"Fossies" - the Fresh Open Source Software Archive  

Source code changes of the file "modules/pmg_tk/skins/normal/__init__.py" between
pymol-v1.8.6.0.tar.bz2 and pymol-v2.1.0.tar.bz2

About: PyMOL is a Python-enhanced molecular graphics tool. It excels at 3D visualization of proteins, small molecules, density, surfaces, and trajectories. It also includes molecular editing, ray tracing, and movies. Open Source version.

__init__.py  (pymol-v1.8.6.0.tar.bz2)	:	__init__.py  (pymol-v2.1.0.tar.bz2)
from __future__ import print_function		from __future__ import print_function
		DEBUG = False
import sys		import sys
import re		import re
import threading		import threading
import os		import os
import time		import time
if sys.version_info[0] == 2:		if sys.version_info[0] == 2:
from Tkinter import *		from Tkinter import *
import tkFileDialog		import tkFileDialog
import tkMessageBox		import tkMessageBox
import tkFont		import tkFont
		_next_method_name = 'next'
else:		else:
from tkinter import *		from tkinter import *
import tkinter.filedialog as tkFileDialog		import tkinter.filedialog as tkFileDialog
import tkinter.messagebox as tkMessageBox		import tkinter.messagebox as tkMessageBox
import tkinter.font as tkFont		import tkinter.font as tkFont
		_next_method_name = '__next__'
import Pmw		import Pmw
from pymol.wizard import cleanup		from pymol.wizard import cleanup
from pmg_tk.Setting import Setting		from pmg_tk.Setting import Setting
from pmg_tk.SetEditor import SetEditor		from pmg_tk.SetEditor import SetEditor
from pmg_tk.ColorEditor import ColorEditor		from pmg_tk.ColorEditor import ColorEditor
from pmg_tk.skins import PMGSkin		from pmg_tk.skins import PMGSkin
from .builder import Builder		from .builder import Builder
		import pymol._gui
import traceback		import traceback
root = None		root = None
def encode(s):		def encode(s):
'''If `s` is unicode, attempt to encode it. On faiure, return the		'''If `s` is unicode, attempt to encode it. On faiure, return the
unicode input.		unicode input.
Our C file I/O implementations can't handle unicode. For some file		Our C file I/O implementations can't handle unicode. For some file
types we support reading the file in Python (supports unicode) and		types we support reading the file in Python (supports unicode) and
skipping to change at line 109		skipping to change at line 115
def _doAsync(self_cmd,cmmd,dirty=0):		def _doAsync(self_cmd,cmmd,dirty=0):
self_cmd.do(cmmd) # force strict ordering of commands		self_cmd.do(cmmd) # force strict ordering of commands
if dirty:		if dirty:
self_cmd.dirty()		self_cmd.dirty()
def _def_ext(ext): # platform-specific default extension handling		def _def_ext(ext): # platform-specific default extension handling
if sys.platform != 'win32':		if sys.platform != 'win32':
ext = None # default extensions don't work right under X11/Tcl/Tk		ext = None # default extensions don't work right under X11/Tcl/Tk
return ext		return ext
## class askfileopenfilter(askopenfilename):		class Normal(PMGSkin, pymol._gui.PyMOLDesktopGUI):
## """
## Subclasses open file dialog to include filename filtering
## """
## def __init__(self, initialdir = initdir, filetypes=ftypes, multiple=1):
## super(askfileopen, self).__init__( initialdir, filetypes, multiple=mu
ltiple)
class Normal(PMGSkin):
pad = ' ' # extra space in menus		pad = ' ' # extra space in menus
appname = 'The PyMOL Molecular Graphics System'		appname = 'The PyMOL Molecular Graphics System'
appversion = '0.0.0.0' # will be set in __init__		appversion = '0.0.0.0' # will be set in __init__
copyright = ('Copyright (C) 2003-%d\n' % (time.localtime().tm_year,) +		copyright = ('Copyright (C) 2003-%d\n' % (time.localtime().tm_year,) +
'Schrodinger LLC.\n'+		'Schrodinger LLC.\n'+
'All rights reserved.')		'All rights reserved.')
contactweb = 'http://www.pymol.org'		contactweb = 'http://www.pymol.org'
contactemail = 'sales@schrodinger.com'		contactemail = 'sales@schrodinger.com'
skipping to change at line 144		skipping to change at line 143
font.configure(size=size * sign)		font.configure(size=size * sign)
def inc_fontsize(self, delta=1):		def inc_fontsize(self, delta=1):
for name in tkFont.names():		for name in tkFont.names():
self._inc_fontsize(delta, tkFont.nametofont(name))		self._inc_fontsize(delta, tkFont.nametofont(name))
def inc_fontsize_dialog(self):		def inc_fontsize_dialog(self):
dialog = Toplevel(self.root)		dialog = Toplevel(self.root)
grid = dialog		grid = dialog
kw = {'row': 0, 'sticky': 'w', 'padx': 5, 'pady': 5}		kw = {'row': 0, 'sticky': 'w', 'padx': 5, 'pady': 5}
col = iter(range(5)).next		col = getattr(iter(range(5)), _next_method_name)
Button(grid, text=' - ', command=lambda: self.inc_fontsize(-1)).grid(col umn=col(), **kw)		Button(grid, text=' - ', command=lambda: self.inc_fontsize(-1)).grid(col umn=col(), **kw)
Button(grid, text=' + ', command=lambda: self.inc_fontsize( 1)).grid(col umn=col(), **kw)		Button(grid, text=' + ', command=lambda: self.inc_fontsize( 1)).grid(col umn=col(), **kw)
Label(grid, text='All GUI Font Sizes').grid(column=col(), **kw)		Label(grid, text='All GUI Font Sizes').grid(column=col(), **kw)
kw['row'] = 1		kw['row'] = 1
col = iter(range(5)).next		col = getattr(iter(range(5)), _next_method_name)
Button(grid, text=' - ', command=lambda: self._inc_fontsize(-1, self.fix edfont)).grid(column=col(), **kw)		Button(grid, text=' - ', command=lambda: self._inc_fontsize(-1, self.fix edfont)).grid(column=col(), **kw)
Button(grid, text=' + ', command=lambda: self._inc_fontsize( 1, self.fix edfont)).grid(column=col(), **kw)		Button(grid, text=' + ', command=lambda: self._inc_fontsize( 1, self.fix edfont)).grid(column=col(), **kw)
Label(grid, text='Output Font Size').grid(column=col(), **kw)		Label(grid, text='Output Font Size').grid(column=col(), **kw)
dialog.title('GUI Font Size')		dialog.title('GUI Font Size')
@property		@property
def initialdir(self):		def initialdir(self):
'''		'''
Be in sync with cd/pwd on the console until the first file has been		Be in sync with cd/pwd on the console until the first file has been
browsed, then remember the last directory.		browsed, then remember the last directory.
