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tool stdout / stderr need to strip unicode null #18437

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galaxyproject-sentryintegration bot opened this issue Jun 25, 2024 · 0 comments
Closed

tool stdout / stderr need to strip unicode null #18437

galaxyproject-sentryintegration bot opened this issue Jun 25, 2024 · 0 comments
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@galaxyproject-sentryintegration

Sentry Issue: GALAXY-MAIN-YYZ

ValueError: A string literal cannot contain NUL (0x00) characters.
(21 additional frame(s) were not displayed)
...
  File "galaxy/jobs/runners/pulsar.py", line 701, in finish_job
    job_wrapper.finish(
  File "galaxy/jobs/__init__.py", line 2054, in finish
    self.sa_session.commit()
  File "<string>", line 2, in commit
    # Copyright (C) 2005-2024 the SQLAlchemy authors and contributors
  File "<string>", line 2, in _prepare_impl
    # Copyright (C) 2005-2024 the SQLAlchemy authors and contributors

PendingRollbackError: This Session's transaction has been rolled back due to a previous exception during flush. To begin a new transaction with this Session, first issue Session.rollback(). Original exception was: A string literal cannot contain NUL (0x00) characters. (Background on this error at: https://sqlalche.me/e/20/7s2a)
(14 additional frame(s) were not displayed)
...
  File "galaxy/jobs/runners/__init__.py", line 174, in run_next
    method(arg)
  File "galaxy/jobs/runners/pulsar.py", line 712, in finish_job
    job_wrapper.fail("Unable to finish job", exception=True)
  File "galaxy/jobs/__init__.py", line 1388, in fail
    job = self.get_job()
  File "galaxy/jobs/__init__.py", line 1188, in get_job
    job = self.sa_session.get(Job, self.job_id)
  File "<string>", line 2, in _connection_for_bind
    # Copyright (C) 2005-2024 the SQLAlchemy authors and contributors

(58738325) Unhandled exception calling finish_job
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