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Re: Problems with gres.conf
by Gestió Servidors 05 Jun '24

05 Jun '24

Hi, my GPU testing system (named “gpu-node”) is a simple computer with one socket and a processor " Intel(R) Core(TM) i7 CPU 950 @ 3.07GHz". Executing "lscpu", I can see there are 4 cores per socket, 2 threads per core and 8 CPUs: Architecture: x86_64 CPU op-mode(s): 32-bit, 64-bit Byte Order: Little Endian CPU(s): 8 On-line CPU(s) list: 0-7 Thread(s) per core: 2 Core(s) per socket: 4 Socket(s): 1 NUMA node(s): 1 Vendor ID: GenuineIntel CPU family: 6 Model: 26 Model name: Intel(R) Core(TM) i7 CPU 950 @ 3.07GHz My “gres.conf” file is: NodeName=gpu-node Name=gpu Type=GeForce-GTX-TITAN-X File=/dev/nvidia0 CPUs=0-1 NodeName=gpu-node Name=gpu Type=GeForce-GTX-TITAN-Black File=/dev/nvidia1 CPUs=2-3 Running “numactl -H” in “gpu-node” host, reports: available: 1 nodes (0) node 0 cpus: 0 1 2 3 4 5 6 7 node 0 size: 7809 MB node 0 free: 6597 MB node distances: node 0 0: 10 CPUs are assigned 0-1 for first GPU and 2-3 for second GPU. However, “lscpu” shows 8 CPUs… If I rewrite “gres.conf” in this way: NodeName=gpu-node Name=gpu Type=GeForce-GTX-TITAN-X File=/dev/nvidia0 CPUs=0-3 NodeName=gpu-node Name=gpu Type=GeForce-GTX-TITAN-Black File=/dev/nvidia1 CPUs=4-7 when I run “scontrol reconfigure”, slurmctld log reports this error message: [2024-06-05T11:42:18.558] error: _node_config_validate: gres/gpu: invalid GRES core specification (4-7) on node gpu-node So I think SLURM only can get physical cores and not threads, so my node only can serve 4 cores (in “lspcu”) but in gres.conf I need to write “CPUs”, not “Cores”… isn’t it? But if “numactl -H” shows 8 CPUs, why I can use this 8 CPUs in “gres.conf”? Sorry about this large email. Thanks.

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Problems with gres.conf
by Gestió Servidors 04 Jun '24

04 Jun '24

Hello, I am trying to rewrite my gres.conf file. Before changes, this file was just like this: NodeName=node-gpu-1 AutoDetect=off Name=gpu Type=GeForceRTX2070 File=/dev/nvidia0 Cores=0-11 NodeName=node-gpu-1 AutoDetect=off Name=gpu Type=GeForceGTX1080Ti File=/dev/nvidia1 Cores=12-23 NodeName=node-gpu-2 AutoDetect=off Name=gpu Type=GeForceGTX1080Ti File=/dev/nvidia0 Cores=0-11 NodeName=node-gpu-2 AutoDetect=off Name=gpu Type=GeForceGTX1080 File=/dev/nvidia1 Cores=12-23 NodeName=node-gpu-3 AutoDetect=off Name=gpu Type=GeForceRTX3080 File=/dev/nvidia0 Cores=0-11 NodeName=node-gpu-4 AutoDetect=off Name=gpu Type=GeForceRTX3080 File=/dev/nvidia0 Cores=0-7 # you can seee that nodes node-gpu-1 and node-gpu-2 have two GPUs each one, whereas nodes node-gpu-3 and node-gpu-4 have only one GPU each one And my slurmd.conf was this: [...] AccountingStorageTRES=gres/gpu GresTypes=gpu NodeName=node-gpu-1 CPUs=24 SocketsPerBoard=2 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=96000 TmpDisk=47000 Gres=gpu:GeForceRTX2070:1,gpu:GeForceGTX1080Ti:1 NodeName=node-gpu-2 CPUs=24 SocketsPerBoard=2 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=96000 TmpDisk=47000 Gres=gpu:GeForceGTX1080Ti:1,gpu:GeForceGTX1080:1 NodeName=node-gpu-3 CPUs=12 SocketsPerBoard=1 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=23000 Gres=gpu:GeForceRTX3080:1 NodeName=node-gpu-4 CPUs=8 SocketsPerBoard=1 CoresPerSocket=4 ThreadsPerCore=2 RealMemory=7800 Gres=gpu:GeForceRTX3080:1 NodeName=node-worker-[0-22] CPUs=12 SocketsPerBoard=1 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=47000 [...] With this configuration, all seems works fine, except slurmctld.log reports: [...] error: _node_config_validate: gres/gpu: invalid GRES core specification (0-11) on node node-gpu-3 error: _node_config_validate: gres/gpu: invalid GRES core specification (12-23) on node node-gpu-1 error: _node_config_validate: gres/gpu: invalid GRES core specification (12-23) on node node-gpu-2 error: _node_config_validate: gres/gpu: invalid GRES core specification (0-7) on node node-gpu-4 [...] However, even these errors, users can submit jobs and request GPUs resources. Now, I have tried to reconfigure gres.conf and slurmd.conf in this way: gres.conf: Name=gpu Type=GeForceRTX2070 File=/dev/nvidia0 Name=gpu Type=GeForceGTX1080Ti File=/dev/nvidia1 Name=gpu Type=GeForceGTX1080Ti File=/dev/nvidia0 Name=gpu Type=GeForceGTX1080 File=/dev/nvidia1 Name=gpu Type=GeForceRTX3080 File=/dev/nvidia0 Name=gpu Type=GeForceRTX3080 File=/dev/nvidia0 # there is no NodeName attribute slurmd.conf: [...] NodeName=node-gpu-1 SocketsPerBoard=2 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=96000 TmpDisk=47000 Gres=gpu:GeForceRTX2070:1,gpu:GeForceGTX1080Ti:1 NodeName=node-gpu-2 SocketsPerBoard=2 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=96000 TmpDisk=47000 Gres=gpu:GeForceGTX1080Ti:1,gpu:GeForceGTX1080:1 NodeName=node-gpu-3 SocketsPerBoard=1 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=23000 Gres=gpu:GeForceRTX3080:1 NodeName=node-gpu-4 SocketsPerBoard=1 CoresPerSocket=4 ThreadsPerCore=2 RealMemory=7800 Gres=gpu:GeForceRTX3080:1 NodeName=node-worker-[0-22] SocketsPerBoard=1 CoresPerSocket=6 ThreadsPerCore=2 RealMemory=47000 # there is no CPUs attribute [...] With this new configuration, nodes with GPU start correctly slurmd.service daemon, but nodes without GPU (node-worker-[0-22]) can't start slurmd.service daemon and returns this error: [...] error: Waiting for gres.conf file /dev/nvidia0 fatal: can't stat gres.conf file /dev/nvidia0: No such file or directory [...] It seems SLURM is waiting that "node-workers" have also an nvidia GPU but not, theses nodes haven't GPU... So, where is my configuration error? I have read in https://slurm.schedmd.com/gres.conf.html about syntax and examples but it seems I'm doing some wrong. Thanks!!

