def insert_at_tail(self, data):
node = Node(data)
curr = self.head
while curr.next:
curr = curr.next
curr.next = node
node.prev = curr
def p_parameter(p):
'''parameter : type ID
| BYREF type ID'''
if len(p) == 3:
p[0] = Node("parameter", [p[1]], p[2])
else:
p[0] = Node("byref_parameter", [p[2]], p[3])
def prepend(self, data):
if self.head == None:
self.head = Node(data)
else:
new_head = Node(data)
new_head.next = self.head
self.head = new_head
def add_trnas(my_orfs, G):
f = tempfile.NamedTemporaryFile(mode='wt')
f.write(">temp\n")
f.write(my_orfs.seq)
f.seek(0)
try:
output = Popen(["tRNAscan-SE", "-B", "-q", "-b", f.name], stdout=PIPE, stdin=PIPE, stderr=PIPE).stdout.read()
except:
sys.stderr.write("Warning: tRNAscan not found, proceding without tRNA masking.\n")
return []
# Iterate over the trnas
for line in output.splitlines():
# Add in trna
column = line.split('\t')
start = int(column[2])
stop = int(column[3])
if(start < stop):
source = Node('tRNA', 'start', 4, start)
target = Node('tRNA', 'stop', 4, stop-2)
my_orfs.other_end['t'+str(stop-2)] = start
my_orfs.other_end['t'+str(start)] = stop-2
else:
source = Node('tRNA', 'stop', -4, stop)
target = Node('tRNA', 'start', -4, start-2)
my_orfs.other_end['t'+str(start-2)] = stop
my_orfs.other_end['t'+str(stop)] = start-2
G.add_edge(Edge(source, target, -Decimal(20)))
def p_label_maybe(p):
'''label_maybe : ID COLON
| '''
if len(p) == 3:
p[0] = Node('label', leaf=p[1])
else:
p[0] = Node('no_label')
def p_mult_T(p):
'''mult_T : TIMES
| mult_T TIMES'''
if len(p) == 2:
p[0] = Node("times", leaf='*')
else:
p[0] = Node("times", leaf='*' + p[1].leaf)
def p_includes(p):
'''includes : INCLUDE program END_INCLUDE includes
| INCLUDE program END_INCLUDE'''
if len(p) == 5:
p[0] = Node("include", [p[2], p[4]], p[1])
else:
p[0] = Node("include", [p[2]], p[1])
def push(self, new_data):
# Create new node
new_node = Node(new_data)
# Make next of new node as head
new_node.next = self.head
# Point new node the head node
self.head = new_node
def insert_after(self, locdata, data):
node = Node(data)
curr = self.head
while curr.data != locdata and curr.next:
curr = curr.next
node.next = curr.next
curr.next = node
def process(self):
token = self.token
if token.type == "sep":
if token.val == "{":
self.push_container("object", token)
elif token.val == "}":
self.pop_container("object")
elif token.val == "[":
self.push_container("array", token)
elif token.val == "]":
# print_ast_stack(self.stack)
self.pop_container("array")
elif token.val == "~":
self.process_collection()
else:
self.push_value(Node.from_token(token))
elif token.type == "datasep":
self.process_datasep()
else:
self.push_value(Node.from_token(token))
def create_tree(self, frequency_list):
node_list = []
tree_nodes = []
#cria a lista com os nós da base
for node in frequency_list:
frequency = node[0]
letter = node[1]
node_list.append(Node(frequency, letter))
#junta os nós até o topo da árvore e armazena todos os nós na lista tree
while len(node_list) > 1:
node_list.sort()
node1 = node_list.pop(0)
node2 = node_list.pop(0)
frequency = node1.get_frequency() + node2.get_frequency()
letter = node1.get_letter() + node2.get_letter()
#cria o novo nó a partir dos dois anteriores
new_node = Node(frequency=frequency,
letter=letter,
left_child=node1,
right_child=node2)
node_list.append(new_node)
tree_nodes.append(node1)
tree_nodes.append(node2)
root = node_list.pop(0)
tree_nodes.append(root)
#cria e retorna um objeto tipo árvore
tree = Tree(tree_nodes=tree_nodes)
return tree
def append(self, data):
if self.head == None:
self.head = Node(data)
else:
current = self.head
while current.next != None:
current = current.next
current.next = Node(data)
def push(self, value):
if self.has_space():
item = Node(value)
item.set_next_node(self.top_item)
self.top_item = item
self.size += 1
else:
print("No more room!")
