def _add_filename(self, frame, index, name, mode, option):
if option:
self.function[-1] = lambda v: [option, v]
else:
self.function[-1] = lambda v: [v]
self.variables[-1] = StringVar()
var = self.variables[-1]
def set_name():
if mode == "r":
fn = tkFileDialog.askopenfilename(initialdir=".")
else:
fn = tkFileDialog.asksaveasfilename(initialdir=".")
var.set(fn)
label = Label(frame, text=name)
label.grid(row=index, column=0, sticky="W", padx=10)
field_button = Frame(frame)
Grid.columnconfigure(field_button, 0, weight=1)
field = Entry(field_button, textvariable=var)
field.grid(row=0, column=0, sticky="WE")
button = Button(field_button,
text="...",
command=set_name,
width=1,
padding=0)
button.grid(row=0, column=1)
field_button.grid(row=index, column=1, sticky="WE")
def __init__(self, parent, consoleWidth = DEFAULT_CONSOLE_WIDTH, consoleHeight = DEFAULT_CONSOLE_HEIGHT):
'''
Creates and returns a new console object.
_Parameters_
parent (required) - The parent widget object under which this console is to be created.
consoleWidth (optional) - The width in characters to display the console (default = 100).
consoleHeight (optional) - The height in lines to display the console (default = 20).
_Return_
ConsoleFrame Object
'''
Frame.__init__(self, parent)
self.parent = parent
#Member widget creation
self.Console = Text(self.parent)
self._XScroll = Scrollbar(self.parent)
self._YScroll = Scrollbar(self.parent)
#Widget configuration
self.Console.config(xscrollcommand = self._XScroll.set,
yscrollcommand = self._YScroll.set,
width = consoleWidth,
height = consoleHeight,
bg = "black",
fg = "green",
selectbackground = "green",
selectforeground = "black",
wrap = "none",
state = "disabled")
self._XScroll.config(command = self.Console.xview,
orient = "horizontal")
self._YScroll.config(command = self.Console.yview,
orient = "vertical")
#Geometry control
Grid.rowconfigure(self.parent, 0, weight=1)
Grid.columnconfigure(self.parent, 0, weight=1)
self.Console.grid(row = 0, column = 0,
sticky = "n"+"s"+"e"+"w")
self._YScroll.grid(row = 0, column = 1,
sticky = "n"+"s"+"e"+"w")
self._XScroll.grid(row = 1, column = 0,
sticky = "n"+"s"+"e"+"w")
return
def initUI(self):
self.parent.title("Biicode serial monitor %s" % self.port)
self.style = Style() # We need to define a style, otherwhise seems flat whit in macos
self.style.theme_use(get_style())
for x in range(1):
Grid.columnconfigure(self, x, weight=1)
for y in [1, 2]:
Grid.rowconfigure(self, y, weight=1)
self._make_top_bar()
self._make_user_input()
self._make_rcv_log()
self._make_button_bar()
self.pack(fill=BOTH, expand=1)
self.serial_buffer = ""
self.count = 0
self.running = True
self.after(50, self.read_serial) # check serial again soon
def initUI(self):
self.parent.title("Biicode serial monitor %s" % self.port)
self.style = Style(
) # We need to define a style, otherwhise seems flat whit in macos
self.style.theme_use(get_style())
for x in range(1):
Grid.columnconfigure(self, x, weight=1)
for y in [1, 2]:
Grid.rowconfigure(self, y, weight=1)
self._make_top_bar()
self._make_user_input()
self._make_rcv_log()
self._make_button_bar()
self.pack(fill=BOTH, expand=1)
self.serial_buffer = ""
self.count = 0
self.running = True
self.after(50, self.read_serial) # check serial again soon
def starting(self):
""" Creates the board's rows and columns. """
# create pieces
self.set_starting_pieces()
square_style = {'borderwidth': 0, 'width': 5, 'height': 2}
