users] slurm power save question
For example nid[10-20]:4 will prevent 4 usable nodes (i.e IDLE and not DOWN, DRAINING or already powered down) in the set nid[10-20] from being powered down. I initially interpreted that as “Slurm will try to keep 4 nodes idle on as much as possible”, which would have reduced the wait time for new jobs…
slurm 23.11.0 – Download, Browsing & More
slurm 23.11.0 – Download, Browsing & More | Fossies Archive “Fossies” – the Fresh Open Source Software Archive Contents of slurm-23.11.0.tar.bz2 (22 Nov 00:04, 7353218 Bytes) About: Slurm is a fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters. Fossies downloads: / linux /…
Slurm setup – Software & Operating Systems
mmk November 22, 2023, 2:51pm #1 Hi all, I’m attempting to set up a simple cluster with one head node / front end, and 16 compute nodes. All nodes are identical. I have seemingly successfully setup slurmctld on the head node, and slurmd on all compute nodes. “sinfo” from the…
[slurm-users] partition qos without managing users
You would have to do such syncing with your own scripts. There is no way slurm would be able to tell which users should have access and what access without the slurmdb and such info is not contained in AD. At our site, we iterate through the group(s) that are…
Mount Bucket on Google Storage on login node in google slurm cluster
I’m using the Google Slurm cluster. All the nodes, including the login nodes in the cluster, have mounts to the home directory on the controller. I can my Google bucket with the gcsfuse command to /home/my_data/ on the login node. I could access the data from the login node. However,…
[slurm-users] Usage of particular GPU out of 4 GPUs while submitting
Hi Daniel Letai Thanks for the quick response and guidance. I have done the changes as mentioned in gres.conf and slurm.conf and now I am able to submit the jobs to a particular GPU. Regarding MIG, it was just a thought came in m mind, in case studentA wants to…
[slurm-users] Default SelectTypeParameters option
Hi, I have noticed our site relies on the default value SelectTypeParameters (e.g. not specified in slurm.conf) which should be same as: SelectTypeParameters=CR_Core_Memory I have noticed some strange behaviour where the compute nodes do not seem to use memory cgroup e.g. in the log without the above…
[slurm-users] Usage of particular GPU out of 4 GPUs while submitting jobs to DGX Server
Hello Everyone I am just beginner of slurm and started to use the same on our DGX Server which has 4 numbers of A100, 80GB GPUs. Everything works fine, jobs goes to random GPUs (free available). My question is related to submission of jobs to those GPUs. How…
Optimizing Language Model Training: A Practical Guide to SLURM | by Viktorciroski | Nov, 2023
In the dynamic world of deep learning, pushing the boundaries of language models often bumps into the memory limits of individual GPUs, like the NVIDIA GeForce RTX 3090. With 24 GB of GDDR6X memory, it’s a powerhouse, but models such as Llama 2 can still stress these resources, causing headaches…
[slurm-users] SLURM new user query, does SLURM has GUI /Web based management version also
On 19-11-2023 09:11, Joseph John wrote: > I am new user, trying out SLURM > > Like to check if the SLURM has a GUI/web based management tool also Did you read the Quick Start Administrator Guide at slurm.schedmd.com/quickstart_admin.html ? I don’t believe there are any Slurm management tools as…
Slurm Shandy @slurmshandy,bsky.social Ad guys be like “i know a spot” and then take you here Nov 14, 2023 at
memepedia log in Animals & Nature Anime & Manga Art & Creative Cars Celebrities Gaming Girls Internet Memes Movies Other Politics Science & Tech Sports TV shows log in add meme new featured top memes memes catalog Animals & Nature Anime & Manga Art & Creative Cars Celebrities Gaming Girls…
[slurm-users] slurm job_container/tmpfs
Dear slurm community, I run slurm 21.08.1 under Rocky Linux 8.5 on my small HPC cluster and am trying to configure job_container/tmpfs to manage the temporary directories. I have a shared nfs drive “/home” and a local “/scratch” (with permissions 1777) on each node. For each submitted…
Slurm Shandy guys be like “i know a spot” and then take you here Nov 14, 2023 at
memepedia log in Animals & Nature Anime & Manga Art & Creative Cars Celebrities Gaming Girls Internet Memes Movies Other Politics Science & Tech Sports TV shows log in add meme new featured top memes memes catalog Animals & Nature Anime & Manga Art & Creative Cars Celebrities Gaming Girls…
slurm – Reserve some CPUs on a node for GPU jobs
I’m setting up a GPU cluster with Slurm. The nodes have a variable number of CPU cores (8-32) and a variable number of GPUs (1-4). The GPU jobs that are going to run generally require very little CPU resource, but there is likely to be a large number of CPU-only…
Exited with exit code 255 “Display Warning”
Dear Slurm Users, May I have your suggestion/recommendation to solve the issue, We have 2 servers Platinum and Cerium, when I launch the job in Platinum the tool launches successfully, and the job is complete. But when I try to launch a job in cerium from platinum,…
