Unlock 30% off on Manual Testing Annual Plans this Holiday Season.

Copied to Clipboard!

How to use test_write_simple method in keyboard

Best Python code snippet using keyboard

test_molecules_fileIO.py

Source:test_molecules_fileIO.py

1import unittest2import numpy as np3import os4import filecmp5from bumpy import Molecules, Metadata6from tests.testutils import PDBComp, GROComp7referenceFilePath = os.path.join(os.path.dirname(__file__), "reference_files/test_molecules_fileIO/")8class test_read_input(unittest.TestCase):9    # TODO : add checks for ignoring HETATOMS, etc10    def test_argument_sanity_checks(self):11        pass12    def test_read_pdb(self):13        inputPDBPath = referenceFilePath + "read_pdb.pdb"14        testMolecule = Molecules(infile=inputPDBPath)15        # test coordinates16        self.assertEqual(testMolecule.coords.shape, (3, 3))17        self.assertAlmostEqual(testMolecule.coords[0, 0], 0)18        self.assertAlmostEqual(testMolecule.coords[1, 1], -10)19        self.assertAlmostEqual(testMolecule.coords[2, 2], 0.7)20        # test atomnames21        self.assertEqual(testMolecule.metadata.atomname[0].strip(), "A")22        self.assertEqual(testMolecule.metadata.atomname[1].strip(), "B")23        self.assertEqual(testMolecule.metadata.atomname[2].strip(), "A")24        # test resnames25        self.assertEqual(testMolecule.metadata.resname[0], "MOLA")26        self.assertEqual(testMolecule.metadata.resname[1], "MOLA")27        self.assertEqual(testMolecule.metadata.resname[2], "MOLB")28    def test_read_gro(self):29        inputGROPath = referenceFilePath + "read_gro.gro"30        testMolecule = Molecules(infile=inputGROPath)31        # test coordinates32        self.assertEqual(testMolecule.coords.shape, (3, 3))33        self.assertAlmostEqual(testMolecule.coords[0, 0], 0)34        self.assertAlmostEqual(testMolecule.coords[1, 1], -10)35        self.assertAlmostEqual(testMolecule.coords[2, 2], 0.7)36        # test atomnames37        self.assertEqual(testMolecule.metadata.atomname[0].strip(), "A")38        self.assertEqual(testMolecule.metadata.atomname[1].strip(), "B")39        self.assertEqual(testMolecule.metadata.atomname[2].strip(), "A")40        # test resnames41        self.assertEqual(testMolecule.metadata.resname[0], "MOLA")42        self.assertEqual(testMolecule.metadata.resname[1], "MOLA")43        self.assertEqual(testMolecule.metadata.resname[2], "MOLB")44        # TODO: test resnums45    def test_ignore_resnames(self):46        inputPDBPath = referenceFilePath + "read_pdb.pdb"47        testMolecule = Molecules(infile=inputPDBPath, ignore="MOLB")48        self.assertEqual(testMolecule.coords.shape, (2, 3))49        self.assertAlmostEqual(testMolecule.coords[0, 0], 0)50        self.assertAlmostEqual(testMolecule.coords[1, 1], -10)51        # test atomnames52        self.assertEqual(testMolecule.metadata.atomname[0].strip(), "A")53        self.assertEqual(testMolecule.metadata.atomname[1].strip(), "B")54        # test resnames55        self.assertEqual(testMolecule.metadata.resname[0], "MOLA")56        self.assertEqual(testMolecule.metadata.resname[1], "MOLA")57class test_write_coordinates(unittest.TestCase):58    def setUp(self):59        ''' Sets up a molecule with equivalent fields to the reference files used for reading tests. Not just60            loading a molecule directly from file because if the reading gets broken then the writing tests would61            likely break too62        '''63        metadata = Metadata(atomname=np.array(("A", "B", "A"), dtype="<U4"),64                            resname=np.array(("MOLA", "MOLA", "MOLB"), dtype="<U4"),65                            ressize=np.array((2, 0, 1)))66        coords = np.array([[0.000, -5.000, 0.500],67                           [5.000, -10.000, 0.600],68                           [10.000, -20.000, 0.700]])69        boxdims = np.array([100, 100, 80])70        self.simple_system = Molecules(metadata=metadata, coords=coords, boxdims=boxdims)71    def tearDown(self):72        ''' Removes temporary files generated during output tests '''73        written_test_files = ["test_write_simple.pdb", "test_write_simple.gro"]74        for file in written_test_files:75            if os.path.exists(file):76                os.remove(file)77    def test_write_pdb(self):78        ''' Want