Created
May 26, 2023 15:33
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miniwdl singularity local run fail log
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| [ | |
| "Traceback (most recent call last):", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connectionpool.py\", line 703, in urlopen", | |
| " httplib_response = self._make_request(", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connectionpool.py\", line 398, in _make_request", | |
| " conn.request(method, url, **httplib_request_kw)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connection.py\", line 239, in request", | |
| " super(HTTPConnection, self).request(method, url, body=body, headers=headers)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1282, in request", | |
| " self._send_request(method, url, body, headers, encode_chunked)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1328, in _send_request", | |
| " self.endheaders(body, encode_chunked=encode_chunked)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1277, in endheaders", | |
| " self._send_output(message_body, encode_chunked=encode_chunked)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1037, in _send_output", | |
| " self.send(msg)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 975, in send", | |
| " self.connect()", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/transport/unixconn.py\", line 27, in connect", | |
| " sock.connect(self.unix_socket)", | |
| "ConnectionRefusedError: [Errno 111] Connection refused", | |
| "", | |
| "During handling of the above exception, another exception occurred:", | |
| "", | |
| "Traceback (most recent call last):", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/requests/adapters.py\", line 489, in send", | |
| " resp = conn.urlopen(", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connectionpool.py\", line 787, in urlopen", | |
| " retries = retries.increment(", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/util/retry.py\", line 550, in increment", | |
| " raise six.reraise(type(error), error, _stacktrace)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/packages/six.py\", line 769, in reraise", | |
| " raise value.with_traceback(tb)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connectionpool.py\", line 703, in urlopen", | |
| " httplib_response = self._make_request(", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connectionpool.py\", line 398, in _make_request", | |
| " conn.request(method, url, **httplib_request_kw)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/urllib3/connection.py\", line 239, in request", | |
| " super(HTTPConnection, self).request(method, url, body=body, headers=headers)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1282, in request", | |
| " self._send_request(method, url, body, headers, encode_chunked)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1328, in _send_request", | |
| " self.endheaders(body, encode_chunked=encode_chunked)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1277, in endheaders", | |
| " self._send_output(message_body, encode_chunked=encode_chunked)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 1037, in _send_output", | |
| " self.send(msg)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/http/client.py\", line 975, in send", | |
| " self.connect()", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/transport/unixconn.py\", line 27, in connect", | |
| " sock.connect(self.unix_socket)", | |
| "urllib3.exceptions.ProtocolError: ('Connection aborted.', ConnectionRefusedError(111, 'Connection refused'))", | |
| "", | |
| "Traceback (most recent call last):", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/api/client.py\", line 214, in _retrieve_server_version", | |
| " return self.version(api_version=False)[\"ApiVersion\"]", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/api/daemon.py\", line 181, in version", | |
| " return self._result(self._get(url), json=True)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/utils/decorators.py\", line 46, in inner", | |
| " return f(self, *args, **kwargs)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/api/client.py\", line 237, in _get", | |
| " return self.get(url, **self._set_request_timeout(kwargs))", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/requests/sessions.py\", line 600, in get", | |
| " return self.request(\"GET\", url, **kwargs)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/requests/sessions.py\", line 587, in request", | |
| " resp = self.send(prep, **send_kwargs)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/requests/sessions.py\", line 701, in send", | |
| " r = adapter.send(request, **kwargs)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/requests/adapters.py\", line 547, in send", | |
| " raise ConnectionError(err, request=request)", | |
| "requests.exceptions.ConnectionError: ('Connection aborted.', ConnectionRefusedError(111, 'Connection refused'))", | |
| "", | |
| "During handling of the above exception, another exception occurred:", | |
| "", | |
| "Traceback (most recent call last):", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/WDL/runtime/task.py\", line 170, in run_local_task", | |
| " container = new_task_container(cfg, logger, run_id, run_dir)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/WDL/runtime/task_container.py\", line 531, in new", | |
| " backend_cls.global_init(cfg, logger)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/WDL/runtime/backend/docker_swarm.py\", line 40, in global_init", | |
| " client = docker.from_env(version=\"auto\")", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/client.py\", line 96, in from_env", | |
| " return cls(", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/client.py\", line 45, in __init__", | |
| " self.api = APIClient(*args, **kwargs)", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/api/client.py\", line 197, in __init__", | |
| " self._version = self._retrieve_server_version()", | |
| " File \"/home/ubuntu/miniconda3/lib/python3.10/site-packages/docker/api/client.py\", line 221, in _retrieve_server_version", | |
| " raise DockerException(", | |
| "docker.errors.DockerException: Error while fetching server API version: ('Connection aborted.', ConnectionRefusedError(111, 'Connection refused'))" | |
| ] |
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