End user reports slurm jobs suddenly died with little in logs to find out why
I got a bunch of messages in slurm with the following: [2023-11-16T10:03:53.952] _slurm_rpc_kill_job: REQUEST_KILL_JOB JobId=50461580 uid 1900007651 [2023-11-16T10:03:53.958] _slurm_rpc_kill_job: REQUEST_KILL_JOB JobId=50521673_[2-183] uid 1900007651 [2023-11-16T10:03:53.958] _slurm_rpc_kill_job: REQUEST_KILL_JOB JobId=50523246_[1-198] uid 1900007651 [2023-11-16T10:03:53.958] _slurm_rpc_kill_job: REQUEST_KILL_JOB JobId=50522320_[278-377] uid 1900007651 [2023-11-16T10:03:53.958] _slurm_rpc_kill_job: REQUEST_KILL_JOB JobId=50522600_[1-377] uid 1900007651 [2023-11-16T10:03:53.958] _slurm_rpc_kill_job: REQUEST_KILL_JOB JobId=50527650_[13-71] uid 1900007651 [2023-11-16T10:03:53.958] _slurm_rpc_kill_job: REQUEST_KILL_JOB…
slurmctld.log not available after logrotate
Package: slurmctld Version: 22.05.8-4+deb12u1 Severity: normal Tags: patch X-Debbugs-Cc: alois.schlo…@gmail.com Dear Maintainer, After migrating the slurmctld from debian11/slurm20 to a host with debian12/slurm22, /var/log/slurm/slurmctld.log was rotated at midnight, to /var/log/slurm/slurmctld.log.1.gz but no /var/log/slurm/slurmctld.log was generated. syslog of logrotate showed this log message: 2023-11-17T00:00:01.825407+01:00 l74 logrotate[3441040]:…
[slurm-users] job_desc.pn-min-memory in LUA jobsubmit-plugin
Hello, we are using Slurm Version 23.02.3 and are working on a job_submit-plugin written in LUA. During the development of the script we found out, that values we give for –mem will appear in the job-submit-plugin in the variable job_desc.pn-min-memory and for –mem-per-cpu will appear in the variable…
Pytorch 2.1 on slurm – PyTorch Forums
Hello, I upraded my pytorch to 2.1 and there seem to be issues when I am running it on GPU on the slurm cluster I use. File “/storage/home/hcoda1/6/user123/VIT/model_reg_square.py”, line 292, in <module> y_pred = model(x_masked, attn_mask) File “/storage/home/hcoda1/6/user123/.conda/envs/myenv/lib/python3.10/site-packages/torch/nn/modules/module.py”, line 1518, in _wrapped_call_impl return self._call_impl(*args, **kwargs) File “/storage/home/hcoda1/6/user123/.conda/envs/myenv/lib/python3.10/site-packages/torch/nn/modules/module.py”, line 1527, in…
[slurm-users] meaning of “next_state_after_reboot” in scontrol show node output / API
I’m writing ansible module to interact with my clusters, so currently diving in –yaml output of `scontrol show node`.. What is the meaning of “next_state_after_reboot” attribute of node? eg for one of my nodes, it is: “next_state_after_reboot”: [ “INVALID”, “PERFCTRS”, “RESERVED”, “UNDRAIN”, “CLOUD”, “RESUME”, “DRAIN”, “COMPLETING”, “NOT_RESPONDING”, “POWERED_DOWN”, “FAIL”, …
cryptic error with pod5 subset tool
I’m running into a error that I haven’t managed to debug so far. The job runs for a few seconds, and then stops writing files. The errors are not always exactly the same, nor they are happening at the same point of the subsetting process. Here is a representative example,…
Slurm All node state unk* – Nvidia Bright Cluster Manager
kmkim1 November 13, 2023, 2:36pm 1 If you enter sinfo after configuring the workload, all nodes in the defq partition will be displayed as unk*. When connecting to the node, the munge daemon is displayed as failed and node001 munged[4473]: Failed to find keyfile “/cm/shared/apps/slurm/var/munge/keys/munge.key”: No such file or directory…
Can slurm (slurmctld) run with zero defined partitions in slurm.conf?
I am seing the following error when bringing up a cluster before parittion are defined. [2022-11-29T21:39:33.595] debug: Reading slurm.conf file: /etc/slurm/slurm.conf [2022-11-29T21:39:33.596] No memory enforcing mechanism configured. [2022-11-29T21:39:33.597] topology/none: init: topology NONE plugin loaded [2022-11-29T21:39:33.597] debug: No DownNodes [2022-11-29T21:39:33.597] fatal: No PartitionName information available! [2022-11-29T21:39:33.599] slurmscriptd: debug: _slurmscriptd_mainloop: finished Does…
[slurm-users] TRES sreport per association
Dear All, is is possible to report GPU Minutes per association? Suppose I have two associations like this: sacctmgr show assoc where user=$(whoami) format=account%10,user%16,partition%12,qos%12,grptresmins%20 Account User Partition QOS GrpTRESMins ———- —————- ———— ———— ——————– staff kmwil gpu_adv 1gpu1d gres/gpu=10000 staff kmwil common 4gpu4d gres/gpu=100 When I run “sreport” I get (I think) the cumulative…
University of Alabama at Birmingham hiring BIOINFORMATICIAN I in Birmingham, Alabama, United States
Position Summary: The primary role is to execute a variety of data management and analysis tasks, ensuring the quality, reproducibility, and efficiency of processes related to high-dimensional data. You will collaborate with study investigators and fellow bioinformatics professionals within the department to contribute to high-quality, reproducible research across various scientific…