exact match with reference PDB, turn off position changing'''79        temporaryOutputPath = "test_write_simple.pdb"80        self.simple_system.write_coordinates(temporaryOutputPath, position=False, reorder=False)81        self.assertTrue(PDBComp.compareAtomFields(temporaryOutputPath, referenceFilePath + "read_pdb.pdb"))82    def test_write_gro(self):83        ''' Want exact match with reference GRO, turn off position changing'''84        temporaryOutputPath = "test_write_simple.gro"85        self.simple_system.write_coordinates("test_write_simple.gro", position=False, reorder=False)86        self.assertTrue(GROComp.compareAtomFields(temporaryOutputPath, referenceFilePath + "read_gro.gro"))87class test_write_topology(unittest.TestCase):88    def setUp(self):89        metadata = Metadata(atomname=np.array(("A", "A", "B", "B"), dtype="<U4"),90                            resname=np.array(("MOLA", "MOLA", "MOLB", "MOLB"), dtype="<U4"),91                            ressize=np.array((1, 1, 2, 0)))92        self.simple_system = Molecules(metadata=metadata)93    def tearDown(self):94        ''' Removes temporary files generated during output tests '''95        written_test_files = ["test_write_simple.top"]96        for file in written_test_files:97            if os.path.exists(file):98                os.remove(file)99    def test_basic_functionality(self):100        temporaryOutputPath = "test_write_simple.top"101        self.simple_system.write_topology(temporaryOutputPath)102        self.assertTrue(filecmp.cmp(temporaryOutputPath, referenceFilePath + "reference_basic_top.top"))103class test_write_index(unittest.TestCase):104    def setUp(self):105        metadata = Metadata(atomname=np.array(("A", "A", "B", "B"), dtype="<U4"),106                            resname=np.array(("MOLA", "MOLA", "MOLB", "MOLB"), dtype="<U4"),107                            leaflets=np.array((0, 1, 1, 1)),108                            ressize=np.array((1, 1, 2, 0)))109        self.simple_system = Molecules(metadata=metadata)110    def tearDown(self):111        written_test_files = ["test_write_simple.ndx", "test_write_top_leaflet_only.ndx",112                              "test_write_molB_as_dummy.ndx"]113        for file in written_test_files:114            if os.path.exists(file):115                os.remove(file)116    def test_writes_fields(self):117        temporaryOutputPath = "test_write_simple.ndx"118        self.simple_system.write_index(temporaryOutputPath)119        self.assertTrue(filecmp.cmp(temporaryOutputPath, referenceFilePath + "reference_basic_index.ndx"))120    def test_handles_zero_indices(self):121        temporaryOutputPath = "test_write_top_leaflet_only.ndx"122        self.simple_system.metadata.leaflets = np.array((1, 1, 1, 1))123        self.simple_system.write_index(temporaryOutputPath)124        self.assertTrue(filecmp.cmp(temporaryOutputPath, referenceFilePath + "reference_top_index_only.ndx"))125    def test_writes_dummy_particles(self):126        # In this case, we'll just treat MOL B as a dummy particle127        temporaryOutputPath = "test_write_molB_as_dummy.ndx"128        self.simple_system.write_index(temporaryOutputPath, dummy_name="MOLB")129        self.assertTrue(filecmp.cmp(temporaryOutputPath, referenceFilePath + "reference_dummy_index.ndx"))130if __name__ == "__main__":...

test_write.py

Source:test_write.py

1import openmetadata as om2import openmetadata.tests3class TestWrite(openmetadata.tests.DynamicTestCase):4    def test_write_simple(self):5        om.write(self.root_path, 'simple', 'value')6        self.assertEquals(om.read(self.root_path, 'simple'), 'value')7    def test_write_deep(self):8        om.write(self.root_path, '/deep/data/key', 'value')9        self.assertEquals(om.read(self.root_path, '/deep/data/key'), 'value')10    def test_write_invalidgroup(self):11        om.write(self.root_path, '/deep/data.string/key', 'value')...

Automation Testing Tutorials

Learn to execute automation testing from scratch with LambdaTest Learning Hub. Right from setting up the prerequisites to run your first automation test, to following best practices and diving deeper into advanced test scenarios. LambdaTest Learning Hubs compile a list of step-by-step guides to help you be proficient with different test automation frameworks i.e. Selenium, Cypress, TestNG etc.