skipping to change at line 172		skipping to change at line 171
@initialdir.setter		@initialdir.setter
def initialdir(self, value):		def initialdir(self, value):
self._initialdir = value		self._initialdir = value
def cd_dialog(self):		def cd_dialog(self):
self.cmd.cd(encode(tkFileDialog.askdirectory(		self.cmd.cd(encode(tkFileDialog.askdirectory(
title="Change Working Directory",		title="Change Working Directory",
initialdir=self.initialdir)) or '.', quiet=0)		initialdir=self.initialdir)) or '.', quiet=0)
def complete(self,event):
st = self.cmd._parser.complete(self.command.get())
if st:
self.command.set(st)
self.entry.icursor(len(st))
return 'break'
def createDataArea(self):		def createDataArea(self):
# Create data area where data entry widgets are placed.		# Create data area where data entry widgets are placed.
self.dataArea = self.app.createcomponent('dataarea',		self.dataArea = self.app.createcomponent('dataarea',
(), None,		(), None,
Frame, (self.app._hull,),		Frame, (self.app._hull,),
relief=SUNKEN,		relief=SUNKEN,
bd=1)		bd=1)
self.dataArea.pack(side=LEFT, fill=BOTH, expand=YES,		self.dataArea.pack(side=LEFT, fill=BOTH, expand=YES,
padx=1, pady=1)		padx=1, pady=1)
skipping to change at line 351		skipping to change at line 343
window.geometry('+%d+%d' % (x - 20, y - 20))		window.geometry('+%d+%d' % (x - 20, y - 20))
def destroyButtonArea(self):		def destroyButtonArea(self):
self.app.destroycomponent('row1')		self.app.destroycomponent('row1')
self.app.destroycomponent('row2')		self.app.destroycomponent('row2')
self.app.destroycomponent('row3')		self.app.destroycomponent('row3')
self.app.destroycomponent('row4')		self.app.destroycomponent('row4')
self.buttonArea.destroy()		self.buttonArea.destroy()
def my_show(self,win,center=1):		def my_show(self,win,center=1):
if sys.platform!='linux2':		win.show()
win.show()
else: # autocenter, deiconify, and run mainloop
# this is a workaround for a bug in the
# interaction between Tcl/Tk and common Linux
# window managers (namely KDE/Gnome) which causes
# an annoying 1-2 second delay in opening windows!
if center:
tw = win.winfo_reqwidth()+100
th = win.winfo_reqheight()+100
vw = win.winfo_vrootwidth()
vh = win.winfo_vrootheight()
x = max(0,(vw-tw)/2)
y = max(0,(vh-th)/2)
win.geometry(newGeometry="+%d+%d"%(x,y))
win.deiconify()
# win.show()
def my_withdraw(self,win):		def my_withdraw(self,win):
if sys.platform!='linux2':		if sys.platform!='linux2':
win.withdraw()		win.withdraw()
else:		else:
win.destroy()		win.destroy()
def my_activate(self,win,center=1,focus=None):		def my_activate(self,win,center=1,focus=None):
if sys.platform!='linux2':		if sys.platform!='linux2':
win.activate()		win.activate()
skipping to change at line 402		skipping to change at line 378
if focus!=None:		if focus!=None:
focus.focus_set()		focus.focus_set()
win.mainloop()		win.mainloop()
def my_deactivate(self,win):		def my_deactivate(self,win):
if sys.platform!='linux2':		if sys.platform!='linux2':
win.deactivate()		win.deactivate()
else: # autocenter, deiconify, and run mainloop		else: # autocenter, deiconify, and run mainloop
win.destroy()		win.destroy()
def back_search(self, set0=False):
if not self.history_cur or set0:
self.history[0] = self.command.get()
for i in range(self.history_cur + 1, len(self.history)):
if self.history[i].startswith(self.history[0]):
self.history_cur = i
self.command.set(self.history[self.history_cur])
l = len(self.history[self.history_cur])
self.entry.icursor(l)
break
def back(self):
if not self.history_cur:
self.history[0] = self.command.get()
self.history_cur = (self.history_cur + 1) & self.history_mask
self.command.set(self.history[self.history_cur])
l = len(self.history[self.history_cur])
self.entry.icursor(l)
def forward(self):
if not self.history_cur:
self.history[0] = self.command.get()
self.history_cur = max(0, self.history_cur - 1) & self.history_mask
self.command.set(self.history[self.history_cur])
l = len(self.history[self.history_cur])
self.entry.icursor(l)
def doAsync(self,cmmd):		def doAsync(self,cmmd):
t = threading.Thread(target=_doAsync,args=(self.cmd,cmmd))		t = threading.Thread(target=_doAsync,args=(self.cmd,cmmd))
t.setDaemon(1)		t.setDaemon(1)
t.start()		t.start()
def doTypedCommand(self,cmmd):		def command_get(self):
if self.history[1] != cmmd:		return self.command.get()
self.history[0]=cmmd
self.history.insert(0,'') # always leave blank at 0		def command_set(self, v):
self.history.pop(self.history_mask+1)		return self.command.set(v)
self.history_cur = 0
t = threading.Thread(target=_doAsync,args=(self.cmd,cmmd,1))		def command_set_cursor(self, i):
t.setDaemon(1)		self.entry.icursor(i)
t.start()
def dump(self,event):		def dump(self,event):
print(dir(event))		print(dir(event))
print(event.keysym, event.keycode)		print(event.keysym, event.keycode)
def createConsole(self):		def createConsole(self):
self.command = StringVar()		self.command = StringVar()
self.lineCount = 0		self.lineCount = 0
self.history_mask = 0xFF		self._setup_history()
self.history = [''] * (self.history_mask+1)
self.history_cur = 0
self.cmdFrame = Frame(self.dataArea)		self.cmdFrame = Frame(self.dataArea)
self.buildFrame = Builder(self.app, self.dataArea)		self.buildFrame = Builder(self.app, self.dataArea)
self.toggleFrame(self.cmdFrame,startup=1)		self.toggleFrame(self.cmdFrame,startup=1)
self.entryFrame = Frame(self.cmdFrame)		self.entryFrame = Frame(self.cmdFrame)
self.entryFrame.pack(side=BOTTOM,expand=NO,fill=X)		self.entryFrame.pack(side=BOTTOM,expand=NO,fill=X)
self.entry_label = Label(self.entryFrame, text="PyMOL>", padx=1, pady=1, justify=RIGHT)		self.entry_label = Label(self.entryFrame, text="PyMOL>", padx=1, pady=1, justify=RIGHT)
self.entry_label.pack(side=LEFT,expand=NO,fill=X)		self.entry_label.pack(side=LEFT,expand=NO,fill=X)
skipping to change at line 658		skipping to change at line 604
filetypes=ftypes,		filetypes=ftypes,
multiple=1) # new option in Tk 8.4		multiple=1) # new option in Tk 8.4
else:		else:
ofile_list = [ askopenfilename(initialdir = initdir,		ofile_list = [ askopenfilename(initialdir = initdir,
filetypes=ftypes) ]		filetypes=ftypes) ]
for ofile in ofile_list:		for ofile in ofile_list:
if len(ofile):		if len(ofile):
if not tutorial:		if not tutorial:
self.initialdir = os.path.dirname(ofile)		self.initialdir = os.path.dirname(ofile)
if ofile[-4:].lower() == '.pse' and ofile != self.save_file:		try:
self.save_file = '' # remove ambiguous default		if ofile[-4:].lower() == '.pse' and ofile != self.save_file:
self.cmd.do('_ /cmd.load(%s, quiet=0)' % repr(ofile))		self.save_file = '' # remove ambiguous default
		self.cmd.do('_ /cmd.load(%s, quiet=0)' % repr(ofile))
		except self.pymol.CmdException:
		print("Error: unable to open file '%s'"%ofile)
def log_open(self):		def log_open(self):
sfile = asksaveasfilename(initialfile = self.log_file,		sfile = asksaveasfilename(initialfile = self.log_file,
initialdir = self.initialdir,		initialdir = self.initialdir,
filetypes=[		filetypes=[
("PyMOL Script","*.pml"),		("PyMOL Script","*.pml"),
("PyMOL Program","*.pym"),		("PyMOL Program","*.pym"),
("Python Program","*.py"),		("Python Program","*.py"),
("All Files","*.*"),		("All Files","*.*"),
("All Files","*"),		("All Files","*"),
skipping to change at line 1002		skipping to change at line 951
try:		try:
from freemol import mpeg_encode		from freemol import mpeg_encode
if not mpeg_encode.validate():		if not mpeg_encode.validate():
print("produce-error: Unable to validate freemol.mpeg_encode")		print("produce-error: Unable to validate freemol.mpeg_encode")
raise		raise
except:		except:
tkMessageBox.showerror("Error",		tkMessageBox.showerror("Error",
"MPEG encoder missing.\nThe FreeMOL add-ons may not be installed .")		"MPEG encoder missing.\nThe FreeMOL add-ons may not be installed .")