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Tracking GPU utilization with sacct
by Robertson, Jordan 03 Jun '24

03 Jun '24

Hi all, I’m trying to pull (and understand) some GPU usage metrics for historical purposes, and dug into sacct’s TRES reporting a bit. We have AccountingStorageTRES=gres/gpu set in slurm.conf so we do see gres/gpuutil and gres/gpumem numbers available, but I’m struggling to find Slurm-side documentation that describes the units of these values. In looking at the code for gpu_nvml.c it seems the “nvmlDeviceGetProcessUtilization” function is being used and returns units in percentages, but I’m lost on the rest of the calculation. Does anyone know if these units are percentages, and how they are calculated for the final job record, especially wrt multi-GPU jobs with a bunch of processes/moving parts? For context I’ve been looking at TRESUsageInTot and TRESUsageInAve so far. Also we’re currently running Slurm v23.02.6 Thanks in advance! -- Jordan Robertson Preferred pronouns: he/him/his Technology Architect | Research Technology Services DigITs, Technology Division Memorial Sloan Kettering Cancer Center 929-687-1066 robertj8(a)mskcc.org<mailto:robertj8@mskcc.org> ===================================================================== Please note that this e-mail and any files transmitted from Memorial Sloan Kettering Cancer Center may be privileged, confidential, and protected from disclosure under applicable law. If the reader of this message is not the intended recipient, or an employee or agent responsible for delivering this message to the intended recipient, you are hereby notified that any reading, dissemination, distribution, copying, or other use of this communication or any of its attachments is strictly prohibited. If you have received this communication in error, please notify the sender immediately by replying to this message and deleting this message, any attachments, and all copies and backups from your computer. Disclaimer ID:MSKCC

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sbatch and --nodes
by Michael DiDomenico 31 May '24

31 May '24

its friday and i'm either doing something silly or have a misconfig somewhere, i can't figure out which when i run sbatch --nodes=1 --cpus-per-task=1 --array=1-100 --output test_%A_%a.txt --wrap 'uname -n' sbatch doesn't seem to be adhering to the --nodes param. when i look at my output files it's spreading them across more nodes. in the simple case above it's 50/50, but if i through a random sleep in, it'll be more. and if i expand the array it'll use even more nodes. i'm using con/tres and have cr_core_memory,cr_one_core_per_task set

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Re: Container Jobs "hanging"
by Joshua Randall 31 May '24

