def print_errors_and_exit(parser, errors, errcode, print_help = True):
if print_help:
parser.print_help()
errors.insert(0, '')
errors.append('')
for e in errors:
colorprinter.error(e.replace(' ', ' '))
if errcode:
sys.exit(errcode)
else:
sys.exit(ERRCODE_ARGUMENTS)
def main():
this_dir = os.path.dirname(os.path.realpath(__file__))
make_fragments_script_path = os.path.join(this_dir, make_fragments_script)
errors = [] #check_configuration_paths()
if errors:
colorprinter.error("There is an error in the configuration files:")
for e in errors:
print("")
flname = e[0]
es = e[1]
colorprinter.warning(flname)
for e in es:
colorprinter.error(e)
sys.exit(ERRCODE_CONFIG)
options = parse_args()
if options["outpath"] and options['job_inputs']:
job_script = None
try:
cluster_job = ClusterEngine.FragmentsJob(make_fragments_script_path, options, test_mode = test_mode)
job_script = cluster_job.script
except JobInitializationException, e:
colorprinter.error(str(e))
sys.exit(ERRCODE_ARGUMENTS)
submission_script = os.path.join(options["outpath"], 'submission_script.py')
write_file(submission_script, job_script, 'w')
try:
send_mail = options['sendmail']
username = None
if send_mail:
username = get_username()
(jobid, output) = ClusterEngine.submit(submission_script, options["outpath"], send_mail = send_mail, username = username )
except Exception, e:
colorprinter.error("An exception occurred during submission to the cluster.")
colorprinter.error(str(e))
colorprinter.error(traceback.format_exc())
sys.exit(ERRCODE_CLUSTER)