return		return
else:		def command(value):
		mQual = int(w_quality.get())
		mode = 'ray' if w_ray.get() else 'draw'
		viewport = int(w_viewport[0].get()), int(w_viewport[1].get())
		dialog.destroy()
		if value != 'OK':
		return
sfile = asksaveasfilename(defaultextension = _def_ext(".mpg"),		sfile = asksaveasfilename(defaultextension = _def_ext(".mpg"),
initialdir = self.initialdir,		initialdir = self.initialdir,
filetypes=[("MPEG movie file","*.mpg")])		filetypes=[("MPEG movie file","*.mpg")])
if len(sfile):		if len(sfile):
self.initialdir = os.path.dirname(sfile)		self.initialdir = os.path.dirname(sfile)
mQual = self.cmd.get_setting_int("movie_quality")		mQual = self.cmd.get_setting_int("movie_quality")
self.cmd.log("movie.produce %s,quality=%d,quiet=0\n"%(sfile,mQua l),		self.cmd.log("movie.produce %s,quality=%d,quiet=0\n"%(sfile,mQua l),
"cmd.movie.produce('''%s''',quality=%d,quiet=0)\n"% (sfile,mQual))		"cmd.movie.produce('''%s''',quality=%d,quiet=0)\n"% (sfile,mQual))
self.cmd.movie.produce(sfile,quality=mQual, quiet=0) #quality=q		self.cmd.movie.produce(sfile, mode, quality=mQual, quiet=0,
uality		width=viewport[0], height=viewport[1])
		dialog = Pmw.Dialog(title='Movie Settings', buttons=('OK', 'Cancel'),
		defaultbutton='OK', command=command)
		parent = dialog.interior()
		gridkw = {'padx': 5, 'pady': 5, 'sticky': W, 'row': 0}
		Label(parent, text='Encoding Quality (0-100)',).grid(column=0, **gridkw)
		w_quality = Pmw.Counter(parent,
		entryfield_value=self.cmd.get_setting_int("movie_quality"),
		entryfield_validate={'validator': 'integer', 'min': 0, 'max': 10
		0})
		w_quality.grid(column=1, **gridkw)
		gridkw['row'] += 1
		Label(parent, text='Ray Trace Frames').grid(column=0, **gridkw)
		w_ray = BooleanVar(parent, self.cmd.get_setting_boolean('ray_trace_frame
		s'))
		Checkbutton(parent, variable=w_ray).grid(column=1, **gridkw)
		w_viewport = []
		for text, value in zip(('Width', 'Height'), self.cmd.get_viewport()):
		gridkw['row'] += 1
		Label(parent, text=text + ' (pixels)').grid(column=0, **gridkw)
		w = Pmw.Counter(parent, entryfield_value=value, entryfield_validate=
		{'validator': 'integer', 'min': 0})
		w.grid(column=1, **gridkw)
		w_viewport.append(w)
def file_save_mpng(self):		def file_save_mpng(self):
sfile = asksaveasfilename(initialdir = self.initialdir,		sfile = asksaveasfilename(initialdir = self.initialdir,
filetypes=[("Numbered PNG Files","*.png")])		filetypes=[("Numbered PNG Files","*.png")])
if len(sfile):		if len(sfile):
self.initialdir = os.path.dirname(sfile)		self.initialdir = os.path.dirname(sfile)
self.cmd.log("mpng %s\n"%sfile,"cmd.mpng('%s')\n"%sfile)		self.cmd.log("mpng %s\n"%sfile,"cmd.mpng('%s')\n"%sfile)
self.cmd.mpng(sfile,modal=-1)		self.cmd.mpng(sfile,modal=-1)
def mvprg(self, command=None):
if command != None:
if command == -1:
self.cmd.do("_ mdelete -1,%d"%self.movie_start)
command = None
else:
command = str(command)
self.movie_start = (self.cmd.get_movie_length()+1)
command = command % self.movie_start
self.movie_command = command
self.cmd.do("_ ending")
else:
command = self.movie_command
if command != None:
self.cmd.do(command)
def mvprg_scene_loop(self, pause, rock, angle):
def func():
cmd = self.cmd
start = cmd.get_movie_length() + 1
cmd.ending()
cmd.set('sweep_angle', angle)
cmd.movie.add_scenes(None, pause, rock=rock, start=start)
return func
def transparency_menu(self,name,label,setting_name):
self.menuBar.addcascademenu('Transparency', name, label, label=label)
var = getattr(self.setting, setting_name)
for lab, val in [ ('Off', 0.0), ('20%', 0.2), ('40%', 0.4),
('50%', 0.5), ('60%', 0.6), ('80%', 0.8) ]:
self.menuBar.addmenuitem(name, 'radiobutton', label=lab, value=val,
variable=var)
def cat_terms(self):		def cat_terms(self):
for path in [ "$PYMOL_PATH/LICENSE.txt", "$PYMOL_PATH/LICENSE.TXT", "$PY MOL_PATH/LICENSE" ]:		for path in [ "$PYMOL_PATH/LICENSE.txt", "$PYMOL_PATH/LICENSE.TXT", "$PY MOL_PATH/LICENSE" ]:
path = self.pymol.cmd.exp_path(path)		path = self.pymol.cmd.exp_path(path)
if os.path.exists(path):		if os.path.exists(path):
print(open(path).read().strip())		print(open(path).read().strip())
return		return
print(" Error: no license terms found.")		print(" Error: no license terms found.")
def toggleClickThrough(self, toggle):		def toggleClickThrough(self, toggle):
if toggle:		if toggle:
skipping to change at line 1094		skipping to change at line 1042
print("Please restart X11.")		print("Please restart X11.")
def createMenuBar(self):		def createMenuBar(self):
self.menuBar = Pmw.MenuBar(self.root, balloon=self.balloon,		self.menuBar = Pmw.MenuBar(self.root, balloon=self.balloon,
hull_relief=RAISED, hull_borderwidth=1)		hull_relief=RAISED, hull_borderwidth=1)
self.menuBar.pack(fill=X)		self.menuBar.pack(fill=X)
addmenuitem = self.menuBar.addmenuitem		addmenuitem = self.menuBar.addmenuitem
addcascademenu = self.menuBar.addcascademenu		addcascademenu = self.menuBar.addcascademenu
# self.menuBar.addmenu('Tutorial', 'Tutorial', side='right')		self.setting = Setting(self.app)
# self.menuBar.addmenuitem('Tutorial', 'command', 'Open tutorial data fil
e.',
# label='Open File...',
# command=lambda s=self: s.file_open(tutorial=1))
# to come
# self.menuBar.addmenuitem('Tutorial', 'separator', '')
#
# self.menuBar.addmenuitem('Tutorial', 'command', 'Beginners',
# label='Beginners',
# command = lambda s=self: None)
self.menuBar.addmenu('Help', 'About %s' % self.appname, side='right')
try:
import webbrowser
browser_open = webbrowser.open
# workaround for problematic webbrowser module under Mac OS X
try:
if sys.platform == 'darwin':
browser_open = darwin_browser_open
except:
pass
self.menuBar.addmenuitem('Help', 'command', label='PyMOL Command Ref
erence',
command=lambda: browser_open('http://pymol.org/pymol-command
-ref.html'))
self.menuBar.addmenuitem('Help', 'separator', '')
self.menuBar.addmenuitem('Help', 'command',
'Access the Official PyMOL Documentation on
line',
label='Online Documentation',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc"))
self.menuBar.addcascademenu('Help', 'Topics', 'Topics',
label='Topics',tearoff=FALSE)
self.menuBar.addmenuitem('Topics', 'command',
'Introductory Screencasts',
label='Introductory Screencasts',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/media:intro"))
self.menuBar.addmenuitem('Topics', 'command',
'Core Commands',
label='Core Commands',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/command:core_set"))
self.menuBar.addmenuitem('Topics', 'separator', '')
self.menuBar.addmenuitem('Topics', 'command',
'Settings',
label='Settings',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/setting"))
self.menuBar.addmenuitem('Topics', 'command',
'Atom Selections',
label='Atom Selections',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/selection"))
self.menuBar.addmenuitem('Topics', 'command',
'Commands',
label='Commands',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/command"))
self.menuBar.addmenuitem('Topics', 'command',
'Launching',
label='Launching',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/launch"))
self.menuBar.addmenuitem('Topics', 'separator', '')
self.menuBar.addmenuitem('Topics', 'command',
'Concepts',
label='Concepts',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/concept"))
self.menuBar.addmenuitem('Topics', 'separator', '')
self.menuBar.addmenuitem('Topics', 'command',
'A.P.I. Methods',
label='A.P.I. Methods',
command = lambda bo=browser_open:bo("http:/
/pymol.org/dsc/id/api"))
self.menuBar.addmenuitem('Help', 'separator', '')
self.menuBar.addmenuitem('Help', 'command',
