No connection adapters were found for 'ftp://ftp.expasy.org/databases/rhea/rhea-release.properties'

[hrshdhgd]

This error is not consistent and happens abruptly with no pattern. Here's what's going on:

I'm trying to get the relations dataframe through pyobo using

  rhea_relation = get_relations_df("rhea")

This in turn calls

    version = get_version(prefix)

get_version() in pyobo looks like this

def get_version(prefix: str) -> Optional[str]:
    """Get the version for the resource, if available.

    :param prefix: the resource name
    :return: The version if available else None
    """
    try:
        version = bioversions.get_version(prefix)
    except KeyError:
        pass  # this prefix isn't available from bioversions
    except Exception as e:
        raise ValueError(f"[{prefix}] could not get version from bioversions") from e
    else:
        if version:
            return version

When prefix == rhea it throws the following error:

*** requests.exceptions.InvalidSchema: No connection adapters were found for 'ftp://ftp.expasy.org/databases/rhea/rhea-release.properties'

Again, this does not happen consistently but does happen. It happened on my system (multiple times) as well as a colleague's system at a different time. I cannot pin-point what the reason could be. Any thoughts @cthoyt ?

[cthoyt]

not sure what's going on here. requests_ftp gets imported and monkeypatched in the rhea module:

bioversions/src/bioversions/sources/rhea.py

Line 14 in 88246fe

requests_ftp.monkeypatch_session()

[cthoyt]

We could switch the URL to https://ftp.expasy.org/databases/rhea/rhea-release.properties and it would still work. That might be the safest solution

[hrshdhgd]

I agree. Testing it right now. The only way I could make it work with ftp:/ was if I called requests_ftp.monkeypatch_session() right before get_relations_df() call in my project. Not sure if it is an optimal solution.

[hrshdhgd]

.. and that worked!

[hrshdhgd]

#40