31 May '24

Hi Sean, I appear to be having the same issue that you are having with OCI container jobs running forever / appearing to hang. I haven't figured it out yet, but perhaps we can compare notes and determine what aspect of configuration we both share. Like you, I was following the examples in https://slurm.schedmd.com/containers.html and originally encountered the issue with an alpine container image running the `uptime` command, but I have also confirmed the issue with other images including ubuntu and with other processes. I always get the same results - the container process runs to completion and exits, but then the slurm job continues to run until it is cancelled or killed. I have slurm v23.11.6 and am using the nvidia-container-runtime, what slurm version and runtime are you using? My oci.conf is: ``` $ cat /etc/slurm/oci.conf EnvExclude="^(SLURM_CONF|SLURM_CONF_SERVER)=" RunTimeEnvExclude="^(SLURM_CONF|SLURM_CONF_SERVER)=" RunTimeQuery="nvidia-container-runtime --rootless=true --root=/run/user/%U/ state %n.%u.%j.%s.%t" RunTimeKill="nvidia-container-runtime --rootless=true --root=/run/user/%U/ kill -a %n.%u.%j.%s.%t" RunTimeDelete="nvidia-container-runtime --rootless=true --root=/run/user/%U/ delete --force %n.%u.%j.%s.%t" RunTimeRun="nvidia-container-runtime --rootless=true --root=/run/user/%U/ run %n.%u.%j.%s.%t -b %b" ``` Hope that we can get to the bottom of this and resolve our issues with OCI containers! Josh. --- Hello. I am new to this list and Slurm overall. I have a lot of experience in computer operations, including Kubernetes, but I am currently exploring Slurm in some depth. I have set up a small cluster and, in general, have gotten things working, but when I try to run a container job, it runs the command but then appears to hang as if the job container is still running. So, running the following works, but it never returns to the prompt unless I use [Control-C]. $ srun --container /shared_fs/shared/oci_images/alpine uptime 19:21:47 up 20:43, 0 users, load average: 0.03, 0.25, 0.15 I'm unsure if something is misconfigured or if I'm misunderstanding how this should work, but any help and/or pointers would be greatly appreciated. Thanks! Sean -- slurm-users mailing list -- slurm...(a)lists.schedmd.com To unsubscribe send an email to slurm-us...(a)lists.schedmd.com -- Dr. Joshua C. Randall Principal Software Engineer Altos Labs email: jrandall(a)altoslabs.com -- Altos Labs UK Limited | England | Company reg 13484917 Registered address: 3rd Floor 1 Ashley Road, Altrincham, Cheshire, United Kingdom, WA14 2DT

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slurmdbd not connecting to mysql (mariadb)
by Radhouane Aniba 31 May '24

31 May '24

Hi everyone I am trying to get slurmdbd to run on my local home server but I am really struggling. Note : am a novice slurm user my slurmdbd always times out even though all the details in the conf file are correct My log looks like this [2024-05-29T20:51:30.088] Accounting storage MYSQL plugin loaded [2024-05-29T20:51:30.088] debug2: ArchiveDir = /tmp [2024-05-29T20:51:30.088] debug2: ArchiveScript = (null) [2024-05-29T20:51:30.088] debug2: AuthAltTypes = (null) [2024-05-29T20:51:30.088] debug2: AuthInfo = (null) [2024-05-29T20:51:30.088] debug2: AuthType = auth/munge [2024-05-29T20:51:30.088] debug2: CommitDelay = 0 [2024-05-29T20:51:30.088] debug2: DbdAddr = localhost [2024-05-29T20:51:30.088] debug2: DbdBackupHost = (null) [2024-05-29T20:51:30.088] debug2: DbdHost = head-node [2024-05-29T20:51:30.088] debug2: DbdPort = 7032 [2024-05-29T20:51:30.088] debug2: DebugFlags = (null) [2024-05-29T20:51:30.088] debug2: DebugLevel = 6 [2024-05-29T20:51:30.088] debug2: DebugLevelSyslog = 10 [2024-05-29T20:51:30.088] debug2: DefaultQOS = (null) [2024-05-29T20:51:30.088] debug2: LogFile = /var/log/slurmdbd.log [2024-05-29T20:51:30.088] debug2: MessageTimeout = 100 [2024-05-29T20:51:30.088] debug2: Parameters = (null) [2024-05-29T20:51:30.088] debug2: PidFile = /run/slurmdbd.pid [2024-05-29T20:51:30.088] debug2: PluginDir = /usr/lib/x86_64-linux-gnu/slurm-wlm [2024-05-29T20:51:30.088] debug2: PrivateData = none [2024-05-29T20:51:30.088] debug2: PurgeEventAfter = 1 months* [2024-05-29T20:51:30.088] debug2: PurgeJobAfter = 12 months* [2024-05-29T20:51:30.088] debug2: PurgeResvAfter = 1 months* [2024-05-29T20:51:30.088] debug2: PurgeStepAfter = 1 months [2024-05-29T20:51:30.088] debug2: PurgeSuspendAfter = 1 months [2024-05-29T20:51:30.088] debug2: PurgeTXNAfter = 12 months [2024-05-29T20:51:30.088] debug2: PurgeUsageAfter = 24 months [2024-05-29T20:51:30.088] debug2: SlurmUser = root(0) [2024-05-29T20:51:30.089] debug2: StorageBackupHost = (null) [2024-05-29T20:51:30.089] debug2: StorageHost = localhost [2024-05-29T20:51:30.089] debug2: StorageLoc = slurm_acct_db [2024-05-29T20:51:30.089] debug2: StoragePort = 3306 [2024-05-29T20:51:30.089] debug2: StorageType = accounting_storage/mysql [2024-05-29T20:51:30.089] debug2: StorageUser = slurm [2024-05-29T20:51:30.089] debug2: TCPTimeout = 2 [2024-05-29T20:51:30.089] debug2: TrackWCKey = 0 [2024-05-29T20:51:30.089] debug2: TrackSlurmctldDown= 0 [2024-05-29T20:51:30.089] debug2: acct_storage_p_get_connection: request new connection 1 [2024-05-29T20:51:30.089] debug2: Attempting to connect to localhost:3306 [2024-05-29T20:51:30.090] slurmdbd version 19.05.5 started [2024-05-29T20:51:30.090] debug2: running rollup at Wed May 29 20:51:30 2024 [2024-05-29T20:51:30.091] debug2: Everything rolled up [2024-05-29T20:51:49.673] Terminate signal (SIGINT or SIGTERM) received [2024-05-29T20:51:49.673] debug: rpc_mgr shutting down my config file looks like this ArchiveEvents=yes ArchiveJobs=yes ArchiveResvs=yes ArchiveSteps=no ArchiveSuspend=no ArchiveTXN=no ArchiveUsage=no PurgeEventAfter=1month PurgeJobAfter=12month PurgeResvAfter=1month PurgeStepAfter=1month PurgeSuspendAfter=1month PurgeTXNAfter=12month PurgeUsageAfter=24month # Authentication info AuthType=auth/munge # slurmDBD info DbdAddr=localhost DbdHost=head-node DbdPort=7032 SlurmUser=root MessageTimeout=100 DebugLevel=5 #DefaultQOS=normal,standby LogFile=/var/log/slurmdbd.log PidFile=/run/slurmdbd.pid #PrivateData=accounts,users,usage,jobs #TrackWCKey=yes # # Database info StorageType=accounting_storage/mysql StorageHost=localhost StoragePort=3306 StoragePass=slurmdbpass StorageUser=slurm StorageLoc=slurm_acct_db I used standard names and passwords to get started and I will change later but everytime I try to start slurmdbd.service it crashes and I have that log that I shared with you I use these versions slurmdbd -V slurm-wlm 19.05.5 mysql Ver 15.1 Distrib 10.3.39-MariaDB, for debian-linux-gnu (x86_64) using readline 5.2 Everything else Is working properly except I cannot get slurmdbd to work and at this point I exhausted all my possible trials :) looking for some expert insights :) Any idea what I am doing wrong here ? Also I didn't compile any slurm package. I used the binary from apt repos Any help will be appreciated Cheers Rad --

