Fix tests in CI

[holtgrewe]

The tests are currently broken. This looks like a missing dependency (pytest-vcr), some deprection warnings (DeprecationWarning: pkg_resources is deprecated as an API) and some others.

[holtgrewe]

Added #106 as this appears to be more involved, can be treated as a separate issue and I don't have much experience here (yet).

[holtgrewe]

The issue with the import path mismatch can be resolved by using the -e, --editable flag to pip install.

__________________________________________________________________________________________________________ ERROR collecting src/biocommons/seqrepo/fastadir/bases.py __________________________________________________________________________________________________________
/opt/miniconda3/envs/seqrepo/lib/python3.8/site-packages/_pytest/runner.py:341: in from_call
    result: Optional[TResult] = func()
/opt/miniconda3/envs/seqrepo/lib/python3.8/site-packages/_pytest/runner.py:372: in <lambda>
    call = CallInfo.from_call(lambda: list(collector.collect()), "collect")
/opt/miniconda3/envs/seqrepo/lib/python3.8/site-packages/_pytest/doctest.py:547: in collect
    module = import_path(
/opt/miniconda3/envs/seqrepo/lib/python3.8/site-packages/_pytest/pathlib.py:587: in import_path
    raise ImportPathMismatchError(module_name, module_file, path)
E   _pytest.pathlib.ImportPathMismatchError: ('biocommons.seqrepo.fastadir.bases', '/opt/miniconda3/envs/seqrepo/lib/python3.8/site-packages/biocommons/seqrepo/fastadir/bases.py', PosixPath('/home/holtgrem_c/Development/biocommons.seqrepo/src/biocommons/seqrepo/fastadir/bases.py'))
__________________________________________________________________________________________________________ ERROR collecting src/biocommons/seqrepo/fastadir/fabgz.py __________________________________________________________________________________________________________

[holtgrewe]

No change to the Python code is necessary for the errors, all can be fixed for #104 and #106 remains for the new style namespace issue.