troika 0.2.6

Submit, monitor and kill jobs on remote systems

Troika

Submit, monitor and kill jobs on local and remote hosts

Requirements

• Python 3.8 or higher
• pyyaml (https://pypi.org/project/PyYAML/)
• For testing: pytest (https://pypi.org/project/pytest/)
• For building the documentation: sphinx (https://www.sphinx-doc.org)

Installing

python3 -m venv troika
source troika/bin/activate
python3 -m pip install troika

Running the tests

Once Troika is installed in your environment, the tests can be run using pytest:

python3 -m pytest -v tests/

Building documentation

The documentation uses sphinx. To generate the HTML docs:

cd docs/
make html

Presentation

Slides and recording of the "Troika: Submit, monitor, and interrupt jobs on any HPC system with the same interface" talk at FOSDEM'23 are available via https://fosdem.org/2023/schedule/event/troika_hpc_jobs .

Getting started

Concepts

Troika holds a list of sites onto which jobs can be submitted. A site is defined by two main parameters: a connection type (local or ssh), and a site type (e.g. direct or slurm). Every site is identified by a name given in the configuration file.

Example configuration file

---
sites:
    localhost:
        type: direct         # jobs are run directly on the target
        connection: local    # the target is the current host
    remote:
        type: direct         # jobs are run directly on the target
        connection: ssh      # connect to the target via ssh
        host: remotebox      # ssh host
        copy_script: true    # if false, the script will be piped through ssh
        at_startup: ["check_connection"]
    slurm_cluster:
        type: slurm          # jobs are submitted to Slurm
        connection: ssh      # connect to the target via ssh
        host: remotecluster  # ssh host
        copy_script: true    # if false, the script will be piped through ssh
        at_startup: ["check_connection"]
        pre_submit: ["create_output_dir"]
        at_exit: ["copy_submit_logfile"]
    pbs_cluster:
        type: pbs            # jobs are submitted to PBS
        connection: ssh      # connect to the target via ssh
        host: othercluster   # ssh host
        copy_script: true    # if false, the script will be piped through ssh
        at_startup: ["check_connection"]
        pre_submit: ["create_output_dir"]
        at_exit: ["copy_submit_logfile"]

The configuration can be checked using the list-sites command:

$ troika -c config.yml list-sites
Available sites:
Name                         Type            Connection
------------------------------------------------------------
localhost                    direct          local
remote                       direct          ssh
slurm_cluster                slurm           ssh
pbs_cluster                  pbs             ssh

Available options

$ troika --help

Main commands

Submit a job on cluster:

$ troika -c config.yaml submit -o /path/to/output/file cluster job.sh

Query the status of the job:

$ troika -c config.yaml monitor cluster job.sh

Kill the job:

$ troika -c config.yaml kill cluster job.sh