def test_equal(self):
# create nodes
left_node_1 = Node(NodeType.CONSTANT, value=1.0)
right_node_1 = Node(NodeType.CONSTANT, value=2.0)
left_node_2 = Node(NodeType.CONSTANT, value=3.0)
right_node_2 = Node(NodeType.CONSTANT, value=4.0)
cos_func_1 = Node(NodeType.FUNCTION,
name="COS",
arity=1,
branches=[left_node_1])
sin_func_1 = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[right_node_1])
cos_func_2 = Node(NodeType.FUNCTION,
name="COS",
arity=1,
branches=[left_node_2])
sin_func_2 = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[right_node_2])
add_func = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[cos_func_1, sin_func_1])
sub_func = Node(NodeType.FUNCTION,
name="SUB",
arity=2,
branches=[sin_func_2, cos_func_2])
# create tree_1
tree_1 = Tree()
tree_1.root = add_func
tree_1.update()
# create tree_2
tree_2 = Tree()
tree_2.root = sub_func
tree_2.update()
self.assertTrue(tree_1.equals(tree_1))
self.assertFalse(tree_1.equals(tree_2))
self.assertTrue(tree_2.equals(tree_2))
self.assertFalse(tree_2.equals(tree_1))
def test_generate_eq_function(self):
# create terminal nodes
term_node = Node(NodeType.CONSTANT, value=100.0)
input_node = Node(NodeType.INPUT, name="x")
# create function nodes
mul_func = Node(NodeType.FUNCTION,
name="MUL",
arity=2,
branches=[input_node, term_node])
rad_func = Node(NodeType.FUNCTION,
name="RAD",
arity=1,
branches=[mul_func])
sin_func = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[rad_func])
# create tree
tree = Tree()
tree.root = sin_func
tree.update()
# generate equation function
eq_func = evaluator.generate_eq_function(tree, self.functions,
self.config)
# assert
self.assertIsNotNone(eq_func)
self.assertEquals(round(eq_func(1), 4), 0.9848)
def test_eval_tree(self):
# create terminal nodes
term_node = Node(NodeType.CONSTANT, value=100.0)
input_node = Node(NodeType.INPUT, name="x")
# create function nodes
mul_func = Node(NodeType.FUNCTION,
name="MUL",
arity=2,
branches=[input_node, term_node])
rad_func = Node(NodeType.FUNCTION,
name="RAD",
arity=1,
branches=[mul_func])
sin_func = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[rad_func])
# create tree
tree = Tree()
tree.root = sin_func
tree.update()
# evaluate tree
score, output = evaluator.eval_tree(tree, self.functions, self.config)
self.assertEquals(round(score, 7), 0.5000001)
def test_replace_node(self):
# setup
node_x = Node(NodeType.INPUT, name="x")
node_y = Node(NodeType.INPUT, name="y")
add_func = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[node_x, node_y])
# build tree
tree = Tree()
tree.root = add_func
tree.update_program()
# replace input node
new_node = Node(NodeType.INPUT, name="z")
before_replace = list(tree.program)
tree.replace_node(node_x, new_node)
after_replace = list(tree.program)
# assert
self.assertTrue(before_replace == before_replace)
self.assertTrue(after_replace == after_replace)
self.assertFalse(before_replace == after_replace)
self.assertTrue(add_func.branches[0] is new_node)
def full_method(self):
# initialize tree
tree = Tree()
tree.size = 1
tree.depth = self.max_depth
tree.root = self.generate_func_node()
tree.tree_type = self.gen_config.get("tree_type", None)
# build tree via full method
self.full_method_build_tree(tree, tree.root, 0)
tree.update()
return tree
def test_edit_tree_inputs_and_terminals(self):
# TEST INPUTS AND TERMINALS
term_node_1 = Node(NodeType.CONSTANT, value=2.0)
term_node_2 = Node(NodeType.INPUT, name="x")
func_node = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[term_node_1, term_node_2])
print "BEFORE:", func_node
tree = Tree()
tree.root = func_node
tree.depth = 3
editor.edit_tree(tree, tree.root, self.functions)
print "AFTER:", func_node
print
def generate_tree_from_dict(self, tree_dict):
tree = Tree()
stack = []
tree.tree_id = tree_dict["id"]
for node_dict in tree_dict["program"]:
node_type = node_dict["type"]
node = None
if node_type == NodeType.INPUT:
node = Node(
NodeType.INPUT,
name=node_dict.get("name", None)
)
tree.program.append(node)
stack.append(node)
elif node_type == NodeType.CONSTANT:
node = Node(
NodeType.CONSTANT,
