[slurm-users] Strange error, submission denied

Thu Feb 14 07:56:41 UTC 2019

Hi Marcus,

More ideas:
CPUs doesn’t always count as core but may take the meaning of one thread, hence makes different 
Maybe the behavior of CR_ONE_TASK  is still not solid nor properly documente and ntasks and ntasks-per-node are honored different internally. If so solely using ntasks can mean using alle threads for Slurm even if the binding may be correct according to binding. 
Obviously in your results Slurm handles the options differently. 

Have you tried configuring the node with cpus=96? What output do you get from slurmd -C? 
Is this a new architecture like skylake? In case of subnuma-Layouts Slurm can not handle it without hwloc2. 
Have you tried to use srun -v(vv) instead of sbatch? Maybe you can get a glimpse of what Slurm actually does with your options.

Best,
Andreas 

> Am 14.02.2019 um 08:34 schrieb Marcus Wagner <wagner at itc.rwth-aachen.de>:
> 
> Hi Chris,
> 
> 
> this are 96 thread nodes with 48 cores. You are right, that if we set it to 24, the job will get scheduled. But then, only half of the node is used. On the other side, if I only use --ntasks=48, slurm schedules all tasks onto the same node. The hyperthread of each core is included in the cgroup and the task_affinity plugin also correctly binds the hyperthread together with the core (small ugly testscript from us, the last two numbers are the core and its hyperthread):
> 
> ncm0728.hpc.itc.rwth-aachen.de <0> OMP_STACKSIZE: <#> unlimited+p2 +pemap 0,48
> ncm0728.hpc.itc.rwth-aachen.de <10> OMP_STACKSIZE: <#> unlimited+p2 +pemap 26,74
> ncm0728.hpc.itc.rwth-aachen.de <11> OMP_STACKSIZE: <#> unlimited+p2 +pemap 29,77
> ncm0728.hpc.itc.rwth-aachen.de <12> OMP_STACKSIZE: <#> unlimited+p2 +pemap 6,54
> ncm0728.hpc.itc.rwth-aachen.de <13> OMP_STACKSIZE: <#> unlimited+p2 +pemap 9,57
> ncm0728.hpc.itc.rwth-aachen.de <14> OMP_STACKSIZE: <#> unlimited+p2 +pemap 30,78
> ncm0728.hpc.itc.rwth-aachen.de <15> OMP_STACKSIZE: <#> unlimited+p2 +pemap 33,81
> ncm0728.hpc.itc.rwth-aachen.de <16> OMP_STACKSIZE: <#> unlimited+p2 +pemap 7,55
> ncm0728.hpc.itc.rwth-aachen.de <17> OMP_STACKSIZE: <#> unlimited+p2 +pemap 10,58
> ncm0728.hpc.itc.rwth-aachen.de <18> OMP_STACKSIZE: <#> unlimited+p2 +pemap 31,79
> ncm0728.hpc.itc.rwth-aachen.de <19> OMP_STACKSIZE: <#> unlimited+p2 +pemap 34,82
> ncm0728.hpc.itc.rwth-aachen.de <1> OMP_STACKSIZE: <#> unlimited+p2 +pemap 3,51
> ncm0728.hpc.itc.rwth-aachen.de <20> OMP_STACKSIZE: <#> unlimited+p2 +pemap 8,56
> ncm0728.hpc.itc.rwth-aachen.de <21> OMP_STACKSIZE: <#> unlimited+p2 +pemap 11,59
> ncm0728.hpc.itc.rwth-aachen.de <22> OMP_STACKSIZE: <#> unlimited+p2 +pemap 32,80
> ncm0728.hpc.itc.rwth-aachen.de <23> OMP_STACKSIZE: <#> unlimited+p2 +pemap 35,83
> ncm0728.hpc.itc.rwth-aachen.de <24> OMP_STACKSIZE: <#> unlimited+p2 +pemap 12,60
> ncm0728.hpc.itc.rwth-aachen.de <25> OMP_STACKSIZE: <#> unlimited+p2 +pemap 15,63
> ncm0728.hpc.itc.rwth-aachen.de <26> OMP_STACKSIZE: <#> unlimited+p2 +pemap 36,84
> ncm0728.hpc.itc.rwth-aachen.de <27> OMP_STACKSIZE: <#> unlimited+p2 +pemap 39,87
> ncm0728.hpc.itc.rwth-aachen.de <28> OMP_STACKSIZE: <#> unlimited+p2 +pemap 13,61
> ncm0728.hpc.itc.rwth-aachen.de <29> OMP_STACKSIZE: <#> unlimited+p2 +pemap 16,64