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Re: slurmdbd not connecting to mysql (mariadb)
by Radhouane Aniba 31 May '24

31 May '24

manually running it through sudo slurmdbd -D /path/to/conf is very quick on my fresh install trying to start the slurmdbd through systemctl take 3 minutes and then crashes and fail Is there an alternative to systemctl to start the slurmdbd in the background ? But most importantly I wanted to know why it takes so long through systemctl. Maybe I can increase the timeout limit ? On Thu, May 30, 2024 at 11:54 PM Ryan Novosielski <novosirj(a)rutgers.edu> wrote: > It may take longer to start than systemd allows for. How long does it take > to start from the command line? It’s common to need to run it manually for > upgrades to complete. > > -- > #BlackLivesMatter > ____ > || \\UTGERS, |---------------------------*O*--------------------------- > ||_// the State | Ryan Novosielski - novosirj(a)rutgers.edu > || \\ University | Sr. Technologist - 973/972.0922 (2x0922) ~*~ RBHS Campus > || \\ of NJ | Office of Advanced Research Computing - MSB > A555B, Newark > `' > > On May 30, 2024, at 20:24, Radhouane Aniba via slurm-users < > slurm-users(a)lists.schedmd.com> wrote: > > Ok I made some progress here. > > I removed and purged slurmdbd mysql mariadb etc .. and started from > scratch. > I added the recommended mysqld requirements > > Started slurmdbd manually : sudo slurmdbd -D /path/to/conf and everything > worked well > > When I tried to start the service sudo systemctl start slurmdbd.service > it didnt work > > sudo systemctl status slurmdbd.service > ● slurmdbd.service - Slurm DBD accounting daemon > Loaded: loaded (/etc/systemd/system/slurmdbd.service; enabled; vendor > preset: enabled) > Active: failed (Result: timeout) since Fri 2024-05-31 00:21:30 UTC; > 2min 5s ago > Process: 6258 ExecStart=/usr/sbin/slurmdbd -D > /etc/slurm-llnl/slurmdbd.conf (code=exited, status=0/SUCCESS) > > May 31 00:20:00 hannibal-hn systemd[1]: Starting Slurm DBD accounting > daemon... > May 31 00:21:30 hannibal-hn systemd[1]: slurmdbd.service: start operation > timed out. Terminating. > May 31 00:21:30 hannibal-hn systemd[1]: slurmdbd.service: Failed with > result 'timeout'. > May 31 00:21:30 hannibal-hn systemd[1]: Failed to start Slurm DBD > accounting daemon. > > Even though it is the same command ?! > > Any idea ? > > > On Thu, May 30, 2024 at 5:02 PM Radhouane Aniba <aradwen(a)gmail.com> wrote: > >> Thank you Ahmet and Brian, >> >> Ahmet, which conf in particular slurmdbd is readiugn from, I parsed all >> the cnf files for mysql and I cannot find the data it is displaying here >> >> slurmdbd: debug2: Attempting to connect to localhost:3306 >> slurmdbd: debug2: innodb_buffer_pool_size: 134217728 >> slurmdbd: debug2: innodb_log_file_size: 50331648 >> slurmdbd: debug2: innodb_lock_wait_timeout: 50 >> slurmdbd: error: Database settings not recommended values: >> innodb_buffer_pool_size innodb_lock_wait_timeout >> >> >> sudo tree /etc/mysql/* >> /etc/mysql/conf.d >> ├── mysql.cnf >> └── mysqldump.cnf >> /etc/mysql/debian.cnf >> /etc/mysql/debian-start >> /etc/mysql/FROZEN >> /etc/mysql/mariadb.cnf >> /etc/mysql/mariadb.conf.d >> ├── 50-client.cnf >> ├── 50-mysql-clients.cnf >> ├── 50-mysqld_safe.cnf >> └── 50-server.cnf >> /etc/mysql/my.cnf >> /etc/mysql/my.cnf.fallback >> /etc/mysql/mysql.cnf >> /etc/mysql/mysql.conf.d >> ├── mysql.cnf >> └── mysqld.cnf >> >> On Thu, May 30, 2024 at 12:21 PM Brian Andrus via slurm-users < >> slurm-users(a)lists.schedmd.com> wrote: >> >>> That SIGTERM message means something is telling slurmdbd to quit. >>> >>> Check your cron jobs, maintenance scripts, etc. Slurmdbd is being told >>> to shutdown. If you are running in the foreground, a ^C does that. If you >>> run a kill or killall on it, you will get that same message. >>> >>> Brian Andrus >>> On 5/30/2024 6:53 AM, Radhouane Aniba via slurm-users wrote: >>> >>> Yes I can connect to my database using mysql --user=slurm >>> --password=slurmdbpass slurm_acct_db and there is no firewall blocking >>> mysql after checking the firewall question >>> >>> ALso here is the output of slurmdbd -D -vvv (note I can only run this as >>> sudo ) >>> >>> sudo slurmdbd -D -vvv >>> slurmdbd: debug: Log file re-opened >>> slurmdbd: debug: Munge authentication plugin loaded >>> slurmdbd: debug2: mysql_connect() called for db slurm_acct_db >>> slurmdbd: debug2: Attempting to connect to localhost:3306 >>> slurmdbd: debug2: innodb_buffer_pool_size: 134217728 >>> slurmdbd: debug2: innodb_log_file_size: 50331648 >>> slurmdbd: