Summary of Errors

Summary of Errors

• Protein Ontology [pr] failed to resolve: HTTPSConnectionPool(host='proconsortium.org', port=443): Max retries exceeded with url: /cgi-bin/sta_pro (Caused by ConnectTimeoutError(<urllib3.connection.HTTPSConnection object at 0x7fccf41b76e0>, 'Connection to proconsortium.org timed out. (connect timeout=15)'))

Protein Ontology

Using class: PRGetter

Traceback (most recent call last):
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connection.py", line 198, in _new_conn
    sock = connection.create_connection(
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/connection.py", line 85, in create_connection
    raise err
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/connection.py", line 73, in create_connection
    sock.connect(sa)
TimeoutError: timed out

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 787, in urlopen
    response = self._make_request(
               ^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 488, in _make_request
    raise new_e
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 464, in _make_request
    self._validate_conn(conn)
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 1093, in _validate_conn
    conn.connect()
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connection.py", line 753, in connect
    self.sock = sock = self._new_conn()
                       ^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connection.py", line 207, in _new_conn
    raise ConnectTimeoutError(
urllib3.exceptions.ConnectTimeoutError: (<urllib3.connection.HTTPSConnection object at 0x7fccf41b76e0>, 'Connection to proconsortium.org timed out. (connect timeout=15)')

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/adapters.py", line 644, in send
    resp = conn.urlopen(
           ^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 841, in urlopen
    retries = retries.increment(
              ^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/retry.py", line 519, in increment
    raise MaxRetryError(_pool, url, reason) from reason  # type: ignore[arg-type]
    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
urllib3.exceptions.MaxRetryError: HTTPSConnectionPool(host='proconsortium.org', port=443): Max retries exceeded with url: /cgi-bin/sta_pro (Caused by ConnectTimeoutError(<urllib3.connection.HTTPSConnection object at 0x7fccf41b76e0>, 'Connection to proconsortium.org timed out. (connect timeout=15)'))

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 265, in iter_versions
    yv = resolve(cls)
         ^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 187, in resolve
    return _resolve_helper_cached(name)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 393, in func_wrapper
    return _call(*args, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 332, in _call
    return _calc_entry(core, key, func, args, kwds)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 66, in _calc_entry
    func_res = func(*args, **kwds)
               ^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 197, in _resolve_helper_cached
    return getter.resolve()
           ^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 213, in resolve
    version=cls.version,
            ^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 91, in version
    if isinstance(cls._cache_prop, str):
                  ^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 85, in _cache_prop
    cls._cache = cls().get()
                 ^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/pr.py", line 23, in get
    soup = get_soup(URL)
           ^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/pystow/utils.py", line 1441, in get_soup
    res = requests.get(url, verify=verify, timeout=timeout or 15, headers=headers)
          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/api.py", line 73, in get
    return request("get", url, params=params, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/api.py", line 59, in request
    return session.request(method=method, url=url, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 589, in request
    resp = self.send(prep, **send_kwargs)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 703, in send
    r = adapter.send(request, **kwargs)
        ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/adapters.py", line 665, in send
    raise ConnectTimeout(e, request=request)
requests.exceptions.ConnectTimeout: HTTPSConnectionPool(host='proconsortium.org', port=443): Max retries exceeded with url: /cgi-bin/sta_pro (Caused by ConnectTimeoutError(<urllib3.connection.HTTPSConnection object at 0x7fccf41b76e0>, 'Connection to proconsortium.org timed out. (connect timeout=15)'))