IMP.test.TestCase Class Reference

Super class for IMP test cases. More...

Inheritance diagram for IMP.test.TestCase:

Detailed Description

Super class for IMP test cases.

This provides a number of useful IMP-specific methods on top of the standard Python unittest.TestCase class. Test scripts should generally contain a subclass of this class, conventionally called Tests (this makes it easier to run an individual test from the command line) and use IMP::test::main() as their main function.

Note

This class is only available in Python.

Definition at line 134 of file test/__init__.py.

Public Member Functions
def	assertClassNames
	Check that all the classes in the module follow the IMP naming conventions. More...
def	assertFunctionNames
	Check that all the functions in the module follow the IMP naming conventions. More...
def	assertNotImplemented
	Assert that the given callable object is not implemented. More...
def	assertNumPyArrayEqual
	Fail if the given numpy array doesn't match expected. More...
def	assertRaisesInternalException
	Assert that the given callable object raises InternalException. More...
def	assertRaisesUsageException
	Assert that the given callable object raises UsageException. More...
def	assertSequenceAlmostEqual
	Fail if the difference between any two items in the two sequences are exceed the specified number of places or delta. More...
def	assertShow
	Check that all the classes in modulename have a show method. More...
def	assertValueObjects
	Check that all the C++ classes in the module are values or objects. More...
def	assertXYZDerivativesInTolerance
	Assert that x,y,z analytical derivatives match numerical within a tolerance, or a percentage (of the analytical value), whichever is larger. More...
def	check_runnable_python_module
	Check a Python module designed to be runnable with 'python -m' to make sure it supports standard command line options. More...
def	check_standard_object_methods
	Check methods that every IMP::Object class should have. More...
def	check_unary_function_deriv
	Check the unary function func's derivatives against numerical approximations between lb and ub. More...
def	check_unary_function_min
	Make sure that the minimum of the unary function func over the range between lb and ub is at expected_fmin. More...
def	create_particles_in_box
	Create a bunch of particles in a box. More...
def	create_point_particle
	Make a particle with optimizable x, y and z attributes, and add it to the model. More...
def	failure_probability
	Estimate how likely a given block of code is to raise an AssertionError. More...
def	get_input_file_name
	Get the full name of an input file in the top-level test directory. More...
def	get_magnitude
	Get the magnitude of a list of floats. More...
def	get_tmp_file_name
	Get the full name of an output file in the tmp directory. More...
def	open_input_file
	Open and return an input file in the top-level test directory. More...
def	particle_distance
	Return distance between two given particles. More...
def	probabilistic_check
	Help handle a test which is expected to fail some fraction of the time. More...
def	randomize_particles
	Randomize the xyz coordinates of a list of particles. More...
def	run_example
	Run the named example script. More...
def	run_python_module
	Run a Python module as if with "python -m <modname>", with the given list of arguments as sys.argv. More...

Member Function Documentation

def IMP.test.TestCase.assertClassNames	(		self,
			module,
			exceptions,
			words
	)

Check that all the classes in the module follow the IMP naming conventions.

Definition at line 501 of file test/__init__.py.

def IMP.test.TestCase.assertFunctionNames	(		self,
			module,
			exceptions,
			words
	)

Check that all the functions in the module follow the IMP naming conventions.

Definition at line 611 of file test/__init__.py.

def IMP.test.TestCase.assertNotImplemented	(		self,
			c,
			args,
			keys
	)

Assert that the given callable object is not implemented.

Definition at line 215 of file test/__init__.py.

def IMP.test.TestCase.assertNumPyArrayEqual	(		self,
			numpy_array,
			exp_array
	)

Fail if the given numpy array doesn't match expected.

Definition at line 239 of file test/__init__.py.

def IMP.test.TestCase.assertRaisesInternalException	(		self,
			c,
			args,
			keys
	)

Assert that the given callable object raises InternalException.

This differs from unittest's assertRaises in that the test is skipped in fast mode (where internal checks are turned off).

Definition at line 208 of file test/__init__.py.

def IMP.test.TestCase.assertRaisesUsageException	(		self,
			c,
			args,
			keys
	)

Assert that the given callable object raises UsageException.

This differs from unittest's assertRaises in that the test is skipped in fast mode (where usage checks are turned off).

Definition at line 202 of file test/__init__.py.

def IMP.test.TestCase.assertSequenceAlmostEqual	(		self,
			first,
			second,
			places = None,
			msg = None,
			delta = None
	)

Fail if the difference between any two items in the two sequences are exceed the specified number of places or delta.

See assertAlmostEqual.