'Access the community-maintained PyMOL Wiki
',
label='PyMOL Community Wiki',
command = lambda bo=browser_open:bo("http:/
/www.pymolwiki.org"))
self.menuBar.addmenuitem('Help', 'command',
'Join or browse the pymol-users mailing lis
t',
label='PyMOL Mailing List',
command = lambda bo=browser_open:bo("https:
//lists.sourceforge.net/lists/listinfo/pymol-users"))
self.menuBar.addmenuitem('Help', 'command',
'Access the PyMOL Home Page',
label='PyMOL Home Page',
command = lambda bo=browser_open:bo("http:/
/www.pymol.org"))
self.menuBar.addmenuitem('Help', 'separator', '')
self.menuBar.addmenuitem('Help', 'command',
'Email PyMOL Help',
label='Email PyMOL Help',
command = lambda bo=browser_open:bo("mailto
:help@schrodinger.com?subject=PyMOL%20Question"))
self.menuBar.addmenuitem('Help', 'separator', '')
self.menuBar.addmenuitem('Help', 'command',
'Get information on application',
label='About PyMOL', command = lambda s=sel
f:s.show_about())
if self.pymol.cmd.splash(2):
self.menuBar.addmenuitem('Help', 'command',
'Sponsor PyMOL by becoming a Subscriber
',
label='Sponsorship Information',
command = lambda bo=browser_open:bo("ht
tp://pymol.org/funding.html"))
self.menuBar.addmenuitem('Help', 'command',
'Learn How to Cite PyMOL',
label='How to Cite PyMOL', command = lambda
bo=browser_open:bo("http://pymol.org/citing"))
#self.menuBar.addmenuitem('Help', 'separator', '')
#self.menuBar.addmenuitem('Help', 'command',
# 'Output License Terms',
# label='Output License Terms',
# command = lambda s=self:s.cat_terms())
except ImportError:		def _addmenu(data, parent):
pass		for item in data:
		if item[0] == 'separator':
		addmenuitem(parent, 'separator', '')
		elif item[0] == 'menu':
		label = item[1]
		menulabel = parent + '/' + label
		self.menuBar.addcascademenu(parent, menulabel,
		label, label=label, tearoff=FALSE)
		_addmenu(item[2], menulabel)
		elif item[0] == 'command':
		label = item[1]
		command = item[2]
		if command is None:
		if DEBUG:
		print('warning: skipping', label, parent)
		else:
		if isinstance(command, str):
		command = lambda c=command: self.cmd.do(c)
		addmenuitem(parent, 'command', label, label=label, comma
		nd=command)
		elif item[0] == 'check':
		label = item[1]
		var = getattr(self.setting, item[2])
		if len(item) > 4:
		addmenuitem(parent, 'checkbutton', label, label=label, v
		ariable=var, onvalue=item[3], offvalue=item[4])
		else:
		addmenuitem(parent, 'checkbutton', label, label=label, v
		ariable=var)
		elif item[0] == 'radio':
		label = item[1]
		var = getattr(self.setting, item[2])
		value = item[3]
		addmenuitem(parent, 'radiobutton', label=label, value=value,
		variable=var)
		elif DEBUG:
		print('error:', item)
		for _, label, data in self.get_menudata():
		assert _ == 'menu'
		self.menuBar.addmenu(label, label, tearoff=TRUE)
		_addmenu(data, label)
# self.menuBar.addmenuitem('Help', 'command', 'Release Notes',		# self.menuBar.addmenuitem('Help', 'command', 'Release Notes',
# label='Release Notes',		# label='Release Notes',
# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('release')"))		# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('release')"))
# self.menuBar.addmenuitem('Help', 'separator', '')		# self.menuBar.addmenuitem('Help', 'separator', '')
# self.menuBar.addmenuitem('Help', 'command', 'Help on Commands',		# self.menuBar.addmenuitem('Help', 'command', 'Help on Commands',
# label='Commands',		# label='Commands',
# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('commands')"))		# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('commands')"))
skipping to change at line 1285		skipping to change at line 1140
# self.menuBar.addmenuitem('Help', 'command', 'Help on Stereo',		# self.menuBar.addmenuitem('Help', 'command', 'Help on Stereo',
# label='Stereo',		# label='Stereo',
# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('stereo')"))		# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('stereo')"))
# self.menuBar.addmenuitem('Help', 'separator', '')		# self.menuBar.addmenuitem('Help', 'separator', '')
# self.menuBar.addmenuitem('Help', 'command', 'Help on the API',		# self.menuBar.addmenuitem('Help', 'command', 'Help on the API',
# label='API',		# label='API',
# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('api')"))		# command = lambda s=self: s.cmd.do("_ cmd.show_he lp('api')"))
self.toggleBalloonVar = IntVar()		# self.toggleBalloonVar = IntVar()
self.toggleBalloonVar.set(0)		# self.toggleBalloonVar.set(0)
self.setting = Setting(self.app)
# self.menuBar.addmenuitem('Help', 'separator', '')		# self.menuBar.addmenuitem('Help', 'separator', '')
# self.menuBar.addmenuitem('Help', 'checkbutton',		# self.menuBar.addmenuitem('Help', 'checkbutton',
# 'Toggle balloon help',		# 'Toggle balloon help',
# label='Balloon help',		# label='Balloon help',
# variable = self.toggleBalloonVar,		# variable = self.toggleBalloonVar,
# command=self.toggleBalloon)		# command=self.toggleBalloon)
self.menuBar.addmenu('File', 'File Input',tearoff=TRUE)		if sys.platform == 'win32' and self.app.pymol.invocation.options.incenti
		ve_product:
self.menuBar.addmenuitem('File', 'command', 'Open structure file.',		self.menuBar.addmenuitem('Edit', 'separator', '')
label='Open...',
command=self.file_open)
self.menuBar.addmenuitem('File', 'command', 'Save session.',
label='Save Session',
command=self.session_save)
self.menuBar.addmenuitem('File', 'command', 'Save session.',
label='Save Session As...',
command=self.session_save_as)
self.menuBar.addmenuitem('File', 'command', 'Save structure file.',
label='Save Molecule...',
command=self.file_save)
# self.menuBar.addmenuitem('File', 'command', 'Open sequential files.',
# label='Open Sequence...',
# command=self.file_open)
self.menuBar.addcascademenu('File', 'SaveImageAs', 'Save Image As',
label='Save Image As',tearoff=FALSE
)
self.menuBar.addmenuitem('SaveImageAs', 'command', 'Save current image a
s PNG Image.',
label='PNG...',
command=self.file_save_png)
self.menuBar.addmenuitem('SaveImageAs', 'separator', '')
self.menuBar.addmenuitem('SaveImageAs', 'command', 'Save current image a
s VRML.',
label='VRML 2...',
command=self.file_save_wrl)
self.menuBar.addmenuitem('SaveImageAs', 'command', 'Save current image a
s COLLADA.',
label='COLLADA...',
command=self.file_save_dae)
self.menuBar.addmenuitem('SaveImageAs', 'command', 'Save current image a
s PovRay input.',
label='POV-Ray...',
command=self.file_save_pov)
self.menuBar.addcascademenu('File', 'SaveMovieAs', 'Save Movie As',
label='Save Movie As',tearoff=FALSE)
self.menuBar.addmenuitem('SaveMovieAs', 'command', 'Save all frames as a
n MPEG movie.',
label='MPEG...',
command=self.file_save_mpeg)
self.menuBar.addmenuitem('SaveMovieAs', 'separator', '')
self.menuBar.addmenuitem('SaveMovieAs', 'command', 'Save all frames as i
mages.',
label='PNG Images...',
command=self.file_save_mpng)
self.menuBar.addmenuitem('File', 'separator', '')
addcascademenu('File', 'Logging', label='Log File')
addmenuitem('Logging', 'command', label='Open...', command=self.log_open
)
addmenuitem('Logging', 'command', label='Resume...', command=self.log_re
sume)
addmenuitem('Logging', 'command', label='Append...', command=self.log_ap
pend)
addmenuitem('Logging', 'command', label='Close', command=self.cmd.log_cl
ose)
self.menuBar.addmenuitem('File', 'command', 'Run program or script.',
label='Run Script...',
command=self.file_run)
addcascademenu('File', 'WorkDir', label='Working Directory')
addmenuitem('WorkDir', 'command', label='Change...',
command=self.cd_dialog)
if sys.platform == 'darwin':
file_browser = lambda: self.cmd.system('open .')
