Class for testing the structural objects.
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__init__(self,
methodName=' runTest ' )
Skip scientific Python tests if not installed. |
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test_alt_loc_missing(self)
Test that a RelaxError occurs when the alternate location indicator
is present but not specified. |
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test_bug_20469_scientific_parser_xray_records(self)
Test the bug
#20469, the ScientificPython parser failure with X-ray records. |
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test_bug_20470_alternate_location_indicator(self)
Catch bug
#20470, the alternate location indicator problem. |
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test_delete_empty(self)
Test the deletion of non-existent structural data. |
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test_delete_multi_pipe(self)
Test the deletion of structural data in only one pipe. |
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test_displacement(self)
Test of the structure.displacement user function. |
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test_load_spins_mol_cat(self)
Test the loading of spins from different molecules into one molecule
container. |
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test_load_internal_results(self)
Load the PDB file using the information in a results file (using the
internal structural object). |
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test_load_internal_results2(self)
Load the PDB file using the information in a results file (using the
internal structural object). |
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test_load_scientific_results(self)
Load the PDB file using the information in a results file (using the
Scientific python structural object). |
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test_metadata_xml(self)
Test the storage and loading of metadata into an XML state file. |
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test_read_merge(self)
Test the merging of two molecules into one. |
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test_read_not_pdb(self)
Test the reading of a file by structure.read_pdb that is not a PDB. |
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test_read_pdb_internal1(self)
Load the '1F35_N_H_molmol.pdb' PDB file (using the internal
structural object PDB reader). |
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test_read_pdb_internal2(self)
Load the 'Ap4Aase_res1-12.pdb' PDB file (using the internal
structural object PDB reader). |
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test_read_pdb_internal3(self)
Load the 'gromacs.pdb' PDB file (using the internal structural object
PDB reader). |
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test_read_pdb_internal4(self)
Load the 'tylers_peptide_trunc.pdb' PDB file (using the internal
structural object PDB reader). |
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test_read_pdb_internal5(self)
Load the 'lactose_MCMM4_S1_1.pdb' PDB file (using the internal
structural object PDB reader). |
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test_read_pdb_internal6(self)
Load the 'lactose_MCMM4_S1_1.pdb' and 'lactose_MCMM4_S1_2.pdb' PDB
files as 2 separate structures (using the internal structural object
PDB reader). |
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test_read_pdb_internal7(self)
Load the 'lactose_MCMM4_S1_1.pdb' PDB file twice as 2 separate
structures (using the internal structural object PDB reader). |
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test_read_pdb_mol_2_model_internal(self)
Load a few 'lactose_MCMM4_S1_*.pdb' PDB files as models (using the
internal structural object PDB reader). |
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test_read_pdb_model_2_mol_internal(self)
Load the 2 models of the 'gromacs.pdb' PDB file as separate molecules
of the same model (using the internal structural object PDB reader). |
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test_read_pdb_complex_internal(self)
Test the packing of models and molecules using 'gromacs.pdb' and
'lactose_MCMM4_S1_*.pdb' (using the internal structural object PDB
reader). |
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test_read_pdb_scientific1(self)
Load the '1F35_N_H_molmol.pdb' PDB file (using the Scientific python
structural object PDB reader). |
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test_read_pdb_scientific2(self)
Load the 'Ap4Aase_res1-12.pdb' PDB file (using the Scientific python
structural object PDB reader). |
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test_read_pdb_scientific3(self)
Load the 'gromacs.pdb' PDB file (using the Scientific python
structural object PDB reader). |
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test_read_pdb_scientific4(self)
Load the 'tylers_peptide_trunc.pdb' PDB file (using the Scientific