name=node_dict.get("name", None),
value=node_dict.get("value", None)
)
tree.program.append(node)
stack.append(node)
elif node_type == NodeType.FUNCTION:
value_nodes = []
for i in xrange(node_dict["arity"]):
value_nodes.append(stack.pop())
node = Node(
NodeType.FUNCTION,
name=node_dict["name"],
arity=node_dict["arity"],
branches=value_nodes
)
tree.program.append(node)
stack.append(node)
if node_dict.get("root", False):
tree.root = node
return tree
def test_edit_tree_zero_only(self):
# TEST CONTAINS ZERO
term_node_1 = Node(NodeType.CONSTANT, value=0.0)
term_node_2 = Node(NodeType.CONSTANT, value=1.0)
func_node = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[term_node_1, term_node_2])
print "BEFORE:", func_node
tree = Tree()
tree.root = func_node
tree.depth = 3
editor.edit_tree(tree, tree.root, self.functions)
print "AFTER:", func_node
print
self.assertEquals(func_node.value, 1.0)
def test_generate_eq_function_multivars(self):
# create terminal nodes
term_node = Node(NodeType.INPUT, name="var2")
input_node = Node(NodeType.INPUT, name="var1")
# create function nodes
div_func = Node(NodeType.FUNCTION,
name="DIV",
arity=2,
branches=[input_node, term_node])
# create tree
tree = Tree()
tree.root = div_func
tree.update()
# generate equation function
config = {
"input_variables": [{
"type": "INPUT",
"name": "var1"
}, {
"type": "INPUT",
"name": "var2"
}],
"functions": {
"ADD": "+",
"SUB": "-",
"MUL": "*",
"DIV": "/",
"POW": "**",
"SIN": "math.sin",
"COS": "math.cos",
"RAD": "math.radians",
"LN": "math.ln",
"LOG": "math.log"
}
}
eq_func = evaluator.generate_eq_function(tree, self.functions, config)
# assert
self.assertIsNotNone(eq_func)
self.assertEquals(eq_func(1.0, 2.0), 0.5)
def test_edit_tree_prune(self):
# TEST PRUNE
term_node_1 = Node(NodeType.CONSTANT, value=0.0)
term_node_2 = Node(NodeType.INPUT, name="x")
func_node = Node(NodeType.FUNCTION,
name="MUL",
arity=2,
branches=[term_node_1, term_node_2])
print "BEFORE:", func_node
tree = Tree()
tree.root = func_node
tree.depth = 3
editor.edit_tree(tree, tree.root, self.functions)
print "AFTER:", func_node
print
self.assertEquals(func_node.node_type, NodeType.CONSTANT)
self.assertIsNone(func_node.name)
self.assertEquals(func_node.value, 0)
def setUp(self):
self.config = {
"tree_generation": {
"method": "GROW_METHOD",
"initial_max_depth": 4
},
"mutation": {
"methods": [
"POINT_MUTATION", "HOIST_MUTATION", "SUBTREE_MUTATION",
"SHRINK_MUTATION", "EXPAND_MUTATION"
],
"probability":
1.0
},
"function_nodes": [{
"type": "FUNCTION",
"name": "ADD",
"arity": 2
}, {
"type": "FUNCTION",
"name": "SUB",
"arity": 2
}, {
"type": "FUNCTION",
"name": "MUL",
"arity": 2
}, {
"type": "FUNCTION",
"name": "DIV",
"arity": 2
}, {
"type": "FUNCTION",
"name": "COS",
"arity": 1
}, {
"type": "FUNCTION",
"name": "SIN",
"arity": 1
}, {
"type": "FUNCTION",
"name": "RAD",
"arity": 1
}],
"terminal_nodes": [{
"type": "CONSTANT",
"value": 1.0
}, {
"type": "CONSTANT",
"value": 2.0
}, {
"type": "INPUT",
"name": "x"
}],
"input_variables": [{
"type": "INPUT",
"name": "x"
}]
}
self.functions = GPFunctionRegistry("SYMBOLIC_REGRESSION")
self.generator = TreeGenerator(self.config)
self.parser = TreeParser()
self.mutation = TreeMutation(self.config)
# create nodes
left_node = Node(NodeType.CONSTANT, value=1.0)
right_node = Node(NodeType.INPUT, name="x")
cos_func = Node(NodeType.FUNCTION,
name="COS",
arity=1,
branches=[left_node])
sin_func = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[right_node])
add_func = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[cos_func, sin_func])
# create tree
self.tree = Tree()
self.tree.root = add_func
self.tree.update_program()
self.tree.update_func_nodes()
self.tree.update_term_nodes()
def setUp(self):
self.config = {
"tree_generation": {
"initial_max_depth": 4
},
"crossover": {
"method": "POINT_CROSSOVER",
"probability": 1.0
},
"function_nodes": [{
"type": "FUNCTION",
"name": "ADD",
"arity": 2
}, {
"type": "FUNCTION",
"name": "SUB",
"arity": 2
}, {
"type": "FUNCTION",
"name": "MUL",
"arity": 2
}, {
"type": "FUNCTION",
"name": "DIV",
"arity": 2
