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galaxy.jobs.runners.util.condor package

Condor helper utilities.

galaxy.jobs.runners.util.condor.submission_params(prefix='submit_', **kwds)

galaxy.jobs.runners.util.condor.build_submit_description(executable, output, error, user_log, query_params)

Build up the contents of a condor submit description file.

>>> submit_args = dict(executable='/path/to/script', output='o', error='e', user_log='ul')
>>> submit_args['query_params'] = dict()
>>> default_description = build_submit_description(**submit_args)
>>> assert 'executable = /path/to/script' in default_description
>>> assert 'output = o' in default_description
>>> assert 'error = e' in default_description
>>> assert 'queue' in default_description
>>> assert 'universe = vanilla' in default_description
>>> assert 'universe = standard' not in default_description
>>> submit_args['query_params'] = dict(universe='standard')
>>> std_description = build_submit_description(**submit_args)
>>> assert 'universe = vanilla' not in std_description
>>> assert 'universe = standard' in std_description

galaxy.jobs.runners.util.condor.condor_submit(submit_file)

Submit a condor job described by the given file. Parse an external id for the submission or return None and a reason for the failure.

galaxy.jobs.runners.util.condor.condor_stop(external_id)

Stop running condor job and return a failure_message if this fails.

galaxy.jobs.runners.util.condor.summarize_condor_log(log_file, external_id)