python structural object PDB reader). |
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test_read_pdb_scientific5(self)
Load the 'lactose_MCMM4_S1_1.pdb' PDB file (using the Scientific
python structural object PDB reader). |
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test_read_pdb_scientific6(self)
Load the 'lactose_MCMM4_S1_1.pdb' and 'lactose_MCMM4_S1_2.pdb' PDB
files as 2 separate structures (using the Scientific python
structural object PDB reader). |
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test_read_pdb_scientific7(self)
Load the 'lactose_MCMM4_S1_1.pdb' PDB file twice as 2 separate
structures (using the Scientific python structural object PDB
reader). |
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test_read_pdb_mol_2_model_scientific(self)
Load a few 'lactose_MCMM4_S1_*.pdb' PDB files as models (using the
Scientific python structural object PDB reader). |
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test_read_pdb_model_2_mol_scientific(self)
Load the 2 models of the 'gromacs.pdb' PDB file as separate molecules
of the same model (using the Scientific python structural object PDB
reader). |
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test_read_pdb_complex_scientific(self)
Test the packing of models and molecules using 'gromacs.pdb' and
'lactose_MCMM4_S1_*.pdb' (using the Scientific python structural
object PDB reader). |
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test_read_pdb_1UBQ(self)
Test the reading of the complete 1UBQ PDB file. |
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test_read_write_pdb_1UBQ(self)
Test the reading and writing of the 1UBQ PDB file. |
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test_read_xyz_internal1(self)
Load the 'Indol_test.xyz' XYZ file (using the internal structural
object XYZ reader). |
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test_read_xyz_internal2(self)
Load the 'SSS-cluster4-new-test.xyz' XYZ file (using the internal
structural object XYZ reader). |
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test_read_xyz_strychnine(self)
Load the 'strychnine.xyz' XYZ file (using the internal structural
object XYZ reader). |
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test_rmsd(self)
Test the structure.rmsd user function. |
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test_rmsd_ubi(self)
Test the structure.rmsd user function on the truncated ubiquitin
ensemble. |
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test_superimpose_fit_to_first(self)
Test of the structure.superimpose user function, fitting to the first
structure. |
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test_superimpose_fit_to_mean(self)
Test of the structure.superimpose user function, fitting to the mean
structure. |
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test_superimpose_fit_to_mean2(self)
Second test of the structure.superimpose user function, fitting to
the mean structure. |
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test_web_of_motion_12(self)
Check the operation of the structure.web_of_motion user function
using structural models 1 and 2 (of 3). |
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test_web_of_motion_13(self)
Check the operation of the structure.web_of_motion user function
using structural models 1 and 3 (of 3). |
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test_web_of_motion_all(self)
Check the operation of the structure.web_of_motion user function
using all structural models. |
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Inherited from base_classes.SystemTestCase :
script_exec ,
tearDown
Inherited from unittest.case.TestCase :
__call__ ,
__eq__ ,
__hash__ ,
__ne__ ,
__repr__ ,
__str__ ,
addCleanup ,
addTypeEqualityFunc ,
assertAlmostEqual ,
assertAlmostEquals ,
assertDictContainsSubset ,
assertDictEqual ,
assertEqual ,
assertEquals ,
assertFalse ,
assertGreater ,
assertGreaterEqual ,
assertIn ,
assertIs ,
assertIsInstance ,
assertIsNone ,
assertIsNot ,
assertIsNotNone ,
assertItemsEqual ,
assertLess ,
assertLessEqual ,
assertListEqual ,
assertMultiLineEqual ,
assertNotAlmostEqual ,
assertNotAlmostEquals ,
assertNotEqual ,
assertNotEquals ,
assertNotIn ,
assertNotIsInstance ,
assertNotRegexpMatches ,
assertRaises ,
assertRaisesRegexp ,
assertRegexpMatches ,
assertSequenceEqual ,
assertSetEqual ,
assertTrue ,
assertTupleEqual ,
assert_ ,
countTestCases ,
debug ,
defaultTestResult ,
doCleanups ,
fail ,
failIf ,
failIfAlmostEqual ,
failIfEqual ,
failUnless ,
failUnlessAlmostEqual ,
failUnlessEqual ,
failUnlessRaises ,
id ,
run ,
shortDescription ,
skipTest
Inherited from unittest.case.TestCase (private):
_addSkip ,
_baseAssertEqual ,
_deprecate ,
_formatMessage ,
_getAssertEqualityFunc ,
_truncateMessage
Inherited from object :
__delattr__ ,
__format__ ,
__getattribute__ ,
__new__ ,
__reduce__ ,
__reduce_ex__ ,
__setattr__ ,
__sizeof__ ,
__subclasshook__
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