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@carrieganote
Created August 16, 2018 15:25
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error on wrapper
galaxy.jobs.runners.drmaa DEBUG 2018-08-16 15:10:25,560 (29) submitting file /export/galaxy-central/database/job_working_directory/000/29/galaxy_29.sh
galaxy.jobs.runners.drmaa DEBUG 2018-08-16 15:10:25,560 (29) native specification is: --ntasks=1 --share
galaxy.jobs.runners.drmaa INFO 2018-08-16 15:10:25,565 (29) queued as 30
galaxy.jobs DEBUG 2018-08-16 15:10:25,566 (29) Persisting job destination (destination id: slurm_cluster)
galaxy.jobs.runners.drmaa DEBUG 2018-08-16 15:10:25,879 (29/30) state change: job is running
galaxy.jobs.runners.drmaa DEBUG 2018-08-16 15:10:51,484 (29/30) state change: job finished normally
galaxy.model.metadata DEBUG 2018-08-16 15:10:51,839 loading metadata from file for: HistoryDatasetAssociation 39
galaxy.jobs.runners ERROR 2018-08-16 15:10:51,851 (29/30) Job wrapper finish method failed
Traceback (most recent call last):
File "/galaxy-central/lib/galaxy/jobs/runners/__init__.py", line 690, in finish_job
self._finish_or_resubmit_job(job_state, stdout, stderr, exit_code)
File "/galaxy-central/lib/galaxy/jobs/runners/__init__.py", line 433, in _finish_or_resubmit_job
job_state.job_wrapper.finish(stdout, stderr, exit_code, check_output_detected_state=check_output_detected_state)
File "/galaxy-central/lib/galaxy/jobs/__init__.py", line 1364, in finish
self.sa_session.flush()
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/scoping.py", line 153, in do
return getattr(self.registry(), name)(*args, **kwargs)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/session.py", line 2254, in flush
self._flush(objects)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/session.py", line 2380, in _flush
transaction.rollback(_capture_exception=True)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/util/langhelpers.py", line 66, in __exit__
compat.reraise(exc_type, exc_value, exc_tb)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/session.py", line 2344, in _flush
flush_context.execute()
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/unitofwork.py", line 386, in execute
n.execute_aggregate(self, set_)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/unitofwork.py", line 668, in execute_aggregate
uow)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/persistence.py", line 177, in save_obj
mapper, table, update)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/orm/persistence.py", line 768, in _emit_update_statements
execute(statement, multiparams)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/engine/base.py", line 948, in execute
return meth(self, multiparams, params)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/sql/elements.py", line 269, in _execute_on_connection
return connection._execute_clauseelement(self, multiparams, params)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/engine/base.py", line 1060, in _execute_clauseelement
compiled_sql, distilled_params
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/engine/base.py", line 1200, in _execute_context
context)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/engine/base.py", line 1416, in _handle_dbapi_exception
util.reraise(*exc_info)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/engine/base.py", line 1193, in _execute_context
context)
File "/galaxy_venv/local/lib/python2.7/site-packages/sqlalchemy/engine/default.py", line 507, in do_execute
cursor.execute(statement, parameters)
ValueError: A string literal cannot contain NUL (0x00) characters.
galaxy.tools.error_reports DEBUG 2018-08-16 15:10:53,588 Bug report plugin <galaxy.tools.error_reports.plugins.sentry.SentryPlugin object at 0x7f1a1e525190> generated response None
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