Hi all,
I’m installing via GalaxyKickStart…
I’m getting the following error:
galaxy.jobs.runners ERROR 2017-11-06 19:14:05,263 (19) Failure preparing job
Traceback (most recent call last):
File
"/home/exacloud/lustre1/galaxydev/galaxyuser/lib/galaxy/jobs/runners/__init__.py",
line 175, in prepare_job
modify_command_for_container=modify_command_for_container
File
"/home/exacloud/lustre1/galaxydev/galaxyuser/lib/galaxy/jobs/runners/__init__.py",
line 209, in build_command_line
container=container
File
"/home/exacloud/lustre1/galaxydev/galaxyuser/lib/galaxy/jobs/command_factory.py",
line 84, in build_command
externalized_commands = __externalize_commands(job_wrapper,
external_command_shell, commands_builder, remote_command_params)
File
"/home/exacloud/lustre1/galaxydev/galaxyuser/lib/galaxy/jobs/command_factory.py",
line 143, in __externalize_commands
write_script(local_container_script, script_contents, config)
File
"/home/exacloud/lustre1/galaxydev/galaxyuser/lib/galaxy/jobs/runners/util/job_script/__init__.py",
line 112, in write_script
_handle_script_integrity(path, config)
File
"/home/exacloud/lustre1/galaxydev/galaxyuser/lib/galaxy/jobs/runners/util/job_script/__init__.py",
line 147, in _handle_script_integrity
raise Exception("Failed to write job script, could not verify job script
integrity.")
Exception: Failed to write job script, could not verify job script integrity.
galaxy.model.metadata DEBUG 2017-11-06 19:14:05,541 Cleaning up external
metadata files
galaxy.model.metadata DEBUG 2017-11-06 19:14:05,576 Failed to cleanup
MetadataTempFile temp files from
/home/exacloud/lustre1/galaxydev/galaxyuser/database/jobs/000/19/metadata_out_HistoryDatasetAssociation_16_I8bhLX:
No JSON object could be decoded
I would like to further understand what it means to not verify integrity of a
job script. Does this just mean there is a permissions error? Ownership
doesn’t match up?
Thanks,
John
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