debug2: innodb_lock_wait_timeout: 50 >>> slurmdbd: error: Database settings not recommended values: >>> innodb_buffer_pool_size innodb_lock_wait_timeout >>> slurmdbd: Accounting storage MYSQL plugin loaded >>> slurmdbd: debug2: ArchiveDir = /tmp >>> slurmdbd: debug2: ArchiveScript = (null) >>> slurmdbd: debug2: AuthAltTypes = (null) >>> slurmdbd: debug2: AuthInfo = (null) >>> slurmdbd: debug2: AuthType = auth/munge >>> slurmdbd: debug2: CommitDelay = 0 >>> slurmdbd: debug2: DbdAddr = localhost >>> slurmdbd: debug2: DbdBackupHost = (null) >>> slurmdbd: debug2: DbdHost = hannibal-hn >>> slurmdbd: debug2: DbdPort = 7032 >>> slurmdbd: debug2: DebugFlags = (null) >>> slurmdbd: debug2: DebugLevel = 6 >>> slurmdbd: debug2: DebugLevelSyslog = 10 >>> slurmdbd: debug2: DefaultQOS = (null) >>> slurmdbd: debug2: LogFile = /var/log/slurmdbd.log >>> slurmdbd: debug2: MessageTimeout = 100 >>> slurmdbd: debug2: Parameters = (null) >>> slurmdbd: debug2: PidFile = /run/slurmdbd.pid >>> slurmdbd: debug2: PluginDir = /usr/lib/x86_64-linux-gnu/slurm-wlm >>> slurmdbd: debug2: PrivateData = none >>> slurmdbd: debug2: PurgeEventAfter = 1 months* >>> slurmdbd: debug2: PurgeJobAfter = 12 months* >>> slurmdbd: debug2: PurgeResvAfter = 1 months* >>> slurmdbd: debug2: PurgeStepAfter = 1 months >>> slurmdbd: debug2: PurgeSuspendAfter = 1 months >>> slurmdbd: debug2: PurgeTXNAfter = 12 months >>> slurmdbd: debug2: PurgeUsageAfter = 24 months >>> slurmdbd: debug2: SlurmUser = root(0) >>> slurmdbd: debug2: StorageBackupHost = (null) >>> slurmdbd: debug2: StorageHost = localhost >>> slurmdbd: debug2: StorageLoc = slurm_acct_db >>> slurmdbd: debug2: StoragePort = 3306 >>> slurmdbd: debug2: StorageType = accounting_storage/mysql >>> slurmdbd: debug2: StorageUser = slurm >>> slurmdbd: debug2: TCPTimeout = 2 >>> slurmdbd: debug2: TrackWCKey = 0 >>> slurmdbd: debug2: TrackSlurmctldDown= 0 >>> slurmdbd: debug2: acct_storage_p_get_connection: request new connection >>> 1 >>> slurmdbd: debug2: Attempting to connect to localhost:3306 >>> slurmdbd: slurmdbd version 19.05.5 started >>> slurmdbd: debug2: running rollup at Thu May 30 13:50:08 2024 >>> slurmdbd: debug2: Everything rolled up >>> >>> >>> It goes like this for some time and then it crashes with this message >>> >>> slurmdbd: Terminate signal (SIGINT or SIGTERM) received >>> slurmdbd: debug: rpc_mgr shutting down >>> >>> >>> On Thu, May 30, 2024 at 8:18 AM mercan <ahmet.mercan(a)uhem.itu.edu.tr> >>> wrote: >>> >>>> Did you try to connect database using mysql command? >>>> >>>> mysql --user=slurm --password=slurmdbpass slurm_acct_db >>>> >>>> C. Ahmet Mercan >>>> >>>> On 30.05.2024 14:48, Radhouane Aniba via slurm-users wrote: >>>> >>>> Thank you Ahmet, >>>> I dont have a firewall active. >>>> And because slurmdbd cannot connect to the database I am not able to >>>> getting it to be activated through systemctl I will share the output for >>>> slurmdbd -D -vvv shortly but overall it is always saying trying to connect >>>> to the db and then retries a couple of times and crashes >>>> >>>> R. >>>> >>>> >>>> >>>> >>>> On Thu, May 30, 2024 at 2:51 AM mercan <ahmet.mercan(a)uhem.itu.edu.tr> >>>> wrote: >>>> >>>>> Hi; >>>>> >>>>> Did you check can you connect db with your conf parameters from >>>>> head-node: >>>>> >>>>> mysql --user=slurm --password=slurmdbpass slurm_acct_db >>>>> >>>>> Also, check and stop firewall and selinux, if they are running. >>>>> >>>>> Last, you can stop slurmdbd, then run run terminal with: >>>>> >>>>> slurmdbd -D -vvv >>>>> >>>>> Regards; >>>>> >>>>> C. Ahmet Mercan >>>>> >>>>> On 30.05.2024 00:05, Radhouane Aniba via slurm-users wrote: >>>>> >>>>> Hi everyone >>>>> I am trying to get slurmdbd to run on my local home server but I am >>>>> really struggling. >>>>> Note : am a novice slurm user >>>>> my slurmdbd always times out even though all the details in the conf >>>>> file are correct >>>>> >>>>> My log looks like this >>>>> >>>>> [2024-05-29T20:51:30.088] Accounting storage MYSQL plugin loaded >>>>> [2024-05-29T20:51:30.088] debug2: ArchiveDir = /tmp >>>>> [2024-05-29T20:51:30.088] debug2: ArchiveScript = (null) >>>>> [2024-05-29T20:51:30.088] debug2: AuthAltTypes = (null) >>>>> [2024-05-29T20:51:30.088] debug2: AuthInfo = (null) >>>>> [2024-05-29T20:51:30.088] debug2: AuthType = auth/munge >>>>> [2024-05-29T20:51:30.088] debug2: CommitDelay = 0 >>>>> [2024-05-29T20:51:30.088] debug2: DbdAddr = localhost >>>>> [2024-05-29T20:51:30.088] debug2: DbdBackupHost = (null) >>>>> [2024-05-29T20:51:30.088] debug2: DbdHost = head-node >>>>> [2024-05-29T20:51:30.088] debug2: