Question: Tool error "OSError: [Errno 28] No space left on device"
0
gravatar for 1603.neha
21 months ago by
1603.neha70
1603.neha70 wrote:

hi i have 1. taken sra files from ebi 2. fast q groomer 3. tophat i am getting error info url: https://usegalaxy.org/datasets/bbd44e69cb8906b561fa3f7c441de73b/show_params job id: 12604972 (bbd44e69cb8906b5498919c36178e348) tool id: toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/0.9 tool version: 0.9 job pid or drm id: None

job tool version: None

job command line:

None

job stderr:


job stdout:


job info:

failure preparing job

job traceback: Traceback (most recent call last): File "/cvmfs/main.galaxyproject.org/galaxy/lib/galaxy/jobs/runners/pulsar.py", line 307, in __prepare_job remote_job_config = client.setuptool.id, tool.version) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/client/client.py", line 75, in setup return self.setup_handler.setup(setup_args) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/client/setup_handler.py", line 68, in setup return self.client.remote_setup(setup_args) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/client/decorators.py", line 13, in replacement response = func(args, kwargs) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/client/client.py", line 168, in remote_setup return self._raw_execute("setup", setup_args) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/client/client.py", line 218, in _raw_execute return self.job_manager_interface.execute(command, args, data, input_path, output_path) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/client/interface.py", line 142, in execute result = action(args) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/web/routes.py", line 47, in setup return __setup(manager, job_id, tool_id=tool_id, tool_version=tool_version, use_metadata=use_metadata) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/web/routes.py", line 52, in __setup response = setup_job(manager, job_id, tool_id, tool_version, use_metadata) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/manager_endpoint_util.py", line 108, in setup_job job_id = manager.setup_job(job_id, tool_id, tool_version) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/managers/stateful.py", line 60, in setup_job job_id = self._proxied_manager.setup_job(args, *kwargs) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/managers/base/external.py", line 31, in setup_job return self._setup_job_for_job_id(job_id, tool_id, tool_version) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/managers/base/directory.py", line 48, in _setup_job_for_job_id self._setup_job_directory(job_id) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/managers/base/__init__.py", line 145, in _setup_job_directory job_directory.setup() File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/managers/base/__init__.py", line 278, in setup self._directory_maker.make(self.job_directory) File "/cvmfs/main.galaxyproject.org/venv/lib/python2.7/site-packages/pulsar/managers/base/__init__.py", line 397, in make os.mkdir(makedir_args) OSError: [Errno 28] No space left on device: '/jetstream/tacc-scratch0/main/jobs/12604972'.

please help

ADD COMMENTlink modified 21 months ago by Jennifer Hillman Jackson23k • written 21 months ago by 1603.neha70
0
gravatar for Jennifer Hillman Jackson
21 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

Please re-run the job. There were some cluster issues over the weekend through mid-day yesterday.

Thanks, Jen, Galaxy team

ADD COMMENTlink written 21 months ago by Jennifer Hillman Jackson23k
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