def p_function_definition(p):
'''function_definition : type ID LPAREN parameter_list_maybe RPAREN LBRACE declarations_maybe statements_maybe RBRACE
| VOID ID LPAREN parameter_list_maybe RPAREN LBRACE declarations_maybe statements_maybe RBRACE'''
if p[1] == "void":
temp = Node("void", leaf="void")
p[0] = Node("function_definition", [temp, p[4], p[7], p[8]], p[2])
else:
p[0] = Node("function_definition", [p[1], p[4], p[7], p[8]], p[2])
def p_function_declaration(p):
'''function_declaration : type ID LPAREN parameter_list_maybe RPAREN SEMICOLON
| VOID ID LPAREN parameter_list_maybe RPAREN SEMICOLON'''
if p[1] == 'void':
temp = Node("void", leaf="void")
p[0] = Node("function_declaration", [temp, p[4]], p[2])
else:
p[0] = Node("function_declaration", [p[1], p[4]], p[2])
def insert_at_head(self, data):
if self.head is None:
self.head = Node(data)
return
node = Node(data)
self.head.prev = node
node.next = self.head
self.head = node
def push(self, value):
if self.stack_size == self.limit:
raise ValueError('the stack is full')
new_node = Node(value)
new_node.set_next_node(self.top_item)
self.top_item = new_node
self.stack_size += 1
def initplacement(self, tls, x, y, level):
key = (x, y, level)
if key in self.placementcache:
return # was created while this task was queued
(name, url, minsize) = self.provider_url(*key)
filename = self.filecache.fetch(self.session, name, url, minsize)
if not filename:
# Couldn't fetch image
if filename is False: # Definitively unavailable
self.placementcache[key] = False
self.canvas.Refresh() # Probably wanting to know this
return
try:
if __debug__: clock = time.clock()
texdata = self.canvas.vertexcache.texcache.get(filename,
alpha=False,
wrap=False,
downsample=False,
fixsize=True,
defer=True)
except:
if __debug__: print_exc()
self.placementcache[key] = False # Couldn't load image
self.canvas.Refresh() # Probably wanting to know this
return
# Make a new placement
(north, west) = self.xy2latlon(x, y, level)
(south, east) = self.xy2latlon(x + 1, y + 1, level)
placement = DrapedImage(name, 65535, [[
Node([west, north, 0, 1]),
Node([east, north, 1, 1]),
Node([east, south, 1, 0]),
Node([west, south, 0, 0])
]])
placement.load(self.canvas.lookup, self.canvas.defs,
self.canvas.vertexcache)
if isinstance(texdata, tuple):
placement.texdata = texdata
else:
placement.definition.texture = texdata # already in the cache
if __debug__: clock = time.clock()
placement.layout(self.tile, tls=tls)
if not placement.dynamic_data.size:
if __debug__:
print "DrapedImage layout failed for %s - no tris" % placement.name
placement = False
else:
if __debug__:
print "%6.3f time in imagery read & layout for %s" % (
time.clock() - clock, placement.name)
self.canvas.Refresh(
) # Probably wanting to display this - will be allocated during OnPaint
self.placementcache[key] = placement
return
def p_block(self, p):
'''
block : LBRACKET RBRACKET
| LBRACKET questions RBRACKET
'''
if len(p) == 4:
p[0] = Node('question-list', p[2])
else:
p[0] = Node('question-list', [])
def insert_at_pos(self, pos, data):
node = Node(data)
curr = self.head
count = 1
while count != pos and curr.next:
curr = curr.next
count += 1
node.next = curr.next
curr.next = node
def push(self, value):
if self.has_space():
item = Node(value)
item.set_link_node(self.top_item)
self.top_item = item
self.size += 1