elif sys.platform == 'win32':
file_browser = lambda: self.cmd.system('explorer .')
else:
file_browser = None
if file_browser:
addmenuitem('WorkDir', 'command', label='File Browser',
command=file_browser)
self.menuBar.addmenuitem('File', 'separator', '')
self.menuBar.addmenuitem('File', 'command', 'Edit pymolrc',
label='Edit pymolrc',
command=self.edit_pymolrc)
self.menuBar.addmenuitem('File', 'separator', '')
self.menuBar.addmenuitem('File', 'command', 'Quit PyMOL',
label='Quit',
command=self.confirm_quit)
addcascademenu('File', 'Reinit', label='Reinitialize')
addmenuitem('Reinit', 'command', label='Everything',
command=self.cmd.reinitialize)
addmenuitem('Reinit', 'command', label='Original Settings',
command=lambda: self.cmd.reinitialize('original_settings'))
addmenuitem('Reinit', 'command', label='Stored Settings',
command=lambda: self.cmd.reinitialize('settings'))
addmenuitem('Reinit', 'separator')
addmenuitem('Reinit', 'command', label='Store Current Settings',
command=lambda: self.cmd.reinitialize('store_defaults'))
self.menuBar.addmenu('Edit', 'Edit',tearoff=TRUE)
if sys.platform == 'win32':
if self.app.pymol.invocation.options.incentive_product:
self.menuBar.addmenuitem('Edit', 'command',		self.menuBar.addmenuitem('Edit', 'command',
'Copy Image',		'Copy Image',
label='Copy Image to Clipboard',		label='Copy Image to Clipboard',
command = lambda s=self:s.cmd.copy_image(qu iet=0))		command = lambda s=self:s.cmd.copy_image(qu iet=0))
self.menuBar.addmenuitem('Edit', 'separator', '')		self.menuBar.addmenuitem('Edit', 'checkbutton',
		'Auto-Copy Images',
self.menuBar.addmenuitem('Edit', 'command', 'Undo',		label='Auto-Copy Images',
label='Undo [Ctrl-Z]',		variable = self.setting.auto_copy_images,
command = lambda s=self: s.cmd.do("_ un		)
do"))
self.menuBar.addmenuitem('Edit', 'command', 'Redo',
label='Redo [Ctrl-Y]',
command = lambda s=self: s.cmd.do("_ re
do"))
self.menuBar.addmenuitem('Edit', 'separator', '')		self.menuBar.addmenuitem('Edit', 'separator', '')
self.menuBar.addmenuitem('Edit', 'command',		self.menuBar.addmenuitem('Edit', 'command',
'To Copy Text: Use Ctrl-C in TclTk GUI',		'To Copy Text: Use Ctrl-C in TclTk GUI',
label='To copy text use Ctrl-C in the TclTk GUI ',		label='To copy text use Ctrl-C in the TclTk GUI ',
state='disabled',		state='disabled',
command = None)		command = None)
self.menuBar.addmenuitem('Edit', 'command',		self.menuBar.addmenuitem('Edit', 'command',
'To Paste Text, Use Ctrl-V in TclTk GUI',		'To Paste Text, Use Ctrl-V in TclTk GUI',
label='To paste text use Ctrl-V in the TckTk GU I',		label='To paste text use Ctrl-V in the TckTk GU I',
state='disabled',		state='disabled',
command = None)		command = None)
if sys.platform == 'win32':
if self.app.pymol.invocation.options.incentive_product:
self.menuBar.addmenuitem('Edit', 'separator', '')
self.menuBar.addmenuitem('Edit', 'checkbutton',
'Auto-Copy Images',
label='Auto-Copy Images',
variable = self.setting.auto_copy_images,
)
self.menuBar.addmenu('Build', 'Build',tearoff=TRUE)
self.menuBar.addcascademenu('Build', 'Fragment', 'Fragment',
label='Fragment',tearoff=TRUE)
# self.menuBar.addmenu('Fragment', 'Fragment')
self.menuBar.addmenuitem('Fragment', 'command', 'Acetylene',
label='Acetylene [Alt-J]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','acetylene',2,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Amide N->C',
label='Amide N->C [Alt-1]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','formamide',3,1)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Amide C->N',
label='Amide C->N [Alt-2]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','formamide',5,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Bromine',
label='Bromine [Ctrl-Shift-B]',
command = lambda s=self: s.cmd.do("_ re
place Br,1,1"))
self.menuBar.addmenuitem('Fragment', 'command', 'Carbon',
label='Carbon [Ctrl-Shift-C]',
command = lambda s=self: s.cmd.do("_ re
place C,4,4"))
self.menuBar.addmenuitem('Fragment', 'command', 'Carbonyl',
label='Carbonyl [Alt-0]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','formaldehyde',2,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Chlorine',
label='Chlorine [Ctrl-Shift-L]',
command = lambda s=self: s.cmd.do("_ re
place Cl,1,1"))
self.menuBar.addmenuitem('Fragment', 'command', 'Cyclobutyl',
label='Cyclobutyl [Alt-4]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','cyclobutane',4,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Cyclopentyl',
label='Cyclopentyl [Alt-5]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','cyclopentane',5,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Cyclopentadiene',
label='Cyclopentadiene [Alt-8]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','cyclopentadiene',5,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Cyclohexyl',
label='Cyclohexyl [Alt-6]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','cyclohexane',7,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Cycloheptyl',
label='Cycloheptyl [Alt-7]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','cycloheptane',8,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Fluorine',
label='Fluorine [Ctrl-Shift-F]',
command = lambda s=self: s.cmd.do("_ re
place F,1,1"))
self.menuBar.addmenuitem('Fragment', 'command', 'Iodine',
label='Iodine [Ctrl-Shift-I]',
command = lambda s=self: s.cmd.do("_ re
place I,1,1"))
self.menuBar.addmenuitem('Fragment', 'command', 'Methane',
label='Methane [Ctrl-Shift-M]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','methane',1,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Nitrogen',
label='Nitrogen [Ctrl-Shift-N]',
command = lambda s=self: s.cmd.do("_ re
place N,4,3"))
self.menuBar.addmenuitem('Fragment', 'command', 'Oxygen',
label='Oxygen [Ctrl-Shift-O]',
command = lambda s=self: s.cmd.do("_ re
place O,4,2"))
self.menuBar.addmenuitem('Fragment', 'command', 'Phenyl',
label='Phenyl [Alt-9]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','benzene',6,0)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Sulfer',
label='Sulfer [Ctrl-Shift-S]',
command = lambda s=self: s.cmd.do("_ re
place S,2,2"))
self.menuBar.addmenuitem('Fragment', 'command', 'Sulfonyl',
label='Sulfonyl [Alt-3]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_fragment('pk1','sulfone',3,1)"))
self.menuBar.addmenuitem('Fragment', 'command', 'Phosphorus',
label='Phosphorus [Ctrl-Shift-P]',
command = lambda s=self: s.cmd.do("_ re
place P,4,3"))
# self.menuBar.addmenu('Residue', 'Residue')
self.menuBar.addcascademenu('Build', 'Residue', 'Residue',
label='Residue',tearoff=TRUE)
self.menuBar.addmenuitem('Residue', 'command', 'Acetyl',
label='Acetyl [Alt-B]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','ace')"))
self.menuBar.addmenuitem('Residue', 'command', 'Alanine',
label='Alanine [Alt-A]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','ala')"))
self.menuBar.addmenuitem('Residue', 'command', 'Amine',
label='Amine',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','nhh')"))
self.menuBar.addmenuitem('Residue', 'command', 'Aspartate',
label='Aspartate [Alt-D]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','asp')"))
self.menuBar.addmenuitem('Residue', 'command', 'Asparagine',
label='Asparagine [Alt-N]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','asn')"))
self.menuBar.addmenuitem('Residue', 'command', 'Arginine',
label='Arginine [Alt-R]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','arg')"))
self.menuBar.addmenuitem('Residue', 'command', 'Cysteine',
label='Cysteine [Alt-C]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','cys')"))
self.menuBar.addmenuitem('Residue', 'command', 'Glutamate',
label='Glutamate [Alt-E]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','glu')"))
self.menuBar.addmenuitem('Residue', 'command', 'Glutamine',
label='Glutamine [Alt-Q]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','gln')"))
self.menuBar.addmenuitem('Residue', 'command', 'Glycine',
label='Glycine [Alt-G]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','gly')"))