}, {
"type": "FUNCTION",
"name": "COS",
"arity": 1
}, {
"type": "FUNCTION",
"name": "SIN",
"arity": 1
}, {
"type": "FUNCTION",
"name": "RAD",
"arity": 1
}],
"terminal_nodes": [{
"type": "CONSTANT",
"value": 1.0
}, {
"type": "CONSTANT",
"value": 2.0
}, {
"type": "CONSTANT",
"value": 2.0
}, {
"type": "CONSTANT",
"value": 3.0
}, {
"type": "CONSTANT",
"value": 4.0
}, {
"type": "CONSTANT",
"value": 5.0
}, {
"type": "CONSTANT",
"value": 6.0
}, {
"type": "CONSTANT",
"value": 7.0
}, {
"type": "CONSTANT",
"value": 8.0
}, {
"type": "CONSTANT",
"value": 9.0
}, {
"type": "CONSTANT",
"value": 10.0
}],
"input_variables": [{
"type": "INPUT",
"name": "x"
}]
}
self.functions = GPFunctionRegistry("SYMBOLIC_REGRESSION")
self.generator = TreeGenerator(self.config)
self.crossover = TreeCrossover(self.config)
self.parser = TreeParser()
# create nodes
left_node_1 = Node(NodeType.INPUT, name="x")
right_node_1 = Node(NodeType.CONSTANT, value=2.0)
node = Node(NodeType.CONSTANT, value=2.0)
left_node_2 = Node(NodeType.CONSTANT, value=3.0)
right_node_2 = Node(NodeType.CONSTANT, value=4.0)
cos_func_1 = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[left_node_1, right_node_1])
sin_func_1 = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[node])
cos_func_2 = Node(NodeType.FUNCTION,
name="COS",
arity=1,
branches=[left_node_2])
sin_func_2 = Node(NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[right_node_2])
add_func = Node(NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[cos_func_1, sin_func_1])
sub_func = Node(NodeType.FUNCTION,
name="SUB",
arity=2,
branches=[sin_func_2, cos_func_2])
# create tree_1
self.tree_1 = Tree()
self.tree_1.root = add_func
self.tree_1.update()
print self.tree_1
# create tree_2
self.tree_2 = Tree()
self.tree_2.root = sub_func
self.tree_2.update()
def setUp(self):
random.seed(10)
self.config = {
"max_population": 10,
"tree_generation": {
"method": "FULL_METHOD",
"initial_max_depth": 4
},
"function_nodes": [
{"type": "FUNCTION", "name": "ADD", "arity": 2},
{"type": "FUNCTION", "name": "SUB", "arity": 2},
{"type": "FUNCTION", "name": "MUL", "arity": 2},
{"type": "FUNCTION", "name": "DIV", "arity": 2},
{"type": "FUNCTION", "name": "COS", "arity": 1},
{"type": "FUNCTION", "name": "SIN", "arity": 1}
],
"terminal_nodes": [
{"type": "CONSTANT", "value": 1.0},
{"type": "INPUT", "name": "x"},
{"type": "INPUT", "name": "y"},
{"type": "INPUT", "name": "z"}
],
"input_variables": [
{"name": "x"},
{"name": "y"},
{"name": "z"}
]
}
self.functions = GPFunctionRegistry("SYMBOLIC_REGRESSION")
self.generator = TreeGenerator(self.config)
self.parser = TreeParser()
# create nodes
left_node = Node(NodeType.CONSTANT, value=1.0)
right_node = Node(NodeType.CONSTANT, value=2.0)
cos_func = Node(
NodeType.FUNCTION,
name="COS",
arity=1,
branches=[left_node]
)
sin_func = Node(
NodeType.FUNCTION,
name="SIN",
arity=1,
branches=[right_node]
)
add_func = Node(
NodeType.FUNCTION,
name="ADD",
arity=2,
branches=[cos_func, sin_func]
)
# create tree
self.tree = Tree()
self.tree.root = add_func
self.tree.update_program()
self.tree.update_func_nodes()
self.tree.update_term_nodes()
def setUp(self):
self.config = {
"max_population":
10,
"tree_generation": {
"method": "FULL_METHOD",
"initial_max_depth": 4
},
"function_nodes": [{
"type": "FUNCTION",
"name": "ADD",
"arity": 2
}, {
"type": "FUNCTION",
"name": "SUB",
"arity": 2
}, {
"type": "FUNCTION",
"name": "MUL",
"arity": 2
}, {
"type": "FUNCTION",
"name": "DIV",
"arity": 2
}, {
"type": "FUNCTION",
"name": "COS",
"arity": 1
}, {
"type": "FUNCTION",
"name": "SIN",
"arity": 1
}],
"terminal_nodes": [{
"type": "CONSTANT",
"value": 1.0
}, {
"type": "INPUT",
"name": "x"
}, {
"type": "INPUT",
"name": "y"
}, {
"type": "INPUT",
"name": "z"
}],
"input_variables": [{
"name": "x"
}, {
"name": "y"
}, {
"name": "z"
}]
}
self.t_parser = TreeParser()
self.tree = Tree()
node_x = Node(NodeType.INPUT, name="x")
node_y = Node(NodeType.INPUT, name="y")
node_z = Node(NodeType.INPUT, name="z")
self.tree.input_nodes.append(node_x)
self.tree.input_nodes.append(node_y)
self.tree.input_nodes.append(node_z)