print("Adding {} to the Stack!".format(value))
else:
print("Oops. Stack is full. Cant add {}!".format(value))
def push(self, value):
if self.has_space():
item = Node(value)
item.set_next_node(self.top_item)
self.top_item = item
self.size += 1
print("Adding {} to the stack!".format(value))
else:
print("No room for {}!".format(value))
def testNode():
coordinates = [1, 1]
key = '11'
symbol = '-'
newNode = Node(coordinates[0], coordinates[1])
newNodeX = newNode.x
newNodeY = newNode.y
print('coordinates: {}\n'.format(coordinates))
# Coordinates Test
print("Coordinates Test")
if newNodeX == coordinates[0] and newNodeY == coordinates[1]:
print("PASS: Coordinates for node have"
" been set correctly at {}, {}\n".format(newNodeX, newNodeY))
else:
print("FAIL: Expected"
" coordinates -> {}, {}".format(coordinates[0], coordinates[1]))
print("Actual coordinates: {}, {}\n".format(newNodeX, newNodeY))
# Key Test
print("Key Test")
if newNode.key == key:
print("PASS: node key has been set correctly at {}\n").format(
newNode.key)
else:
print("FAIL: Expected" " key -> {}".format(key))
print("Actual key: {}\n".format(newNode.key))
# Symbol Test
print("Symbol Test")
print("Default Symbol Test")
if newNode.symbol == symbol:
print(
"PASS: node symbol has been set correctly to default {}\n").format(
newNode.symbol)
else:
print("FAIL: Expected" " symbol -> {}".format(symbol))
print("Actual symbol: {}\n".format(newNode.symbol))
newSymbol = 'x'
newNode.symbol = 'x'
print("Changed Symbol Test")
if newNode.symbol == newSymbol:
print("PASS: node symbol has been changed correctly to {}\n").format(
newNode.symbol)
else:
print("FAIL: Expected" " new symbol -> {}".format(newSymbol))
print("Actual symbol: {}\n".format(newNode.symbol))
# Neighbors Test
print("Neighbors Test")
if isinstance(newNode.neighbors, list):
print("PASS: newNode neighbors attribute is of type list")
else:
print("FAIL: newNode neighbors attribute is not of type list")
def addNode(self, name, host, port=22, user="******", password=None):
node = Node(name, host, port)
node.assignCredential(user, self.default_key, password)
self.discoverQueue.append(node)
if self.useKey:
self.cleanUp.append(node.keyPath)
return node
def add_to_front(self, item):
temp = Node(item)
if self.back == None:
self.back = self.front = temp
return
oldfront = self.front
self.front = temp
temp.next = oldfront
self.n += 1
def addNode(self, name, host, port=22, user='******', password = None):
node = Node(name, host, port)
node.assignCredential(user, self.default_key, password)
self.discoverQueue.append(node)
if (self.useKey):
self.cleanUp.append(node.keyPath)
return node
def p_program(p):
'''program : declaration program
| includes program
| declaration includes
| declaration'''
if len(p) == 3:
if p[2].type == 'program':
p[0] = p[2].insert_in_children(0, p[1])
else:
p[0] = Node("program", [p[1], p[2]], "program")
else:
p[0] = Node("program", [p[1]], "program")
def test_best_child(self):
""" it should pick the child with the highest probability of winning."""
root_node = Node(self.state, self.bot.hand, 0)
q_vals = (5, 0, 0)
for i in range(3):
node, _ = self.bot.expand_node(root_node)
node.N = 5
node.Q = q_vals[i]
root_node.N = 15
best, _ = self.bot.best_child(root_node)
self.assertEqual(best.Q, 5)
def createList(iterator) -> Node:
'''
Create a link list with None head and keep the order.