DbdPort = 7032 >>>>> [2024-05-29T20:51:30.088] debug2: DebugFlags = (null) >>>>> [2024-05-29T20:51:30.088] debug2: DebugLevel = 6 >>>>> [2024-05-29T20:51:30.088] debug2: DebugLevelSyslog = 10 >>>>> [2024-05-29T20:51:30.088] debug2: DefaultQOS = (null) >>>>> [2024-05-29T20:51:30.088] debug2: LogFile = /var/log/slurmdbd.log >>>>> [2024-05-29T20:51:30.088] debug2: MessageTimeout = 100 >>>>> [2024-05-29T20:51:30.088] debug2: Parameters = (null) >>>>> [2024-05-29T20:51:30.088] debug2: PidFile = /run/slurmdbd.pid >>>>> [2024-05-29T20:51:30.088] debug2: PluginDir = >>>>> /usr/lib/x86_64-linux-gnu/slurm-wlm >>>>> [2024-05-29T20:51:30.088] debug2: PrivateData = none >>>>> [2024-05-29T20:51:30.088] debug2: PurgeEventAfter = 1 months* >>>>> [2024-05-29T20:51:30.088] debug2: PurgeJobAfter = 12 months* >>>>> [2024-05-29T20:51:30.088] debug2: PurgeResvAfter = 1 months* >>>>> [2024-05-29T20:51:30.088] debug2: PurgeStepAfter = 1 months >>>>> [2024-05-29T20:51:30.088] debug2: PurgeSuspendAfter = 1 months >>>>> [2024-05-29T20:51:30.088] debug2: PurgeTXNAfter = 12 months >>>>> [2024-05-29T20:51:30.088] debug2: PurgeUsageAfter = 24 months >>>>> [2024-05-29T20:51:30.088] debug2: SlurmUser = root(0) >>>>> [2024-05-29T20:51:30.089] debug2: StorageBackupHost = (null) >>>>> [2024-05-29T20:51:30.089] debug2: StorageHost = localhost >>>>> [2024-05-29T20:51:30.089] debug2: StorageLoc = slurm_acct_db >>>>> [2024-05-29T20:51:30.089] debug2: StoragePort = 3306 >>>>> [2024-05-29T20:51:30.089] debug2: StorageType = >>>>> accounting_storage/mysql >>>>> [2024-05-29T20:51:30.089] debug2: StorageUser = slurm >>>>> [2024-05-29T20:51:30.089] debug2: TCPTimeout = 2 >>>>> [2024-05-29T20:51:30.089] debug2: TrackWCKey = 0 >>>>> [2024-05-29T20:51:30.089] debug2: TrackSlurmctldDown= 0 >>>>> [2024-05-29T20:51:30.089] debug2: acct_storage_p_get_connection: >>>>> request new connection 1 >>>>> [2024-05-29T20:51:30.089] debug2: Attempting to connect to >>>>> localhost:3306 >>>>> [2024-05-29T20:51:30.090] slurmdbd version 19.05.5 started >>>>> [2024-05-29T20:51:30.090] debug2: running rollup at Wed May 29 >>>>> 20:51:30 2024 >>>>> [2024-05-29T20:51:30.091] debug2: Everything rolled up >>>>> [2024-05-29T20:51:49.673] Terminate signal (SIGINT or SIGTERM) >>>>> received >>>>> [2024-05-29T20:51:49.673] debug: rpc_mgr shutting down >>>>> >>>>> >>>>> >>>>> my config file looks like this >>>>> >>>>> ArchiveEvents=yes >>>>> ArchiveJobs=yes >>>>> ArchiveResvs=yes >>>>> ArchiveSteps=no >>>>> ArchiveSuspend=no >>>>> ArchiveTXN=no >>>>> ArchiveUsage=no >>>>> PurgeEventAfter=1month >>>>> PurgeJobAfter=12month >>>>> PurgeResvAfter=1month >>>>> PurgeStepAfter=1month >>>>> PurgeSuspendAfter=1month >>>>> PurgeTXNAfter=12month >>>>> PurgeUsageAfter=24month >>>>> # Authentication info >>>>> AuthType=auth/munge >>>>> # slurmDBD info >>>>> DbdAddr=localhost >>>>> DbdHost=head-node >>>>> DbdPort=7032 >>>>> SlurmUser=root >>>>> MessageTimeout=100 >>>>> DebugLevel=5 >>>>> #DefaultQOS=normal,standby >>>>> LogFile=/var/log/slurmdbd.log >>>>> PidFile=/run/slurmdbd.pid >>>>> #PrivateData=accounts,users,usage,jobs >>>>> #TrackWCKey=yes >>>>> # >>>>> # Database info >>>>> StorageType=accounting_storage/mysql >>>>> StorageHost=localhost >>>>> StoragePort=3306 >>>>> StoragePass=slurmdbpass >>>>> StorageUser=slurm >>>>> StorageLoc=slurm_acct_db >>>>> I used standard names and passwords to get started and I will change >>>>> later >>>>> >>>>> but everytime I try to start slurmdbd.service it crashes and I have >>>>> that log that I shared with you >>>>> >>>>> I use these versions >>>>> >>>>> slurmdbd -V >>>>> slurm-wlm 19.05.5 >>>>> mysql Ver 15.1 Distrib 10.3.39-MariaDB, for debian-linux-gnu (x86_64) >>>>> using readline 5.2 >>>>> Everything else Is working properly except I cannot get slurmdbd to >>>>> work and at this point I exhausted all my possible trials :) looking for >>>>> some expert insights :) >>>>> >>>>> >>>>> Any idea what I am doing wrong here ? Also I didn't compile any slurm >>>>> package. I used the binary from apt repos >>>>> >>>>> Any help will be appreciated >>>>> >>>>> Cheers >>>>> >>>>> Rad >>>>> >>>>> -- >>>>> >>>>> >>>>> >>>> >>> >>> -- >>> *Rad Aniba, PhD* >>> >>> >>> >>> -- >>> slurm-users mailing list -- slurm-users(a)lists.schedmd.com >>> To unsubscribe send an email to slurm-users-leave(a)lists.schedmd.com >>> >> >> >> -- >> *Rad Aniba, PhD* >> >> > > -- > *Rad Aniba, PhD* > > > -- > slurm-users mailing list -- slurm-users(a)lists.schedmd.com > To unsubscribe send an email to slurm-users-leave(a)lists.schedmd.com > > > -- *Rad Aniba, PhD*