self.menuBar.addmenuitem('Residue', 'command', 'Histidine',
label='Histidine [Alt-H]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','his')"))
self.menuBar.addmenuitem('Residue', 'command', 'Isoleucine',
label='Isoleucine [Alt-I]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','ile')"))
self.menuBar.addmenuitem('Residue', 'command', 'Leucine',
label='Leucine [Alt-L]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','leu')"))
self.menuBar.addmenuitem('Residue', 'command', 'Lysine',
label='Lysine [Alt-K]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','lys')"))
self.menuBar.addmenuitem('Residue', 'command', 'Methionine',
label='Methionine [Alt-M]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','met')"))
self.menuBar.addmenuitem('Residue', 'command', 'N-Methyl',
label='N-Methyl [Alt-Z]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','nme')"))
self.menuBar.addmenuitem('Residue', 'command', 'Phenylalanine',
label='Phenylalanine [Alt-F]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','phe')"))
self.menuBar.addmenuitem('Residue', 'command', 'Proline',
label='Proline [Alt-P]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','pro')"))
self.menuBar.addmenuitem('Residue', 'command', 'Serine',
label='Serine [Alt-S]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','ser')"))
self.menuBar.addmenuitem('Residue', 'command', 'Threonine',
label='Threonine [Alt-T]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','thr')"))
self.menuBar.addmenuitem('Residue', 'command', 'Tryptophan',
label='Tryptophan [Alt-W]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','trp')"))
self.menuBar.addmenuitem('Residue', 'command', 'Tyrosine',
label='Tyrosine [Alt-Y]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','tyr')"))
self.menuBar.addmenuitem('Residue', 'command', 'Valine',
label='Valine [Alt-V]',
command = lambda s=self: s.cmd.do(
"_ editor.attach_amino_acid('pk1','val')"))
self.menuBar.addmenuitem('Residue', 'separator', '')
var = self.setting.secondary_structure
for lab, val in [
('Helix', 1),
('Antiparallel Beta Sheet', 2),
('Parallel Beta Sheet', 3),
]:
addmenuitem('Residue', 'radiobutton', label=lab, value=val, variable
=var)
self.menuBar.addmenuitem('Build', 'separator', '')
self.menuBar.addcascademenu('Build', 'Sculpting', 'Sculpting',
label='Sculpting',tearoff=TRUE)
self.menuBar.addmenuitem('Sculpting', 'checkbutton',
'Auto-Sculpt.',
label='Auto-Sculpting',
variable = self.setting.auto_sculpt,
)
self.menuBar.addmenuitem('Sculpting', 'checkbutton',
'Sculpting.',
label='Sculpting',
variable = self.setting.sculpting,
)
self.menuBar.addmenuitem('Sculpting', 'separator', '')
self.menuBar.addmenuitem('Sculpting', 'command', 'Activate',
label='Activate',
command = lambda s=self: s.cmd.do("_ sc
ulpt_activate all"))
self.menuBar.addmenuitem('Sculpting', 'command', 'Deactivate',
label='Deactivate',
command = lambda s=self: s.cmd.do("_ sc
ulpt_deactivate all"))
self.menuBar.addmenuitem('Sculpting', 'command', 'Clear Memory',
label='Clear Memory',
command = lambda s=self: s.cmd.do("_ sc
ulpt_purge"))
self.menuBar.addmenuitem('Sculpting', 'separator', '')
addmenuitem('Sculpting', 'radiobutton', label='1 Cycle per Update', valu
e=1,
variable=self.setting.sculpting_cycles)
for val in [3, 10, 33, 100, 333, 1000]:
addmenuitem('Sculpting', 'radiobutton', label='%d Cycles per Update'
% val, value=val,
variable=self.setting.sculpting_cycles)
self.menuBar.addmenuitem('Sculpting', 'separator', '')
#define cSculptBond 0x01
#define cSculptAngl 0x02
#define cSculptPyra 0x04
#define cSculptPlan 0x08
#define cSculptLine 0x10
#define cSculptVDW 0x20
#define cSculptVDW14 0x40
#define cSculptTors 0x80
var = self.setting.sculpt_field_mask
for lab, val in [
('Bonds Only', 0x01),
('Bonds & Angles Only', 0x01+0x02),
('Local Geometry Only', 0x01+0x02+0x04+0x08+0x10),
('All Except VDW', 0x01+0x02+0x04+0x08+0x10+0x80),
('All Except 1-4 VDW & Torsions', 0x01+0x02+0x04+0x08+0x10+0x20)
,
('All Terms', 0xFF),
]:
addmenuitem('Sculpting', 'radiobutton', label=lab, value=val, variab
le=var)
self.menuBar.addmenuitem('Build', 'separator', '')
self.menuBar.addmenuitem('Build', 'command', 'Cycle Bond Valence',
label='Cycle Bond Valence [Ctrl-Shift-W
]',
command = lambda s=self: s.cmd.do("_ cy
cle_valence"))
self.menuBar.addmenuitem('Build', 'command', 'Fill Hydrogens',
label='Fill Hydrogens on (pk1) [Ctrl-Sh
ift-R]',
command = lambda s=self: s.cmd.do("_ h_
fill"))
self.menuBar.addmenuitem('Build', 'command', 'Invert',
label='Invert (pk2)-(pk1)-(pk3) [Ctrl-S
hift-E]',
command = lambda s=self: s.cmd.do("_ in
vert"))
self.menuBar.addmenuitem('Build', 'command', 'Form Bond',
label='Create Bond (pk1)-(pk2) [Ctrl-Sh
ift-T]',
command = lambda s=self: s.cmd.do("_ bo
nd"))
self.menuBar.addmenuitem('Build', 'separator', '')
self.menuBar.addmenuitem('Build', 'command', 'Remove (pk1)',
label='Remove (pk1) [Ctrl-Shift-D]',
command = lambda s=self: s.cmd.do("_ re
move pk1"))
self.menuBar.addmenuitem('Build', 'separator', '')
self.menuBar.addmenuitem('Build', 'command', 'Make Positive',
label='Make (pk1) Positive [Ctrl-Shift-K]',
command = lambda s=self: s.cmd.do("_ alter pk1,
formal_charge=1.0"))
self.menuBar.addmenuitem('Build', 'command', 'Make Negative',
label='Make (pk1) Negative [Ctrl-Shift-J]',
command = lambda s=self: s.cmd.do("_ alter pk1,
formal_charge=-1.0"))
self.menuBar.addmenuitem('Build', 'command', 'Make Neutral',
label='Make (pk1) Neutral [Ctrl-Shift-U]',
command = lambda s=self: s.cmd.do("_ alter pk1,
formal_charge=-0.0"))
self.menuBar.addmenu('Movie', 'Movie Control',tearoff=TRUE)
self.menuBar.addcascademenu('Movie', 'Append', 'Append',
label='Append')
self.menuBar.addmenuitem('Append', 'command', '0.25 second',label='0.25
second',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(0.25)"))
self.menuBar.addmenuitem('Append', 'command', '0.5 second',label='0.5 se
cond',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(0.5)"))
self.menuBar.addmenuitem('Append', 'command', '1 second',label='1 second
',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(1.0)"))
self.menuBar.addmenuitem('Append', 'command', '2 seconds',label='2 secon
ds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(2.0)"))
self.menuBar.addmenuitem('Append', 'command', '3 seconds',label='3 secon
ds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(3.0)"))
self.menuBar.addmenuitem('Append', 'command', '4 seconds',label='4 secon
ds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(4.0)"))
self.menuBar.addmenuitem('Append', 'command', '6 seconds',label='6 secon
ds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(6.0)"))
self.menuBar.addmenuitem('Append', 'command', '8 seconds',label='8 secon
ds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(8.0)"))
self.menuBar.addmenuitem('Append', 'command', '12 seconds',label='12 sec
onds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(12.0)"))
self.menuBar.addmenuitem('Append', 'command', '18 seconds',label='18 sec
onds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(18.0)"))
self.menuBar.addmenuitem('Append', 'command', '24 seconds',label='24 sec
onds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(24.0)"))
self.menuBar.addmenuitem('Append', 'command', '30 seconds',label='30 sec
onds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(30.0)"))
self.menuBar.addmenuitem('Append', 'command', '48 seconds',label='48 sec
onds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(48.0)"))
self.menuBar.addmenuitem('Append', 'command', '60 seconds',label='60 sec
onds',
command = lambda s=self: s.cmd.do("_ movie.add_
blank(60.0)"))
self.menuBar.addcascademenu('Movie', 'Program', 'Program',
label='Program')
self.menuBar.addmenuitem('Movie', 'command', 'Update Last Program',label
='Update Last Program',
command = lambda s=self: s.mvprg())
self.menuBar.addmenuitem('Movie', 'command', 'Remove Last Program',label
='Remove Last Program',
command = lambda s=self: s.mvprg(-1))