# create responsive board as 8x8 grid
for row in xrange(8):
row_squares = []
Grid.rowconfigure(self.root, row, weight=1)
for col in xrange(8):
Grid.columnconfigure(self.root, col, weight=1)
if (row + col) % 2 == 0:
square_color = 'white'
else:
square_color = 'grey'
square_btn = SquareBtn(parent=self.root,
row=row,
col=col,
bg=square_color,
**square_style)
square_btn.grid(row=row, column=col, sticky='nsew')
square_piece = self.get_piece(row, col)
if square_piece:
square_btn.config(image=square_piece.icon)
square_btn.image = square_piece.icon
square_btn.config(
command=lambda x=(row, col): self.button_command(x))
row_squares.append(square_btn)
self.squares.append(row_squares)
def initUI(self, parser) :
# TODO required arguments
# TODO repeated arguments (e.g. filenames)
self.parent.title(self.progname)
self.pack(fill=BOTH, expand=1)
self.centerWindow()
Grid.rowconfigure(self,1,weight=1)
Grid.columnconfigure(self,0,weight=1)
inputFrame = Frame(self)
inputFrame.grid(row=0, column=0, sticky='WE')
outputFrame = Frame(self)
outputFrame.grid(row=1, column=0, sticky='WENS')
self.outputText = ReadOnlyText(outputFrame)
self.outputText.pack(fill=BOTH, expand=1)
# Main controls frame
mainFrame = Frame(inputFrame)
mainFrame.pack(fill=BOTH, expand=1)
# Auto-resize column
Grid.columnconfigure(mainFrame,1,weight=1)
# Ok button
okButton = Button(inputFrame, text='Run', command=self.run, default='active')
okButton.pack(side=RIGHT, padx=5, pady=5)
# Cancel button
cancelButton = Button(inputFrame, text='Exit', command=self.quit)
cancelButton.pack(side=RIGHT)
# Add controls to mainframe for all options
for index, action in enumerate(parser._actions) :
action_type = type(action).__name__
if action_type == '_HelpAction' :
pass
else :
self.function.append(lambda v : [v])
self.variables.append(None)
if action.choices :
self._add_choice( mainFrame, index, action.dest, action.choices, action.default, action.option_strings[0] )
elif action_type == '_StoreTrueAction' :
self._add_check( mainFrame, index, action.dest, False, action.option_strings[0] )
elif action_type == '_CountAction' :
self._add_count( mainFrame, index, action.dest, 0, action.option_strings[0] )
elif action.type and action.type.__name__ == 'inputfile' :
self._add_filename( mainFrame, index, action.dest, 'r', action.option_strings )
elif action.type and action.type.__name__ == 'outputfile' :
self._add_filename( mainFrame, index, action.dest, 'w', action.option_strings )
else :
self._add_field( mainFrame, index, action.dest )
comPortEntry.insert(0, port_no)
if not comPortEntry.get():
comPortEntry.configure(fg='red')
comPortEntry.insert(0, 'NONE')
goButton = Button(root,
bd=4,
font=('times', 12, 'bold'),
text="CONNECT",
bg='greenyellow',
command=ConnectIoTAdapter)
goButton.grid(row=12, column=17, rowspan=2, columnspan=1, sticky=W + E + N + S)
Button(root, state=DISABLED, text=COPYRIGHT_STR).grid(row=14,
column=0,
rowspan=1,
columnspan=18,
sticky=W + E + N + S)
# Fill elements in the whole frame
for x in range(18):
Grid.columnconfigure(root, x, weight=1)
for y in range(16):
Grid.rowconfigure(root, y, weight=1)
# Update Title, install Close event handlers and Launch the GUI.
root.title(WINDOW_TITLE)
root.protocol('WM_DELETE_WINDOW', ExitDashboard)
root.mainloop()
sys.exit(0)
from Tkinter import Tk, Listbox, Entry, END, mainloop, Grid, N, S, E, W, StringVar
LEAVE_ITEM = '..'
