Closes #22. Added a test that the memory usage doesn't balloon.

[rhliang]

Also added some other supporting code, like a CI workflow to run the test on a schedule, and also the one-off script that I used to help measure resource consumption of the code.

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 100.00%. Comparing base (d4366d9) to head (776d5b0).
✅ All tests successful. No failed tests found.

Additional details and impacted files

@@            Coverage Diff            @@
##              main       #23   +/-   ##
=========================================
  Coverage   100.00%   100.00%           
=========================================
  Files            5         5           
  Lines          808       803    -5     
  Branches       117       116    -1     
=========================================
- Hits           808       803    -5     

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[va7eex]

I have some suggestions that are completely optional, otherwise I approve.

[va7eex]

I'd probably add this regex to the other regexes defined above.

[va7eex]

I would recommend these be both of type Path

https://docs.python.org/3/library/argparse.html#type

You could be a bit more explicit and type the directory as "a directory", see this example: https://stackoverflow.com/a/51212150

[va7eex]

Typing with Path, this could become

    for exon1_filepath in args.input_dr.glob("*.BA.txt"):
        sample_name: str = sample_regex.match(exon1_filepath.name).group(1)
        exon2_filepath: Path= exon1_filepath.with_name(exon1_filepath.name.replace("BA.txt", "BB.txt"))
        exon1 = exon1_filepath.read_text().strip()
        exon2 = exon2_filepath.read_text().strip()

    ...
    json_filepath = args.input_dir / f"{sample_name}.json"
    json_filepath.write_text(json.dumps(json_input))

    ...
    result = subprocess.run(
        [
            ...,
            json_filepath.as_posix(),
        ]