folding-studio/tests/commands/test_msa.py

from pathlib import Path
from unittest import mock

import pytest
from folding_studio.cli import app
from folding_studio.utils.data_model import MSARequestParams
from folding_studio_data_models import (
    FeatureMode,
    MessageStatus,
    MSAMessage,
    MSAPublication,
)
from typer.testing import CliRunner

current_workdir = Path(__file__).parent.resolve()
data_dir = Path(current_workdir / "data")

runner = CliRunner()


@pytest.fixture(autouse=True)
def mock_get_auth_headers():
    with mock.patch(
        "folding_studio.commands.msa.get_auth_headers", return_value={"Authorization": "Bearer identity_token"}
    ) as m:
        yield m


@pytest.fixture()
def mock_simple_msa(request):
    pub = MSAPublication(
        message=MSAMessage(
            pipeline_name="msa",
            user_id="default-user",
            project_code="default-project",
            msa_experiment_id="dummy-experiment",
            model_preset="monomer",
            fasta_file_name="monomer.fasta",
            ignore_cache=False,
        ),
        status=request.param,
    )

    with mock.patch(
        "folding_studio.commands.msa.simple_msa",
        return_value=pub.model_dump(mode="json"),
    ) as m:
        yield m


@pytest.fixture()
def default_params():
    yield MSARequestParams(
        ignore_cache=False,
        msa_mode=FeatureMode.SEARCH,
    )


def test_search_with_unsupported_file_fails(tmp_files):
    result = runner.invoke(app, ["msa", "search", str(tmp_files["invalid_source"])])
    assert result.exit_code == 2
    assert "Invalid value for 'SOURCE'" in result.stdout


@pytest.mark.parametrize(
    "mock_simple_msa",
    (
        MessageStatus.PUBLISHED,
        MessageStatus.NOT_PUBLISHED_DONE,
        MessageStatus.NOT_PUBLISHED_PENDING,
    ),
    indirect=True,
)
def test_search_with_fasta_file_pass(
    mock_simple_msa: mock.Mock,
    tmp_files,
    default_params,
    headers,
):
    result = runner.invoke(
        app,
        [
            "msa",
            "search",
            str(tmp_files["monomer_fasta"]),
            "--metadata-file",
            str(tmp_files["metadata_file"]),
        ],
    )
    assert result.exit_code == 0

    mock_simple_msa.assert_called_once_with(
        file=tmp_files["monomer_fasta"],
        params=default_params,
        project_code="FOLDING_DEV"
    )