Source code for fastr.resources.plugins.executionplugins.linearexecution

# Copyright 2011-2014 Biomedical Imaging Group Rotterdam, Departments of
# Medical Informatics and Radiology, Erasmus MC, Rotterdam, The Netherlands
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# See the License for the specific language governing permissions and
# limitations under the License.

import os
from queue import Queue, Empty
import subprocess
import sys
from threading import Thread
import traceback

import fastr
from fastr.plugins.executionplugin import ExecutionPlugin
from fastr.execution.job import JobState

[docs]class LinearExecution(ExecutionPlugin): """ An execution engine that has a background thread that executes the jobs in order. The queue is a simple FIFO queue and there is one worker thread that operates in the background. This plugin is meant as a fallback when other plugins do not function properly. It does not multi-processing so it is safe to use in environments that do no support that. """
[docs] def __init__(self, finished_callback=None, cancelled_callback=None): super(LinearExecution, self).__init__(finished_callback, cancelled_callback) self.job_queue = Queue() self.timeout = 1.0 self._exec_thread = Thread(None, self.exec_worker, 'ExecWorker') self.running = True self._exec_thread.start()
[docs] @classmethod def test(cls): pass # No need to test stuff
def _queue_job(self, job): # Check if the job is ready to run or must be held fastr.log.debug('Queueing {}'.format( self.job_queue.put(job) def _job_finished(self, result): pass
[docs] def cleanup(self): super(LinearExecution, self).cleanup() self.running = False self._exec_thread.join() self.job_status.clear()
[docs] def exec_worker(self): while self.running: try: job = self.job_queue.get(True, self.timeout) # Make sure subprocess causes no trouble try: fastr.log.debug('Running job {}'.format( job.status = JobState.running command = [sys.executable, os.path.join(fastr.config.executionscript), job.commandfile] with open(job.stdoutfile, 'a') as fh_stdout, open(job.stderrfile, 'a') as fh_stderr: proc = subprocess.Popen(command, stdout=fh_stdout, stderr=fh_stderr) proc.wait() fastr.log.debug('Subprocess finished') fastr.log.debug('Finished {}'.format( except Exception: exc_type, _, trace = sys.exc_info() exc_info = traceback.format_exc() trace = traceback.extract_tb(trace, 1)[0] fastr.log.error('Encountered exception ({}) during execution:\n{}'.format(exc_type.__name__, exc_info)) job.info_store['errors'].append((exc_type.__name__, exc_info, trace[0], trace[1])) finally: self.job_finished(job) self.job_queue.task_done() except Empty: pass