Inside Diamond

If you’re not familiar what the module system is, please check Working from a workstation at Diamond Light Source guide.

Cluster

This will be the most common way to use HTTomo at Diamond, it submits a job to the production compute cluster at Diamond that will run HTTomo.

In a terminal, the commands to log onto the compute cluster and submit an HTTomo job are the following:

$ ssh wilson
$ module load httomo
$ httomo_mpi IN_FILE YAML_CONFIG OUT_DIR

Workstation

Serial

HTTomo can be loaded on a Diamond workstation by doing module load httomo. This will allow HTTomo to be run on the local machine like so:

$ httomo run IN_FILE YAML_CONFIG OUT_DIR

Parallel

Parallel execution of HTTomo at Diamond is typically performed on a compute cluster. The HTTomo launcher is integrated with the SLURM workload manager via REST APIs and is configured to submit jobs to the wilson compute cluster.

To run HTTomo, either log in to a Wilson compute node directly or load the HTTomo environment on a workstation with module load httomo.

Once the environment is loaded, HTTomo jobs can be submitted and executed in parallel as described below.

$ httomo_mpi IN_FILE YAML_CONFIG OUT_DIR

` Also look for help with httomo_mpi --help.