> ncm0728.hpc.itc.rwth-aachen.de <2> OMP_STACKSIZE: <#> unlimited+p2 +pemap 24,72
> ncm0728.hpc.itc.rwth-aachen.de <30> OMP_STACKSIZE: <#> unlimited+p2 +pemap 37,85
> ncm0728.hpc.itc.rwth-aachen.de <31> OMP_STACKSIZE: <#> unlimited+p2 +pemap 40,88
> ncm0728.hpc.itc.rwth-aachen.de <32> OMP_STACKSIZE: <#> unlimited+p2 +pemap 14,62
> ncm0728.hpc.itc.rwth-aachen.de <33> OMP_STACKSIZE: <#> unlimited+p2 +pemap 17,65
> ncm0728.hpc.itc.rwth-aachen.de <34> OMP_STACKSIZE: <#> unlimited+p2 +pemap 38,86
> ncm0728.hpc.itc.rwth-aachen.de <35> OMP_STACKSIZE: <#> unlimited+p2 +pemap 41,89
> ncm0728.hpc.itc.rwth-aachen.de <36> OMP_STACKSIZE: <#> unlimited+p2 +pemap 18,66
> ncm0728.hpc.itc.rwth-aachen.de <37> OMP_STACKSIZE: <#> unlimited+p2 +pemap 21,69
> ncm0728.hpc.itc.rwth-aachen.de <38> OMP_STACKSIZE: <#> unlimited+p2 +pemap 42,90
> ncm0728.hpc.itc.rwth-aachen.de <39> OMP_STACKSIZE: <#> unlimited+p2 +pemap 45,93
> ncm0728.hpc.itc.rwth-aachen.de <3> OMP_STACKSIZE: <#> unlimited+p2 +pemap 27,75
> ncm0728.hpc.itc.rwth-aachen.de <40> OMP_STACKSIZE: <#> unlimited+p2 +pemap 19,67
> ncm0728.hpc.itc.rwth-aachen.de <41> OMP_STACKSIZE: <#> unlimited+p2 +pemap 22,70
> ncm0728.hpc.itc.rwth-aachen.de <42> OMP_STACKSIZE: <#> unlimited+p2 +pemap 43,91
> ncm0728.hpc.itc.rwth-aachen.de <43> OMP_STACKSIZE: <#> unlimited+p2 +pemap 46,94
> ncm0728.hpc.itc.rwth-aachen.de <44> OMP_STACKSIZE: <#> unlimited+p2 +pemap 20,68
> ncm0728.hpc.itc.rwth-aachen.de <45> OMP_STACKSIZE: <#> unlimited+p2 +pemap 23,71
> ncm0728.hpc.itc.rwth-aachen.de <46> OMP_STACKSIZE: <#> unlimited+p2 +pemap 44,92
> ncm0728.hpc.itc.rwth-aachen.de <47> OMP_STACKSIZE: <#> unlimited+p2 +pemap 47,95
> ncm0728.hpc.itc.rwth-aachen.de <4> OMP_STACKSIZE: <#> unlimited+p2 +pemap 1,49
> ncm0728.hpc.itc.rwth-aachen.de <5> OMP_STACKSIZE: <#> unlimited+p2 +pemap 4,52
> ncm0728.hpc.itc.rwth-aachen.de <6> OMP_STACKSIZE: <#> unlimited+p2 +pemap 25,73
> ncm0728.hpc.itc.rwth-aachen.de <7> OMP_STACKSIZE: <#> unlimited+p2 +pemap 28,76
> ncm0728.hpc.itc.rwth-aachen.de <8> OMP_STACKSIZE: <#> unlimited+p2 +pemap 2,50
> ncm0728.hpc.itc.rwth-aachen.de <9> OMP_STACKSIZE: <#> unlimited+p2 +pemap 5,53
> 
> 
> --ntasks=48:
> 
>    NodeList=ncm0728
>    BatchHost=ncm0728
>    NumNodes=1 NumCPUs=48 NumTasks=48 CPUs/Task=1 ReqB:S:C:T=0:0:*:*
>    TRES=cpu=48,mem=182400M,node=1,billing=48
> 
> 
> --ntasks=48
> --ntasks-per-node=24:
> 
>    NodeList=ncm[0438-0439]
>    BatchHost=ncm0438
>    NumNodes=2 NumCPUs=48 NumTasks=48 CPUs/Task=1 ReqB:S:C:T=0:0:*:*
>    TRES=cpu=48,mem=182400M,node=2,billing=48
> 
> 
> --ntasks=48
> --ntasks-per-node=48:
> 
> sbatch: error: CPU count per node can not be satisfied
> sbatch: error: Batch job submission failed: Requested node configuration is not available
> 
> 
> Isn't the first essentially the same as the last, with the difference, that I want to force slurm to put all tasks onto one node?
> 
> 
> 
> Best
> Marcus
> 
> 
>> On 2/14/19 7:15 AM, Chris Samuel wrote:
>>> On Wednesday, 13 February 2019 4:48:05 AM PST Marcus Wagner wrote:
>>> 
>>> #SBATCH --ntasks-per-node=48
>> I wouldn't mind betting is that if you set that to 24 it will work, and each
>> thread will be assigned a single core with the 2 thread units on it.
>> 
>> All the best,
>> Chris
> 
> -- 
> Marcus Wagner, Dipl.-Inf.
> 
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