'''
head = Node(None, None)
head.next = head
probe = head
for data in iterator:
probe.next = Node(data, head)
probe = probe.next
# node head
return head
class TestNodes(unittest.TestCase):
def setUp(self):
state = GameState(game_mode="Herz Solo", offensive_player=1, active=0)
p_hand = ['EK_', 'EU_', 'G10', 'SA_', 'HK_', 'H7_', 'S7_', 'H10']
p_id = 0
self.node = Node(state, p_hand, p_id)
self.node.add_child("EK_")
def test_hand(self):
result = self.node.children["EK_"].p_hand
expected = set(['EU_', 'G10', 'SA_', 'HK_', 'H7_', 'S7_', 'H10'])
self.assertEqual(result, expected)
def insertAfter(self, prev_node, new_data):
# Check if the given prev_node exists
if prev_node is None:
print("Prev node must be in list")
return
# Create a new node
new_node = Node(new_data)
# Make next of new node as next of prev_node
new_node.next = prev_node.next
prev_node.next = new_node
def worker(self):
self.run_condition.acquire()
while True:
with self.lock:
self.paused = False
self.topics['events'].publish(Event('idle', 0))
self.run_condition.wait()
with self.lock:
nodes = [Node.createNode(node, self, self.start_time) for node in self.running_nodes]
self.topics['events'].publish(Event('running', self.start_time))
if len(nodes) == 0:
continue
running = True
while running:
with self.lock:
run_time = self.get_run_time()
if not self.running:
self.topics['events'].publish(Event('finished', run_time))
break
elif self.paused:
continue
running = False
# checks if any nodes still running
for node in nodes:
running = node.run(run_time) or running
self.run_condition.release()
def run(self, start_time, nodes):
# Create nodes
nodes = [Node.createNode(node, self, start_time) for node in nodes]
# Stop running first if performance is running
size = len(nodes)
if size > 0:
self.stop()
with self.lock:
if size > 0:
self.running = True
self.start_time = start_time
self.start_timestamp = time.time()
logger.info("Put nodes {} to queue".format(nodes))
self.queue.put(nodes)
return True
else:
return False
def convert_children(node):
converted_children = [convert_node(child) for child in node.children]
result = Node()
result.children = converted_children
return result
def build_position_graph(games, victory_node, all_nodes=None):
'''
Creates a graph of nodes and movements.
:param games:
:param victory_node:
:param all_nodes:
:return:
'''
first_movement = Movement.ALL_MOVEMENTS[0]
Nod.ALLNODES = all_nodes
new_node = None
g = games.itervalues().next()
fen = g.fen[0]
score = g.fen_eval[0]
res = g.result
if fen in Nod.ALLNODES:
root = Nod.ALLNODES[fen]
# root.add_result(res)
else:
root = victory_node.init(g.fen[0], res, g.fen_eval[0])
root.results = []
game_length = len(g.fen)
if len(Movement.ALL_MOVEMENTS) > game_length:
Movement.init_last(game_length,g.fen[game_length-2], Movement.ALL_MOVEMENTS[game_length-1])
# print "%d games"%len(games)
for g in games.values()[:]:
# print "G>>>> %s: %d :: %s"%(g.name, len(g.fen),"")
res = g.result
fen = g.fen[0]
if fen != "rnbqkbnr/pppppppp/......../......../......../......../PPPPPPPP/RNBQKBNR":
# print "error: %s <> %d <> %s"%(g.name, len(g.fen), fen)
print "err"
else:
root.add_result(res)
root.add_movement(0)
first_movement.add_node(fen)
first_movement.add_result(res)
for i in range(1, len(g.fen)):
fen = g.fen[i]
b_node = Nod.ALLNODES[g.fen[i - 1]]
if fen not in Nod.ALLNODES:
score = g.fen_eval[i]
new_node = Nod.init_back_node(fen, res, b_node.name, score)
else:
new_node = Nod.ALLNODES[fen]
new_node.add_result(res)
b_node.add_node(b_node.forward_nodes, new_node.name)
new_node.add_node(new_node.back_nodes,b_node.name)
new_node.add_movement(i)
movement = Movement.ALL_MOVEMENTS[i]
movement.add_node(new_node.name)
movement.add_result(res)
new_node.add_node(new_node.forward_nodes, victory_node.name)
victory_node.add_node(victory_node.back_nodes, new_node.name)
victory_node.add_result(res)
victory_node.add_movement(i)
# root.test_added_nodes()
root.save_all_nodes()
first_movement.save_all_movements()
return [root,first_movement]
def AddNode(self, address=""):
newNode = Node(self)
newNode.address = address
self.mainScene.addItem(newNode)
self.mainScene.addItem(Edge(newNode, self.centerNode))
newNode.setPos(random.randint(-100, 100),random.randint(-100, 100))
relative one like '../examples_cbnets/tempo.dot'
Returns
-------
Graph
"""
nx_graph = nx.read_dot(path)
return cls.new_from_nx_graph(nx_graph)
from nodes.Node import *
if __name__ == "__main__":
p1 = Node(0, "p1")
p2 = Node(1, "p2")
center = Node(2, "center")
c1 = Node(3, "c1")
c2 = Node(4, "c2")
g = Graph({p1})
g.add_nodes({p2, center, c1, c2})
assert(g.has_node(p1))
assert(g.contains({p1, center, c2}))
center.add_neighbor(p1)
center.add_neighbor(p2)
center.add_neighbor(c1)
center.add_neighbor(c2)
g.draw(algo_num=1)
def createMap1():
