Running ImageJ Workloads

Introduction

End Goal

Submit ImageJ trainings using the runai-bgu CLI.

Submitting a ImageJ Training Job

Example 1. Explicit resources

$ ssh bhn20 (1)
$ runai-bgu submit imagej \ (2)
  -n conv-2-64 \ (3)
  -c 4 \ (4)
  -m 8Gi \ (5)
  -- "imagej --headless --console -macro ~/path/to/file.ijm" (6)

1	Configure SSH connection to `bhn20`
2	Specifies it is a ImageJ.
3	Specifies the name of the job.
4	Allocates 4 CPU cores.
5	Allocates 8GiB of memory^*.
6	The command to run, here `imagej --headless --console -macro`.

The space ( ) between the two dashes (--) and the command is intentional. As are the quotes (") surrounding the command.

You can also use a predefined resource template. Check out the guide for the template CLI Introduction.

Example 2. Using User Templates:

$ runai-bgu submit imagej \ (1)
  -n conv-2-64 (2)
  --ut train-over-quota-user (3)
  -- "imagej --headless --console -macro ~/path/to/file.ijm" (4)

1	Submit a imagej workload
2	Specify the job name
3	Use the `--ut` specify the user template
4	The command to run, here `imagej --headless --console -macro`.

The space ( ) between the two dashes (--) and the command is intentional. As are the quotes (") surrounding the command.

Example 3. Using Group Templates:

$ runai-bgu submit imagej \ (1)
  -n conv-2-64 (2)
  --ug train-over-quota-group  (3)
  -- "imagej --headless --console -macro ~/path/to/file.ijm" (4)

1	Submit a imagej workload
2	Specify the job name
3	Use the `--ug` specify the group template
4	The command to run, here `imagej --headless --console -macro ~/path/to/file.ijm`.

The space ( ) between the two dashes (--) and the command is intentional. As are the quotes (") surrounding the command.

Submitting Job

The CLI will display messages about the job creation and status.

Example 4. Synopsis

Start job for training

$ ssh bhn20 (1)
$ runai-bgu submit imagej -n conv-2-64 --ut train-over-quota -- "imagej --headless --console -macro ~/path/to/file.ijm" (2)
Waiting for the job to be created...

Job conv-2-64 submitted successfully.
You can check the status of the job by running:
        runai describe job conv-2-64 -p myproj

1	Configure SSH connection to `bhn20` manual.adoc[runai-bgu]