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83 lines
2.6 KiB
Python
83 lines
2.6 KiB
Python
import os
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from typing import (
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cast,
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get_args,
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NamedTuple,
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)
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import pytest
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from galaxy.tool_util.verify.interactor import (
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DEFAULT_USE_LEGACY_API,
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UseLegacyApiT,
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)
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from galaxy_test.api._framework import ApiTestCase
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from galaxy_test.driver.driver_util import GalaxyTestDriver
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from galaxy_test.driver.integration_util import ConfiguresDatabaseVault
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SKIPTEST = os.path.join(os.path.dirname(__file__), "known_broken_tools.txt")
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class ToolTest(NamedTuple):
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tool_id: str
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tool_version: str
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test_index: int
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def get_skiplist():
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with open(SKIPTEST) as skiptest:
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skiplist = [line.strip() for line in skiptest if line.strip() and not line.startswith("#")]
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return skiplist
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def get_cases() -> list[ToolTest]:
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atc = ApiTestCase()
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atc._test_driver = GalaxyTestDriver()
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atc._test_driver.setup()
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atc.setUp()
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test_summary = atc.galaxy_interactor.get_tests_summary()
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test_cases = []
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for tool_id, summary_dict in test_summary.items():
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for tool_version, tool_dict in summary_dict.items():
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for index in range(tool_dict["count"]):
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test_cases.append(ToolTest(tool_id, tool_version, index))
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atc._test_driver.stop_servers()
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return test_cases
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def cases():
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skiplist = get_skiplist()
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for tool_test in get_cases():
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marks = []
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marks.append(pytest.mark.skipif(tool_test.tool_id in skiplist, reason="tool in skiplist"))
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if "data_manager_" in tool_test.tool_id:
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marks.append(pytest.mark.data_manager(tool_test))
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else:
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marks.append(pytest.mark.tool(tool_test))
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yield pytest.param(tool_test, marks=marks)
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def idfn(val: ToolTest):
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return f"{val.tool_id}/{val.tool_version}-{val.test_index}"
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class TestFrameworkTools(ApiTestCase, ConfiguresDatabaseVault):
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conda_auto_init = True
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conda_auto_install = True
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@classmethod
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def handle_galaxy_config_kwds(cls, config):
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"""Configure vault for credential testing."""
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super().handle_galaxy_config_kwds(config)
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cls._configure_database_vault(config)
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@pytest.mark.parametrize("testcase", cases(), ids=idfn)
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def test_tool(self, testcase: ToolTest):
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use_legacy_api = os.environ.get("GALAXY_TEST_USE_LEGACY_TOOL_API", DEFAULT_USE_LEGACY_API)
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assert use_legacy_api in get_args(UseLegacyApiT)
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cast(UseLegacyApiT, use_legacy_api) # https://github.com/python/mypy/issues/15106
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assert self._test_driver
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self._test_driver.run_tool_test(
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testcase.tool_id, testcase.test_index, tool_version=testcase.tool_version, use_legacy_api=use_legacy_api
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)
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