Mercurial > repos > shellac > guppy_basecaller
view env/lib/python3.7/site-packages/bioblend/_tests/GalaxyTestBase.py @ 0:26e78fe6e8c4 draft
"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author | shellac |
---|---|
date | Sat, 02 May 2020 07:14:21 -0400 |
parents | |
children |
line wrap: on
line source
import os import bioblend import bioblend.galaxy from . import test_util from .test_util import unittest bioblend.set_stream_logger('test', level='INFO') BIOBLEND_TEST_JOB_TIMEOUT = int(os.environ.get("BIOBLEND_TEST_JOB_TIMEOUT", "60")) @test_util.skip_unless_galaxy() class GalaxyTestBase(unittest.TestCase): def setUp(self): galaxy_key = os.environ['BIOBLEND_GALAXY_API_KEY'] galaxy_url = os.environ['BIOBLEND_GALAXY_URL'] self.gi = bioblend.galaxy.GalaxyInstance(url=galaxy_url, key=galaxy_key) def _test_dataset(self, history_id, contents="1\t2\t3", **kwds): tool_output = self.gi.tools.paste_content(contents, history_id, **kwds) return tool_output["outputs"][0]["id"] def _wait_and_verify_dataset(self, dataset_id, expected_contents, timeout_seconds=BIOBLEND_TEST_JOB_TIMEOUT): dataset_contents = self.gi.datasets.download_dataset(dataset_id, maxwait=timeout_seconds) self.assertEqual(dataset_contents, expected_contents)