Fix interactive tool test

"""Tests for tools."""

import pytest

from bioblend.galaxy import GalaxyInstance

from bioblend.galaxy.datasets import DatasetClient

TEST_INT_TOOL_ID = "interactive_tool_generic_output"

@pytest.mark.skip()

def test_tool(nova_instance: Nova) -> None:

def test_run_tool(nova_instance: Nova) -> None:

    with nova_instance.connect() as connection:

        store = connection.create_data_store(name="nova_galaxy_testing")

        test_tool = Tool(TEST_TOOL_ID)

        assert "hostname:" in data.get_content()

def test_tool_interactive(nova_instance: Nova, galaxy_instance: GalaxyInstance) -> None:

def test_run_tool_interactive(nova_instance: Nova, galaxy_instance: GalaxyInstance) -> None:

    with nova_instance.connect() as connection:

        store = connection.create_data_store(name="nova_galaxy_testing")

        store.persist()

        notebook = Dataset(path="tests/test_files/test_jupyter_notebook.ipynb")

        test_tool = Tool(TEST_INT_TOOL_ID)

        params = Parameters()

        params.add_input("mode|mode_select", "previous")

        params.add_input("ipynb", notebook)

        params.add_input("run_it", True)

        link = test_tool.run_interactive(data_store=store, params=params)

        link = test_tool.run_interactive(data_store=store, params=params, check_url=False)

        assert link is not None

        entry_points = galaxy_instance.make_get_request(f"{store.nova_connection.galaxy_url}/api/entry_points")

        entry_points = galaxy_instance.make_get_request(

            f"{store.nova_connection.galaxy_url}/api/entry_points?running=true"

        )

        for ep in entry_points.json():

            print(ep)

            if ep.get("target", None):

                if link == f"{store.nova_connection.galaxy_url}{ep['target']}":

                    galaxy_instance.jobs.wait_for_job(job_id=ep["job_id"])

                    test_output = None

                    for out in outputs:

                        if out.get("name", None) == "output_single":

                            test_output = out["id"]

                            test_output = out["dataset"]["id"]

                    assert test_output is not None

                    dataset_client = DatasetClient(store.nova_connection.galaxy_instance)

                    test_text = dataset_client.download_dataset(

                        test_output, use_default_filename=False, file_path=None

                    ).decode("utf-8")

                    assert test_text == "this is a test"

                    break

                    return

        raise Exception("Did not find interactive tool while testing.")