All datasets from a recent batch failed with this error. I'm wondering if the internet was down on Frontera at the time?
Node: mriqc_wf.anatMRIQC.UploadMetrics
Working directory: /node_tmp/work_dir/mriqc/ds004478_sub-01/mriqc_wf/anatMRIQC/a63125fa58866c73d5b1e2e2859283294faa562b/UploadMetrics
Node inputs:
auth_token = 8sSYVI0XjFqacEMZ8wF4
email = <undefined>
endpoint = https://mriqc.nimh.nih.gov:443/api/v1
in_iqms = /scratch1/03201/jbwexler/openneuro_derivatives/derivatives/mriqc/ds004478-mriqc/sub-01/anat/sub-01_T1w.json
modality = undefined
strict = False
Traceback (most recent call last):
File "/opt/conda/lib/python3.11/site-packages/mriqc/engine/plugin.py", line 64, in run_node
result['result'] = node.run(updatehash=updatehash)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/nipype/pipeline/engine/nodes.py", line 527, in run
result = self._run_interface(execute=True)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/nipype/pipeline/engine/nodes.py", line 645, in _run_interface
return self._run_command(execute)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/nipype/pipeline/engine/nodes.py", line 771, in _run_command
raise NodeExecutionError(msg)
nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node UploadMetrics.
Traceback:
Traceback (most recent call last):
File "/opt/conda/lib/python3.11/site-packages/urllib3/connectionpool.py", line 537, in _make_request
response = conn.getresponse()
^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/urllib3/connection.py", line 466, in getresponse
httplib_response = super().getresponse()
^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/http/client.py", line 1390, in getresponse
response.begin()
File "/opt/conda/lib/python3.11/http/client.py", line 325, in begin
version, status, reason = self._read_status()
^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/http/client.py", line 286, in _read_status
line = str(self.fp.readline(_MAXLINE + 1), "iso-8859-1")
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/socket.py", line 706, in readinto
return self._sock.recv_into(b)
^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/ssl.py", line 1314, in recv_into
return self.read(nbytes, buffer)
^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/ssl.py", line 1166, in read
return self._sslobj.read(len, buffer)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
TimeoutError: The read operation timed out
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/opt/conda/lib/python3.11/site-packages/requests/adapters.py", line 486, in send
resp = conn.urlopen(
^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/urllib3/connectionpool.py", line 847, in urlopen
retries = retries.increment(
^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/urllib3/util/retry.py", line 470, in increment
raise reraise(type(error), error, _stacktrace)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/urllib3/util/util.py", line 39, in reraise
raise value
File "/opt/conda/lib/python3.11/site-packages/urllib3/connectionpool.py", line 793, in urlopen
response = self._make_request(
^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/urllib3/connectionpool.py", line 539, in _make_request
self._raise_timeout(err=e, url=url, timeout_value=read_timeout)
File "/opt/conda/lib/python3.11/site-packages/urllib3/connectionpool.py", line 370, in _raise_timeout
raise ReadTimeoutError(
urllib3.exceptions.ReadTimeoutError: HTTPSConnectionPool(host='mriqc.nimh.nih.gov', port=443): Read timed out. (read timeout=15)
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/opt/conda/lib/python3.11/site-packages/nipype/interfaces/base/core.py", line 397, in run
runtime = self._run_interface(runtime)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/mriqc/interfaces/webapi.py", line 148, in _run_interface
response, payload = upload_qc_metrics(
^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/mriqc/interfaces/webapi.py", line 272, in upload_qc_metrics
response = requests.post(
^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/requests/api.py", line 115, in post
return request("post", url, data=data, json=json, **kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/requests/api.py", line 59, in request
return session.request(method=method, url=url, **kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/requests/sessions.py", line 589, in request
resp = self.send(prep, **send_kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/requests/sessions.py", line 703, in send
r = adapter.send(request, **kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/requests/adapters.py", line 532, in send
raise ReadTimeout(e, request=request)
requests.exceptions.ReadTimeout: HTTPSConnectionPool(host='mriqc.nimh.nih.gov', port=443): Read timed out. (read timeout=15)
All datasets from a recent batch failed with this error. I'm wondering if the internet was down on Frontera at the time?