BOOKMARK_URL = 'bookmarks://'
BOOKMARK_FILE = expanduser('~/.benthos_bookmarks')
REVEAL_IN_FINDER = """
tell application "Finder"
reveal POSIX file "%s"
activate
end tell
"""
root = Tk()
root.geometry("800x500")
Grid.columnconfigure(root, 0, weight=1)
Grid.columnconfigure(root, 1, weight=1)
Grid.rowconfigure(root, 0, weight=1)
left_panel = Listbox(root, exportselection=0)
right_panel = Listbox(root, exportselection=0)
command_string = StringVar(root)
command_line = Entry(root, textvariable=command_string)
left_panel.grid(row=0, column=0, sticky=N+S+E+W)
right_panel.grid(row=0, column=1, sticky=N+S+E+W)
command_line.grid(row=1, column=0, columnspan=2, sticky=N+S+E+W)
def path_components(path):
components = []
def consensusHarness(cSize,depth):
print("^"*100)
a = ArtificialPhylogeny(size=cSize,numChromosomes=5)
evRates = []
while len( a.tree.getTips() ) < depth:
# evRate = rn.uniform(0.2,0.75)
evRate = 0.3
evRates.append(evRate)
a.evolve(evolutionRate=evRate)
print("Finished generating phylogeny. Score is {}. Rates were {}".format( a.tree.getScore(), evRates ))
u = UPGMA( [t.genome for t in a.tree.getTips()])
u.calculate()
root = Tk()
d1 = TreeDrawer(root)
d1.draw(a.tree,row=0,col=0)
d2 = TreeDrawer(root, leafs=d1.leafs)
d2.draw(u.tree,row=0,col=1)
tree = u.tree
uRF = fastRFDist(tree.toTuple(), a.tree.toTuple())
print("Finished upgma. Score is {}. RF distance is {}".format( tree.getScore(), uRF))
uRF = fastRFDist(a.tree.toTuple(), tree.toTuple())
uScore = tree.getScore()
oldScore = tree.getScore()
newScore = 0
counter = 0
n = NNI( tree )
nniTreeDrawers = []
while abs(newScore - oldScore) >= 1 and counter < 5:
counter += 1
n.calculate(deepScoring=True)
oldScore = newScore
newScore = sum([t.getScore() for t in n.trees])
nRFs = [fastRFDist(t.toTuple(), a.tree.toTuple()) for t in n.trees]
print("Running NNI. Current scores are {}. Current RF distances are {}".format([t.getScore() for t in n.trees], nRFs))
nniTreeDrawers = []
for i,tr in enumerate(n.trees):
t= TreeDrawer(root,leafs=d1.leafs)
t.draw(tr,row=1,col=i)
nRFs = [fastRFDist(t.toTuple(), a.tree.toTuple()) for t in n.trees]
print("Finished NNI. Scores are {}. RF distances are {}".format([t.getScore() for t in n.trees], nRFs))
c = ConsensusTree(n.trees)
c.calculate()
cRF = fastRFDist(tree.toTuple(), a.tree.toTuple())
print("Finished consensus. Score is {}. RF distance is {}".format( tree.getScore(), cRF))
tree = Tree( c.conTree )
t1= TreeDrawer(root,leafs=d1.leafs)
t1.draw(tree,row=2,col=0)
c.calculateNewGenomes()
cRF = fastRFDist(c.conTree.toTuple(), a.tree.toTuple())
print("Recalculated Genomes in consensusTree. Score is {}. RF distance is {}".format( tree.getScore(), cRF))
t2= TreeDrawer(root,leafs=d1.leafs)
t2.draw(c.conTree,row=2,col=1)
for x in (0,1,2):
Grid.columnconfigure(root,x,weight=1)
for y in (0,1,2):
Grid.rowconfigure(root,y,weight=1)
root.mainloop()
nScore = tree.getScore()
