Submit a job with the given parameters.

def submit(script, workspace, **params):
    """Submit a job with the given parameters."""
    from klab import cluster, process

    # Make sure the rosetta symlink has been created.

    if not os.path.exists(workspace.rosetta_dir):
        raise pipeline.RosettaNotFound(workspace)

    # Parse some job parameters for the keyword arguments.

    params = dict((k, v) for k, v in params.items() if v is not None)
    test_run = params.get('test_run', False)
    nstruct = params.get('nstruct')
    max_runtime = params.get('max_runtime', '6:00:00')
    max_memory = params.get('max_memory', '1G')

    if test_run:
        nstruct = 1

    if nstruct is None:
        raise TypeError("submit() requires the keyword argument 'nstruct' for production runs.")

    # Use Jinja to render the XML script that will be passed to rosetta.

    finalize_protocol(workspace, params)

    # Submit the job and put it immediately into the hold state.

    qsub_command = 'qsub', '-h', '-cwd',
    qsub_command += '-o', workspace.log_dir,
    qsub_command += '-j', 'y',
    qsub_command += '-t', '1-{0}'.format(nstruct),
    qsub_command += '-l', 'h_rt={0}'.format(max_runtime),
    qsub_command += '-l', 'mem_free={0}'.format(max_memory),
    qsub_command += pipeline.big_job_path(script),
    qsub_command += workspace.focus_dir,

    status = process.check_output(qsub_command)
    status_pattern = re.compile(r'Your job-array (\d+).[0-9:-]+ \(".*"\) has been submitted')
    status_match = status_pattern.match(status)

    if not status_match:
        print status
        sys.exit()

    # Figure out the job id, then make a params file specifically for it.

    job_id = status_match.group(1)

    with open(workspace.job_info_path(job_id), 'w') as file:
        json.dump(params, file)

    # Release the hold on the job.

    qrls_command = 'qrls', job_id
    process.check_output(qrls_command)
    print status,