self.menuBar.addcascademenu('Program', 'Camera', 'Camera Loop',
label='Camera Loop')
self.menuBar.addcascademenu('Camera', 'Nutate', 'Nutate',
label='Nutate')
self.menuBar.addmenuitem('Camera', 'separator', '')
self.menuBar.addmenuitem('Nutate', 'command', '15 deg. over 4 sec.',labe
l='15 deg. over 4 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(4,15,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '15 deg. over 8 sec.',labe
l='15 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(8,15,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '15 deg. over 12 sec.',lab
el='15 deg. over 12 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(12,15,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'separator', '')
self.menuBar.addmenuitem('Nutate', 'command', '30 deg. over 4 sec.',labe
l='30 deg. over 4 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(4,30,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '30 deg. over 8 sec.',labe
l='30 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(8,30,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '30 deg. over 12 sec.',lab
el='30 deg. over 12 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(12,30,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '30 deg. over 16 sec.',lab
el='30 deg. over 16 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(16,30,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'separator', '')
self.menuBar.addmenuitem('Nutate', 'command', '60 deg. over 8 sec.',labe
l='60 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(8,60,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '60 deg. over 16 sec.',lab
el='60 deg. over 16 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(16,60,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '60 deg. over 24 sec.',lab
el='60 deg. over 24 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(24,60,start=%d)"))
self.menuBar.addmenuitem('Nutate', 'command', '60 deg. over 32 sec.',lab
el='60 deg. over 32 sec.',
command = lambda s=self: s.mvprg("_ movie.add_n
utate(32,60,start=%d)"))
self.menuBar.addcascademenu('Camera', 'X-Rock', 'X-Rock',
label='X-Rock')
self.menuBar.addmenuitem('X-Rock', 'command', '30 deg. over 2 sec.',labe
l='30 deg. over 2 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(2,30,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '30 deg. over 4 sec.',labe
l='30 deg. over 4 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(4,30,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '30 deg. over 8 sec.',labe
l='30 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(8,30,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'separator', '')
self.menuBar.addmenuitem('X-Rock', 'command', '60 deg. over 4 sec.',labe
l='60 deg. over 4 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(4,60,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '60 deg. over 8 sec.',labe
l='60 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(8,60,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '60 deg. over 16 sec.',lab
el='60 deg. over 16 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(16,60,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'separator', '')
self.menuBar.addmenuitem('X-Rock', 'command', '90 deg. over 6 sec.',labe
l='90 deg. over 6 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(6,90,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '90 deg. over 12 sec.',lab
el='90 deg. over 12 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(12,90,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '90 deg. over 24 sec.',lab
el='90 deg. over 24 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(24,90,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'separator', '')
self.menuBar.addmenuitem('X-Rock', 'command', '120 deg. over 8 sec.',lab
el='120 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(8,120,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '120 deg. over 16 sec.',la
bel='120 deg. over 16 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(16,120,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '120 deg. over 32 sec.',la
bel='120 deg. over 32 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(32,120,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'separator', '')
self.menuBar.addmenuitem('X-Rock', 'command', '180 deg. over 12 sec.',la
bel='180 deg. over 12 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(12,179.99,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '180 deg. over 24 sec.',la
bel='180 deg. over 24 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(24,179.99,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Rock', 'command', '180 deg. over 48 sec.',la
bel='180 deg. over 48 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(48,179.99,axis='x',start=%d)"))
self.menuBar.addcascademenu('Camera', 'X-Roll', 'X-Roll',
label='X-Roll')
self.menuBar.addmenuitem('X-Roll', 'command', '4 seconds',label='4 secon
ds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(4.0,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Roll', 'command', '8 seconds',label='8 secon
ds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(8.0,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Roll', 'command', '16 seconds',label='16 sec
onds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(16.0,axis='x',start=%d)"))
self.menuBar.addmenuitem('X-Roll', 'command', '32 seconds',label='32 sec
onds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(32.0,axis='x',start=%d)"))
self.menuBar.addmenuitem('Camera', 'separator', '')
self.menuBar.addcascademenu('Camera', 'Y-Rock', 'Y-Rock',
label='Y-Rock')
self.menuBar.addmenuitem('Y-Rock', 'command', '30 deg. over 2 sec.',labe
l='30 deg. over 2 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(2,30,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '30 deg. over 4 sec.',labe
l='30 deg. over 4 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(4,30,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '30 deg. over 8 sec.',labe
l='30 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(8,30,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'separator', '')
self.menuBar.addmenuitem('Y-Rock', 'command', '60 deg. over 4 sec.',labe
l='60 deg. over 4 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(4,60,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '60 deg. over 8 sec.',labe
l='60 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(8,60,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '60 deg. over 16 sec.',lab
el='60 deg. over 16 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(16,60,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'separator', '')
self.menuBar.addmenuitem('Y-Rock', 'command', '90 deg. over 6 sec.',labe
l='90 deg. over 6 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(6,90,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '90 deg. over 12 sec.',lab
el='90 deg. over 12 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(12,90,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '90 deg. over 24 sec.',lab
el='90 deg. over 24 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(24,90,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'separator', '')
self.menuBar.addmenuitem('Y-Rock', 'command', '120 deg. over 8 sec.',lab
el='120 deg. over 8 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(8,120,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '120 deg. over 16 sec.',la
bel='120 deg. over 16 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(16,120,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '120 deg. over 32 sec.',la
bel='120 deg. over 32 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(32,120,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'separator', '')
self.menuBar.addmenuitem('Y-Rock', 'command', '180 deg. over 12 sec.',la
bel='180 deg. over 12 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(12,179.99,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '180 deg. over 24 sec.',la
