Arvados

h1. Crunch2 installation

(DRAFT -- when ready, this will move to doc.arvados.org→install)

{{toc}}

h2. Set up a crunch-dispatch service

Currently, dispatching containers via SLURM is supported.

Install crunch-dispatch-slurm on a node that can submit SLURM jobs. This can be the slurm controller node, a worker node, or any other node that has the appropriate SLURM/munge configuration.

<pre><code class="shell">

sudo apt-get install crunch-dispatch-slurm

</code></pre>

Create a privileged token for use by the dispatcher. If you have multiple dispatch processes, you should give each one a different token.

<pre><code class="shell">

apiserver:~$ cd /var/www/arvados-api/current

apiserver:/var/www/arvados-api/current$ sudo -u webserver-user RAILS_ENV=production bundle exec script/create_superuser_token.rb

zzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzzz

</code></pre>

Save the token on the dispatch node, in <code>/etc/sv/crunch-dispatch-slurm/env/ARVADOS_API_TOKEN</code>

Example runit script (@/etc/sv/crunch-dispatch-slurm/run@):

<pre><code class="shell">

#!/bin/sh

set -e

exec 2>&1

export ARVADOS_API_HOST=uuid_prefix.your.domain

exec chpst -e ./env -u crunch crunch-dispatch-slurm

</code></pre>

Example runit logging script (@/etc/sv/crunch-dispatch-slurm/log/run@):

<pre><code class="shell">

#!/bin/sh

set -e

[ -d main ] || mkdir main

exec svlogd -tt ./main

</code></pre>

Ensure the @crunch@ user exists -- and has the same UID, GID, and home directory -- on the dispatch node and all SLURM compute nodes. Ensure the @crunch@ user can run docker containers on SLURM compute nodes.

h2. Install crunch-run on all compute nodes

<pre><code class="shell">

sudo apt-get install crunch-run

</code></pre>

h2. Enable cgroup accounting on all compute nodes

(This requirement isn't new for crunch2/containers, but it seems to be a FAQ. The Docker install guide mentions it's optional and performance-degrading, so it's not too surprising if people skip it. Perhaps we should say why/when it's a good idea to enable it?)

Check https://docs.docker.com/engine/installation/linux/ for instructions specific to your distribution.

For example, on Ubuntu:

# Update @/etc/default/grub@ to include: <pre>

GRUB_CMDLINE_LINUX="cgroup_enable=memory swapaccount=1"

</pre>

# @sudo update-grub@

# Reboot

h2. Configure docker

Unchanged from current docs.

h2. Test the dispatcher

On the dispatch node, monitor the crunch-dispatch logs.

<pre><code class="shell">

dispatch-node$ tail -F /etc/sv/crunch-dispatch-slurm/log/main/current

</code></pre>

On a shell VM, install a docker image for testing.

<pre><code class="shell">

user@shellvm:~$ arv-keepdocker busybox

</code></pre>

On a shell VM, run a trivial container.

<pre><code class="shell">

user@shellvm:~$ arv container_request create --container-request '{

  "name":            "test",

  "state":           "Committed",

  "priority":        1,

  "container_image": "busybox",

  "command":         ["true"],

  "output_path":     "/out",

  "mounts": {

    "/out": {

      "kind":        "tmp",

      "capacity":    1000

    }

  }

}'

</code></pre>

Measures of success:

* Dispatcher log entries will indicate it has submitted a SLURM job.

* Before the container finishes, SLURM's @squeue@ command will show the new job in the list of queued/running jobs.

* After the container finishes, @arv container list --limit 1@ will indicate the outcome: <pre>

{

 ...

 "exit_code":0,

 ...

 "state":"Complete",

 ...

}

</pre>