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Slurm version 24.05.0 is now available
by Marshall Garey 30 May '24

30 May '24

We are pleased to announce the availability of Slurm 24.05.0. To highlight some new features in 24.05: - Isolated Job Step management. Enabled on a job-by-job basis with the --stepmgr option, or globally through SlurmctldParameters=enable_stepmgr. - Federation - Allow for client command operation while SlurmDBD is unavailable. - New MaxTRESRunMinsPerAccount and MaxTRESRunMinsPerUser QOS limits. - New USER_DELETE reservation flag. - New Flags=rebootless option on Features for node_features/helpers which indicates the given feature can be enabled without rebooting the node. - Cloud power management options: New "max_powered_nodes=<limit>" option in SlurmctldParamters, and new SuspendExcNodes=<nodes>:<count> syntax allowing for <count> nodes out of a given node list to be excluded. - StdIn/StdOut/StdErr now stored in SlurmDBD accounting records for batch jobs. - New switch/nvidia_imex plugin for IMEX channel management on NVIDIA systems. - New RestrictedCoresPerGPU option at the Node level, designed to ensure GPU workloads always have access to a certain number of CPUs even when nodes are running non-GPU workloads concurrently. The Slurm documentation has also been updated to the 24.05 release. (Older versions can be found in the archive, linked from the main documentation page.) Slurm can be downloaded from https://www.schedmd.com/downloads.php . -- Marshall Garey Release Management, Support, and Development SchedMD LLC - Commercial Slurm Development and Support

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Executing srun -n X where X is greater than total CPU in entire cluster
by Dan Healy 30 May '24

30 May '24

Hi there, SLURM community, I swear I've done this before, but now it's failing on a new cluster I'm deploying. We have 6 compute nodes with 64 cpu each (384 CPU total). When I run `srun -n 500 hostname`, the task gets queued since there's not 500 available CPU. Wasn't there an option that allows for this to be run where the first 384 tasks execute, and then the remaining execute when resources free up? Here's my conf: # Slurm Cgroup Configs used on controllers and workersslurm_cgroup_config: CgroupAutomount: yes ConstrainCores: yes ConstrainRAMSpace: yes ConstrainSwapSpace: yes ConstrainDevices: yes# Slurm conf file settingsslurm_config: AccountingStorageType: "accounting_storage/slurmdbd" AccountingStorageEnforce: "limits" AuthAltTypes: "auth/jwt" ClusterName: "cluster" AccountingStorageHost : "{{ hostvars[groups['controller'][0]].ansible_hostname }}" DefMemPerCPU: 1024 InactiveLimit: 120 JobAcctGatherType: "jobacct_gather/cgroup" JobCompType: "jobcomp/none" MailProg: "/usr/bin/mail" MaxArraySize: 40000 MaxJobCount: 100000 MinJobAge: 3600 ProctrackType: "proctrack/cgroup" ReturnToService: 2 SelectType: "select/cons_tres" SelectTypeParameters: "CR_Core_Memory" SlurmctldTimeout: 30 SlurmctldLogFile: "/var/log/slurm/slurmctld.log" SlurmdLogFile: "/var/log/slurm/slurmd.log" SlurmdSpoolDir: "/var/spool/slurm/d" SlurmUser: "{{ slurm_user.name }}" SrunPortRange: "60000-61000" StateSaveLocation: "/var/spool/slurm/ctld" TaskPlugin: "task/affinity,task/cgroup" UnkillableStepTimeout: 120 -- Thanks, Daniel Healy

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Jobs showing running but not running
by Sushil Mishra 29 May '24

29 May '24

Hi All, I'm managing a cluster with Slurm, consisting of 4 nodes. One of the compute nodes appears to be experiencing issues. While the front node's 'squeue' command indicates that jobs are running, upon connecting to the problematic node, I observe no active processes and GPUs are not being utilized. [sushil@ccbrc ~]$ sinfo -Nel Wed May 29 12:00:08 2024 NODELIST NODES PARTITION STATE CPUS S:C:T MEMORY TMP_DISK WEIGHT AVAIL_FE REASON gag 1 defq* mixed 48 2:24:1 370000 0 1 (null) none gag 1 glycore mixed 48 2:24:1 370000 0 1 (null) none glyco1 1 defq* completing* 128 2:64:1 500000 0 1 (null) none glyco1 1 glycore completing* 128 2:64:1 500000 0 1 (null) none glyco2 1 defq* mixed 128 2:64:1 500000 0 1 (null) none glyco2 1 glycore mixed 128 2:64:1 500000 0 1 (null) none mannose 1 defq* mixed 24 2:12:1 180000 0 1 (null) none mannose 1 glycore mixed 24 2:12:1 180000 0 1 (null) none On glyco1 (affected node!): squeue # gets stuck sudo systemctl restart slurmd # gets stuck I tried the following to clear the jobs stuck in CG state, but any new job appears to be stuck in a 'running' state without actually running. scontrol update nodename=glyco1 state=down reason=cg scontrol update nodename=glyco1 state=resume reason=cg There is no I/O issue in that node, and all file systems are under 30% in use. Any advice on how to resolve this without rebooting the machine? Best, Sushil

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2024

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