Status of slurm

sinfo
sinfo -R
squeue

we have draining nodes, but no jobs running on them

Reviving draining node (as root)

scontrol
  update NodeName=octopus05 State=DOWN Reason="undraining"
  update NodeName=octopus05 State=RESUME
  show node octopus05

Kill time can lead to drain state

scontrol show config | grep kill
UnkillableStepProgram   = (null)
UnkillableStepTimeout   = 60 sec

check valid configuration with `slurmd -C` and update nodes with

scontrol reconfigure

So we create a script that can deploy files from octopus01 (head node). Unfortunately ids in passwd do no match, so we can't copy those yet.

See /etc/nodes for script and ssh files, sudoers (etc)

Basically the root user can copy across.

To avoid `./scratch/script.sh: Permission denied` on `device_file`:

- `sudo bash` - `ls /scratch -l` to check where `/scratch` is - `vim /etc/fstab` - replace `noexec` with `exec` for `device_file` - `mount -o remount [device_file]` to remount the partition with its new configuration.

Some notes:

root@tux09:~# mkdir -p /var/lib/nfs/statd root@tux09:~# systemctl enable rpcbind Synchronizing state of rpcbind.service with SysV service script with /lib/systemd/systemd-sysv-install. Executing: /lib/systemd/systemd-sysv-install enable rpcbind root@tux09:~# systemctl list-unit-files | grep -E 'rpc-statd.service' rpc-statd.service static -

network-online.target x-systemd.device-timeout= 10.0.0.110:/export/3T /mnt/3T nfs nofail,x-systemd.automount,x-systemd.requires=network-online.target,x-systemd.device-timeout=10 0 0

Current nodes in the pool have:

munge --version
    munge-0.5.13 (2017-09-26)
sbatch --version
    slurm-wlm 18.08.5-2

To install `munge`, go to `octopus01` and run:

guix package -i munge@0.5.14 -p /export/octopus01/guix-profiles/slurm

systemctl status munge # to check if the service is running and where its service file is

We need to setup the rights for `munge`:

sudo bash

addgroup -gid 900 munge
adduser -uid 900 -gid 900 --disabled-password munge

sed 's,/home/munge:/bin/bash,/var/lib/munge:/usr/sbin/nologin,g' /etc/passwd -i

mkdir -p /var/lib/munge
chown munge:munge /var/lib/munge/

mkdir -p /etc/munge
# copy `munge.key` (from a working node) to `/etc/munge/munge.key`
chown -R munge:munge /etc/munge

mkdir -p /run/munge
chown munge:munge /run/munge

mkdir -p /var/log/munge
chown munge:munge /var/log/munge

mkdir -p /var/run/munge # todo: not sure why it needs such a folder
chown munge:munge /var/run/munge

# copy `munge.service` (from a working node) to `/etc/systemd/system/munge.service`

systemctl daemon-reload
systemctl enable munge
systemctl start munge
systemctl status munge

To test the new installation, go to `octopus01` and then:

munge -n | ssh tux08 /export/octopus01/guix-profiles/slurm-2-link/bin/unmunge

To install `slurm`, go to `octopus01` and run:

guix package -i slurm@18.08.9 -p /export/octopus01/guix-profiles/slurm

We need to setup the rights for `slurm`:

sudo bash

addgroup -gid 901 slurm
adduser -uid 901 -gid 901 --no-create-home --disabled-password slurm

sed 's,/home/slurm:/bin/bash,/var/lib/slurm:/bin/bash,g' /etc/passwd -i

mkdir -p /var/lib/slurm
chown munge:munge /var/lib/slurm/

mkdir -p /etc/slurm
# copy `slurm.conf` to `/etc/slurm/slurm.conf`
# copy `cgroup.conf` to `/etc/slurm/cgroup.conf`

chown -R slurm:slurm /etc/slurm

mkdir -p /run/slurm
chown slurm:slurm /run/slurm

mkdir -p /var/log/slurm
chown slurm:slurm /var/log/slurm

# copy `slurm.service` to `/etc/systemd/system/slurm.service`

/export/octopus01/guix-profiles/slurm-2-link/sbin/slurmd -f /etc/slurm/slurm.conf -C | head -n 1 >> /etc/slurm/slurm.conf # add node configuration information

systemctl daemon-reload
systemctl enable slurm
systemctl start slurm
systemctl status slurm

On `octopus01` (the master):

sudo bash

# add the new node to `/etc/slurm/slurm.conf`

systemctl restart slurmctld # after editing /etc/slurm/slurm.conf on the master