This document is for an old release of Galaxy. You can alternatively view this page in the latest release if it exists or view the top of the latest release's documentation.

galaxy.jobs.runners.util.condor package

Condor helper utilities.

galaxy.jobs.runners.util.condor.submission_params(prefix='submit_', **kwds)[source]
galaxy.jobs.runners.util.condor.build_submit_description(executable, output, error, user_log, query_params)[source]

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

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.


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

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