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This document proposes a broad change to NRAO’s computational approach w.r.t. CASA to improve overall efficiency.  Within industry there are strategies viewed as either High Performance or High Throughput Computing, commonly referred to as either HPC or HTC.  Neither approach is optimal for NRAO so what is proposed here is a High Efficiency Computing approach that considers all aspects of the problem including hardware configuration and performance, PI time, and costs for hardware and software development.   Because the goal is broad efficiency across multiple disjoint axis there is no ultimate final goal that is being aimed at, rather there is a finite series of stages which achieve some delta improvement in efficiency with the next stage going through a review and prototype process before commencing.

https://staff.nrao.edu/wiki/bin/view/NM/HTCondor#Conversion

https://staff.nrao.edu/wiki/bin/view/NM/Slurm


  • Queues: We want to keep the queue functionality of Torque/Moab where, for example, hera jobs go to hera nodes, vlass jobs go to vlass nodes. We would also like to be able to have vlasstest jobs go to the vlass nodes with a higher priority without preempting running jobs.

    • Slurm

      • Queues are called partitions.  At some level they are called partitions in Torque as well.
      • Job preemtion is disabled by default
      • Allows for simple priority settings in partitions with the default PriorityType=priority/basic plugin.
      • E.g. PartitionName=vlass Nodes=testpost[002-004] MaxTime=144000 State=UP Priority=1000
    • HTCondor
      • HTCondor doesn't have queues or partitions like Torque/Moab or Slurm but there are still ways to do what we need.
      • Constraints and/or seperate pools are good options.
      • I don't know how to simulate the vlass/vlasstest queues.  Perhaps by the time we move to HTCondor we won't need vlasstest anymore.
      • HTCondor does support accounting groups that may work like queues.

  • Interactive: The ability to assign all or part of a node to a user with shell level access (nodescheduler, qsub -I, etc),  minimal granularity is per NUMA node, finer would be useful.

    • What is it that we like about nodescheduler over something like qsub -I or srun --pty bash or condor_submit -i
      • It's not tied to any tty so a user can login multiple times from multiple places to their reserved node without requiring screen or tmux or vnc.  It also means that users aren't all going through nmpost-master.
      • Its creation is asynchronous.  If the cluster is full you don't wait around for your reservation to start, you get an email message when it is ready.
      • It's time limited (e.g. two weeks).  We might be able to do the same with a queue/partition setting but could we then extend that reservation?
      • We get to define the shape of a reservation (whole node, NUMA node, etc).  If we just let people use qsub -I they could reserve all sorts of sizes which may be less efficient.  Then again it may be more efficient.  But either way it is simpler for our users.
    • Slurm
      • I don't see how Slurm can reserve NUMA nodes so we will have to just reserve X tasks with Y memory.
      • I don't know how to keep Slurm from giving a user multiple portions of the same host.  With Moab I used naccesspolicy=uniqueuser  This prevents the ambiguity of which ssh connection goes to which cgroup.
    • HTCondor
      • Can HTCondor even do this?
    • nodevnc
      • Given the limitation of Slurm and HTCondor and that we already recommend users use VNC on their interactive nodes, why don't we just provide a nodevnc script that reserves a node (via torque, slurm or HTCondor), start a vnc server and then tells the user it is ready and how to connect to it?  If someone still needs/wants just simple terminal access, then qsub -I or srun --pty bash or condor_submit -i might suffice.

  • Access: Would like to prevent users from being able to login to nodes unless they have a proper reservation.

    • Slurm
      • Has a pam_slurm.so module similar to pam_pbssimpleauth.so.
    • HTCondor
      • Since I don't think we will be using nodescheduler with HTCondor, this isn't needed.

  • Reservations: The ability to reserve nodes far in the future for things like CASA classes and SIW would be very helpful.  It would need to prevent HTCondor from starting jobs on these nodes as reservation time approaches.

    • Slurm
      • scontrol create reservation starttime=now duration=5 nodes=testpost001 user=root
      • scontrol create reservation starttime=2022-05-3T08:00:00 duration=21-0:0:0 nodes=nmpost[020-030] user=root reservationname=siw2022
      • scontrol show res The output of this kinda sucks.  Hopefully there is a better way to see all the reservations.
    • HTcondor
      • This isn't really something HTCondor is designed to do.  We will use Slurm for this.

  • Ability to run jobs remotely (AWS, CHTC, OSG, etc)

    • Slurm
      • I don't think we will need this ability with Slurm
    • HTCondor
      • I have tested both condor_annex to AWS and flocking to CHTC.

  • Array jobs: Do we want to keep the Torque array job functionality?

    • Slurm
      • #SBATCH --array=0-3%2 This syntax is very similar to Torque.
    • HTCondor
      • To some extent, this isn't how HTCondor is ment to be used.  In other extents, DAGMan and the queue command can simulate this.

  • MPI: We have some users that use MPI across multiple nodes.  It would be nice to keep that as an option.

    • Slurm
      • mpich2
        • PATH=${PATH}:/usr/lib64/mpich/bin salloc --ntasks=8 mpiexec mpiexec.sh
        • PATH=${PATH}:/usr/lib64/mpich/bin salloc --nodes=2 mpiexec mpiexec.sh
      • OpenMPI
        • Use #SBATCH to request a number of tasks (cores) and then run mpiexec or mpicasa as normal.
    • HTCondor
      • While there is a parallel universe for HTCondor, I think we will use Slurm for MPI jobs.

  • Cgroups: We will need protection like what cgroups provide so that jobs can’t impact other jobs on the same node.

    • Slurm
      • /etc/slurm/cgroup.conf
    • HTCondor
      • Set CGROUP_MEMORY_LIMIT_POLICY = hard in /etc/condor/config.d/99-nrao on the execute nodes.

  • Pack Jobs: Put jobs on nodes efficiently such that as many nodes as possible are left idle and available for users with large memory and/or large core-count requirements.

    • Slurm
      • Add SchedulerType=sched/backfill to /etc/slurm/slurm.conf on the Management Node
    • HTCondor
      • Add NEGOTIATOR_DEPTH_FIRST = True to /etc/condor/config.d/99-nrao on the Central Manager

  • Reaper: Clean nodes of unwanted files, dirs and procs.  Condor seems to handle /tmp and /var/tmp properly because it uses fake versions of these dirs for each job.  But /dev/shm is still an issue. What about errant processes?

    • Slurm

      • There is the pam_slurm_adopt.so that supposedly tracks and kills errant processes but it conflicts with systemd and therefore requires some special tweaking.

    • HTCondor
      • Seems to handle /tmp and /var/tmp properly because it uses fake versions of these dirs for each job.
      • but /dev/shm is still an issue.
      • What about errant processes?

  • Reaper: Cancel jobs when accounts are closed.

  • Node priority: With Torque/Moab we can control the order in which the scheduler pick nodes.  This allows us to run jobs on the faster nodes by default. Can HTCondor do this?

    • Slurm
      • The order of the nodes in PartitionName is not important.  But you can set a Weight to a NodeName.  Nodes with the lowest weight will be chosen first.


https://open-confluence.nrao.edu/download/attachments/40537022/nmpost-slurm.conf?api=v2 is a proposed slurm.conf for our nmpost cluster.



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