Definition at line 248 of file test/__init__.py.

def IMP.test.TestCase.assertShow	(		self,
			modulename,
			exceptions
	)

Check that all the classes in modulename have a show method.

Definition at line 644 of file test/__init__.py.

def IMP.test.TestCase.assertValueObjects	(		self,
			module,
			exceptions_list
	)

Check that all the C++ classes in the module are values or objects.

Definition at line 442 of file test/__init__.py.

def IMP.test.TestCase.assertXYZDerivativesInTolerance	(		self,
			sf,
			xyz,
			tolerance = 0,
			percentage = 0
	)

Assert that x,y,z analytical derivatives match numerical within a tolerance, or a percentage (of the analytical value), whichever is larger.

sf should be a ScoringFunction or Restraint.

Definition at line 220 of file test/__init__.py.

def IMP.test.TestCase.check_runnable_python_module	(		self,
			module
	)

Check a Python module designed to be runnable with 'python -m' to make sure it supports standard command line options.

Definition at line 744 of file test/__init__.py.

def IMP.test.TestCase.check_standard_object_methods	(		self,
			obj
	)

Check methods that every IMP::Object class should have.

Definition at line 407 of file test/__init__.py.

def IMP.test.TestCase.check_unary_function_deriv	(		self,
			func,
			lb,
			ub,
			step
	)

Check the unary function func's derivatives against numerical approximations between lb and ub.

Definition at line 389 of file test/__init__.py.

def IMP.test.TestCase.check_unary_function_min	(		self,
			func,
			lb,
			ub,
			step,
			expected_fmin
	)

Make sure that the minimum of the unary function func over the range between lb and ub is at expected_fmin.

Definition at line 397 of file test/__init__.py.

def IMP.test.TestCase.create_particles_in_box	(		self,
			model,
			num = 10,
			lb = [0,
			ub = [10
	)

Create a bunch of particles in a box.

Definition at line 424 of file test/__init__.py.

def IMP.test.TestCase.create_point_particle	(		self,
			model,
			x,
			y,
			z
	)

Make a particle with optimizable x, y and z attributes, and add it to the model.

Definition at line 321 of file test/__init__.py.

def IMP.test.TestCase.failure_probability	(		self,
			testcall
	)

Estimate how likely a given block of code is to raise an AssertionError.

Definition at line 355 of file test/__init__.py.

def IMP.test.TestCase.get_input_file_name	(		self,
			filename
	)

Get the full name of an input file in the top-level test directory.

Definition at line 168 of file test/__init__.py.

def IMP.test.TestCase.get_magnitude	(		self,
			vector
	)

Get the magnitude of a list of floats.

Definition at line 197 of file test/__init__.py.

def IMP.test.TestCase.get_tmp_file_name	(		self,
			filename
	)

Get the full name of an output file in the tmp directory.

The directory containing this file will be automatically cleaned up when the test completes.

Definition at line 189 of file test/__init__.py.

def IMP.test.TestCase.open_input_file	(		self,
			filename,
			mode = 'rb'
	)

Open and return an input file in the top-level test directory.

Definition at line 184 of file test/__init__.py.

def IMP.test.TestCase.particle_distance	(		self,
			p1,
			p2
	)

Return distance between two given particles.

Definition at line 379 of file test/__init__.py.

def IMP.test.TestCase.probabilistic_check	(		self,
			testcall,
			chance_of_failure
	)

Help handle a test which is expected to fail some fraction of the time.

The test is run multiple times and an exception is thrown only if it fails too many times.

Note

Use of this function should be avoided. If there is a corner case that results in a test 'occasionally' failing, write a new test specifically for that corner case and assert that it fails consistently (and remove the corner case from the old test).

Definition at line 331 of file test/__init__.py.

def IMP.test.TestCase.randomize_particles	(		self,
			particles,
			deviation
	)

Randomize the xyz coordinates of a list of particles.

Definition at line 368 of file test/__init__.py.

def IMP.test.TestCase.run_example	(		self,
			filename
	)

Run the named example script.

Returns

a dictionary of all the script's global variables. This can be queried in a test case to make sure the example performed correctly.

Definition at line 678 of file test/__init__.py.

def IMP.test.TestCase.run_python_module	(		self,
			module,
			args
	)

Run a Python module as if with "python -m <modname>", with the given list of arguments as sys.argv.

If module is an already-imported Python module, run its 'main' function and return the result.

If module is a string, run the module in a subprocess and return a subprocess.Popen-like object containing the child stdin, stdout and stderr.

Definition at line 709 of file test/__init__.py.

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The documentation for this class was generated from the following file:

• test/__init__.py