# Define nodes.
n0 = Node([0, 0])
# n1 = Node([0, 1])
n2 = Node([0, 2])
n3 = Node([0, 3])
n4 = Node([0, 4])
n5 = Node([1, 0])
# n6 = Node([1, 1])
n7 = Node([1, 2])
# n8 = Node([1, 3])
n9 = Node([1, 4])
n10 = Node([2, 0])
n11 = Node([2, 1])
n12 = Node([2, 2])
# n13 = Node([2, 3])
n14 = Node([2, 4])
n15 = Node([3, 0])
n16 = Node([3, 1])
n17 = Node([3, 2])
n18 = Node([3, 3])
n19 = Node([3, 4])
# Build map.
n0.add_neighbor(n5)
n5.add_neighbor(n0)
n5.add_neighbor(n10)
n10.add_neighbor(n5)
n10.add_neighbor(n11)
n10.add_neighbor(n15)
n15.add_neighbor(n10)
n15.add_neighbor(n16)
n11.add_neighbor(n10)
n11.add_neighbor(n12)
n11.add_neighbor(n16)
n16.add_neighbor(n11)
n16.add_neighbor(n17)
n16.add_neighbor(n15)
n12.add_neighbor(n7)
n12.add_neighbor(n17)
n12.add_neighbor(n11)
n17.add_neighbor(n12)
n17.add_neighbor(n18)
n17.add_neighbor(n16)
n18.add_neighbor(n17)
n18.add_neighbor(n19)
n19.add_neighbor(n18)
n19.add_neighbor(n14)
n14.add_neighbor(n19)
n14.add_neighbor(n9)
n9.add_neighbor(n4)
n9.add_neighbor(n14)
n4.add_neighbor(n9)
n4.add_neighbor(n3)
n3.add_neighbor(n4)
n3.add_neighbor(n2)
n2.add_neighbor(n3)
n2.add_neighbor(n7)
n7.add_neighbor(n2)
n7.add_neighbor(n12)
return [n0, n2, n3, n4, n5, n7, n9, n10, n11, n12, n14, n15, n16, n17, n18, n19]
def __init__(self,mod,name): Node.__init__(self,mod.site,name,mod)
def CreateContactNodes(self, contactList):
"""
@param contactList - list - all email addresses
"""
#initially here the nodes should be created based on the contacts list of the user
#use the contact data and create nodes
node1 = Node(self)
node2 = Node(self)
node3 = Node(self)
node4 = Node(self)
self.centerNode = UserNode(self)
node6 = Node(self)
node7 = Node(self)
node8 = Node(self)
node9 = Node(self)
self.mainScene.addItem(node1)
self.mainScene.addItem(node2)
self.mainScene.addItem(node3)
self.mainScene.addItem(node4)
self.mainScene.addItem(self.centerNode)
self.mainScene.addItem(node6)
self.mainScene.addItem(node7)
self.mainScene.addItem(node8)
self.mainScene.addItem(node9)
self.mainScene.addItem(Edge(node1, node2))
self.mainScene.addItem(Edge(node2, node3))
self.mainScene.addItem(Edge(node2, self.centerNode))
self.mainScene.addItem(Edge(node3, node6))
self.mainScene.addItem(Edge(node4, node1))
self.mainScene.addItem(Edge(node4, self.centerNode))
self.mainScene.addItem(Edge(self.centerNode, node6))
self.mainScene.addItem(Edge(self.centerNode, node8))
self.mainScene.addItem(Edge(node6, node9))
self.mainScene.addItem(Edge(node7, node4))
self.mainScene.addItem(Edge(node8, node7))
self.mainScene.addItem(Edge(node9, node8))
node1.setPos(-50, -50)
node2.setPos(0, -50)
node3.setPos(50, -50)
node4.setPos(-50, 0)
self.centerNode.setPos(0, 0)
node6.setPos(50, 0)
node7.setPos(-50, 50)
node8.setPos(0, 50)
node9.setPos(50, 50)
#create nodes by number of contacts
i=0
for c in contactList["contacts"]:
#print c
if i < 10:
self.AddNode(c)
i += 1
