Mercurial > repos > shellac > guppy_basecaller
view env/lib/python3.7/site-packages/bioblend/_tests/TestGalaxyDatasets.py @ 0:26e78fe6e8c4 draft
"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author | shellac |
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date | Sat, 02 May 2020 07:14:21 -0400 |
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import shutil import tempfile import six from . import ( GalaxyTestBase, test_util ) class TestGalaxyDatasets(GalaxyTestBase.GalaxyTestBase): def setUp(self): super(TestGalaxyDatasets, self).setUp() self.history_id = self.gi.histories.create_history(name='TestShowDataset')['id'] self.dataset_contents = "line 1\nline 2\rline 3\r\nline 4" self.dataset_id = self._test_dataset(self.history_id, contents=self.dataset_contents) def tearDown(self): self.gi.histories.delete_history(self.history_id, purge=True) @test_util.skip_unless_galaxy('release_19.05') def test_show_nonexistent_dataset(self): with self.assertRaises(Exception): self.gi.datasets.show_dataset('nonexistent_id') def test_show_dataset(self): self.gi.datasets.show_dataset(self.dataset_id) def test_download_dataset(self): with self.assertRaises(Exception): self.gi.datasets.download_dataset(None) expected_contents = six.b("\n".join(self.dataset_contents.splitlines()) + "\n") # download_dataset() with file_path=None is already tested in TestGalaxyTools.test_paste_content() # self._wait_and_verify_dataset(self.dataset_id, expected_contents) tempdir = tempfile.mkdtemp(prefix='bioblend_test_') try: downloaded_dataset = self.gi.datasets.download_dataset( self.dataset_id, file_path=tempdir, maxwait=GalaxyTestBase.BIOBLEND_TEST_JOB_TIMEOUT) self.assertTrue(downloaded_dataset.startswith(tempdir)) with open(downloaded_dataset, 'rb') as f: self.assertEqual(f.read(), expected_contents) finally: shutil.rmtree(tempdir) with tempfile.NamedTemporaryFile(prefix='bioblend_test_') as f: download_filename = self.gi.datasets.download_dataset( self.dataset_id, file_path=f.name, use_default_filename=False, maxwait=GalaxyTestBase.BIOBLEND_TEST_JOB_TIMEOUT) self.assertEqual(download_filename, f.name) f.flush() self.assertEqual(f.read(), expected_contents) def test_show_stderr(self): stderr = self.gi.datasets.show_stderr(self.dataset_id) self.assertIsNotNone(stderr) def test_show_stdout(self): stdout = self.gi.datasets.show_stdout(self.dataset_id) self.assertIsNotNone(stdout)