Mercurial > repos > shellac > sam_consensus_v3
diff env/lib/python3.9/site-packages/bioblend/_tests/GalaxyTestBase.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.9/site-packages/bioblend/_tests/GalaxyTestBase.py Mon Mar 22 18:12:50 2021 +0000 @@ -0,0 +1,27 @@ +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)