DIG-1836: fix snyk vulnerabilities

[daisieh]

This passes snyk test on my local machine now.

I added some env vars to env.sh so that if you want to run the pytest for candigv2-authx, you can do so from that directory, as long as you're in the candig conda env:

(candig) MacBook-Pro:candigv2-authx$ source ../CanDIGv2/env.sh 
(candig) MacBook-Pro:candigv2-authx$ pytest

[mshadbolt]

I tried out fresh rebulid and everything worked well, all integration tests passed, although on the first run, some htsget tests failed. A secondary run had them all passing.

when I tried using the provided way to pytest in authx repo, I get an assertion error:

(candig) marionshadbolt@Marions-Air candigv2-authx % source ../CanDIGv2/env.sh
(candig) marionshadbolt@Marions-Air candigv2-authx % pytest
======================================= test session starts ========================================
platform darwin -- Python 3.12.8, pytest-8.3.3, pluggy-1.5.0
rootdir: /Users/marionshadbolt/Documents/GitHub/candigv2-authx
configfile: pyproject.toml
plugins: Faker-33.1.0, cov-2.7.1, anyio-4.7.0, requests-mock-1.12.1
collected 11 items                                                                                 

test_auth.py ..F........                                                                     [100%]

============================================= FAILURES =============================================
_________________________________________ test_user_email __________________________________________

    def test_user_email():
            """
            If OPA is present, check to see that the user's email is returned.
            """
            if OPA_URL is not None:
>               assert authx.auth.get_user_email(FakeRequest(site_admin=True), opa_url=OPA_URL, admin_secret=OPA_SECRET) == f"{SITE_ADMIN_USER}@test.ca"
E               AssertionError: assert '[email protected]' == '[email protected]@test.ca'
E                 
E                 - [email protected]@test.ca
E                 ?                   --------
E                 + [email protected]

test_auth.py:100: AssertionError
========================================= warnings summary =========================================
test_auth.py::test_put_aws_credential
  /Users/marionshadbolt/Documents/GitHub/candigv2-authx/test_auth.py:165: UserWarning: aws credential tests can only be run within the candig-ingest container
    warnings.warn(UserWarning("aws credential tests can only be run within the candig-ingest container"))

test_auth.py::test_get_s3_url
  /Users/marionshadbolt/Documents/GitHub/candigv2-authx/test_auth.py:208: UserWarning: MINIO_URL is not set
    warnings.warn(UserWarning("MINIO_URL is not set"))

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
===================================== short test summary info ======================================
FAILED test_auth.py::test_user_email - AssertionError: assert '[email protected]' == '[email protected]@test.ca'

[daisieh]

Did you re-run pip install?

pip install -r etc/venv/requirements.txt

[mshadbolt]

worked after updating my local authx