bel='180 deg. over 24 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(24,179.99,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Rock', 'command', '180 deg. over 48 sec.',la
bel='180 deg. over 48 sec.',
command = lambda s=self: s.mvprg("_ movie.add_r
ock(48,179.99,axis='y',start=%d)"))
self.menuBar.addcascademenu('Camera', 'Y-Roll', 'Y-Roll',
label='Y-Roll')
self.menuBar.addmenuitem('Y-Roll', 'command', '4 seconds',label='4 secon
ds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(4.0,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Roll', 'command', '8 seconds',label='8 secon
ds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(8.0,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Roll', 'command', '16 seconds',label='16 sec
onds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(16.0,axis='y',start=%d)"))
self.menuBar.addmenuitem('Y-Roll', 'command', '32 seconds',label='32 sec
onds',
command = lambda s=self: s.mvprg("_ movie.add_r
oll(32.0,axis='y',start=%d)"))
self.menuBar.addmenuitem('Program', 'separator', '')
self.menuBar.addcascademenu('Program', 'Scene Loop', 'Scene Loop',
label='Scene Loop')
for label, rock in [('Nutate', 4), ('X-Rock', 2), ('Y-Rock', 1)]:
mlabel = 'SL-' + label
self.menuBar.addcascademenu('Scene Loop', mlabel, label, label=label
)
for angle, seconds in ((30, (2,4,8)), (60, (4,8,16)), (90, (6,12,24)
), (120, (8,16,32))):
if angle != 30:
self.menuBar.addmenuitem(mlabel, 'separator', '')
for sec in seconds:
label = '%d deg. over %d sec.' % (angle, sec)
self.menuBar.addmenuitem(mlabel, 'command', label, label=lab
el,
command=self.mvprg_scene_loop(sec, rock, angle))
self.menuBar.addcascademenu('Scene Loop', 'No-Motion', 'Steady',
label='Steady')
self.menuBar.addmenuitem('No-Motion', 'command', '1 second each',label='
1 second each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,1.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('No-Motion', 'command', '2 seconds each',label=
'2 seconds each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,2.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('No-Motion', 'command', '4 seconds each',label=
'4 seconds each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,4.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('No-Motion', 'command', '8 seconds each',label=
'8 seconds each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,8.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('No-Motion', 'command', '12 seconds each',label
='12 seconds each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,12.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('No-Motion', 'command', '16 seconds each',label
='16 seconds each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,16.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('No-Motion', 'command', '24 seconds each',label
='24 seconds each',
command = lambda s=self: s.mvprg("_ movie.add_s
cenes(None,24.0,rock=0,start=%d)"))
self.menuBar.addmenuitem('Program', 'separator', '')
self.menuBar.addcascademenu('Program', 'StateLoop', 'State Loop',
label='State Loop')
self.menuBar.addcascademenu('Program', 'StateSweep', 'State Sweep',
label='State Sweep')
speed_list = [ 1, 2, 3, 4, 8, 16 ]
pause_list = [ 0, 1, 2, 4 ]
for speed in speed_list:
submenu1_id = 'StateLoop' + '%d'%speed
submenu2_id = 'StateSweep' + '%d'%speed
if speed==1:
submenu_title = "Full Speed"
else:
submenu_title = "1/%d Speed"%speed
self.menuBar.addcascademenu('StateLoop', submenu1_id, label=submenu_
title)
self.menuBar.addcascademenu('StateSweep', submenu2_id, label=submenu
_title)
for pause in pause_list:
if not pause:
item_name = "no pause"
else:
item_name = "%d second pause"%pause
self.menuBar.addmenuitem(submenu1_id, 'command', item_name,
label=item_name,
command = lambda
s=self, st="_ movie.%s(%d,%d"%
("add_state_loop", speed, pause):
s.mvprg(st+",start=%d)"))
self.menuBar.addmenuitem(submenu2_id, 'command', item_name,
label=item_name,
command = lambda
s=self, st="_ movie.%s(%d,%d"%
("add_state_sweep", speed, pause):
s.mvprg(st+",start=%d)"))
self.menuBar.addmenuitem('Movie', 'separator', '')
self.menuBar.addmenuitem('Movie', 'command', 'Reset',label='Reset',
command = lambda s=self: s.cmd.do("_ mset;rewin
d;"))
self.menuBar.addmenuitem('Movie', 'separator', '')
self.menuBar.addcascademenu('Movie', 'Frame Rate', 'Playback Frame Rate'
,
label='Frame Rate')
for val in [30, 15, 5, 1, 0.3]:
addmenuitem('Frame Rate', 'radiobutton', label=str(val) + ' FPS',
value=val, variable=self.setting.movie_fps)
self.menuBar.addmenuitem('Frame Rate', 'separator', '')
self.menuBar.addmenuitem('Frame Rate', 'checkbutton',
'Show Frame Frame.',
label='Show Frame Rate',
variable = self.setting.show_frame_rate,
)
self.menuBar.addmenuitem('Frame Rate', 'command', 'Reset Meter',
label='Reset Meter',
command = lambda s=self: s.cmd.do("_ me
ter_reset"))
self.menuBar.addmenuitem('Movie', 'separator', '')
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Auto Interpolate',
label='Auto Interpolate',
variable = self.setting.movie_auto_interpolate,
)
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Show Panel',
label='Show Panel',
variable = self.setting.movie_panel,
)
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Loop Frames',
label='Loop Frames',
variable = self.setting.movie_loop,
)
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Photorealistic images.',
label='Draw Frames',
variable = self.setting.draw_frames,
)
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Photorealistic images.',
label='Ray Trace Frames',
variable = self.setting.ray_trace_frames,
)
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Save images in memory.',
label='Cache Frame Images',
variable = self.setting.cache_frames,
)
self.menuBar.addmenuitem('Movie', 'command', 'Clear Image Cache',
label='Clear Image Cache',
command = lambda s=self: s.cmd.mclear()
)
self.menuBar.addmenuitem('Movie', 'separator', '')
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Static Singletons Objects',
label='Static Singletons',
variable = self.setting.static_singletons,
)
self.menuBar.addmenuitem('Movie', 'checkbutton',
'Superimpose all molecular states.',
label='Show All States',
variable = self.setting.all_states,
)
self.menuBar.addmenu('Display', 'Display Control',tearoff=TRUE)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Sequence',
label='Sequence',
variable = self.setting.seq_view,
)
self.menuBar.addcascademenu('Display', 'Sequence', 'Sequence Mode',
label='Sequence Mode')
var = self.setting.seq_view_format
for lab, val in [
('Residue Codes', 0),
('Residue Names', 1),
('Chain Identifiers', 3),
('Atom Names', 2),
('States', 4),
]:
addmenuitem('Sequence', 'radiobutton', label=lab, value=val, variabl
e=var)
self.menuBar.addmenuitem('Sequence', 'separator', '')
var = self.setting.seq_view_label_mode
for lab, val in [
('All Residue Numbers', 2),
('Top Sequence Only', 1),
('Object Names Only', 0),
('No Labels', 3),
]:
addmenuitem('Sequence', 'radiobutton', label=lab, value=val, variabl
e=var)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Stereo',
label='Stereo',
variable = self.setting.stereo,
)
# self.menuBar.addmenuitem('Display', 'command', 'Stereo On',
# label='Stereo On',
# command = lambda s=self: s.cmd.do("_ stereo on"))
# self.menuBar.addmenuitem('Display', 'command', 'Stereo Off',
# label='Stereo Off',
# command = lambda s=self: s.cmd.do("_ stereo off"
))
self.menuBar.addcascademenu('Display', 'Stereo', 'Stereo Mode',
label='Stereo Mode')
self.menuBar.addmenuitem('Stereo', 'command', 'Anaglyph Stereo',
label='Anaglyph Stereo',
command = lambda s=self: s.cmd.do("_ st
ereo anaglyph"))
self.menuBar.addmenuitem('Stereo', 'command', 'Cross-Eye Stereo',
label='Cross-Eye Stereo',
command = lambda s=self: s.cmd.do("_ st
ereo crosseye"))
self.menuBar.addmenuitem('Stereo', 'command', 'Wall-Eye Stereo',
label='Wall-Eye Stereo',
command = lambda s=self: s.cmd.do("_ st
ereo walleye"))
self.menuBar.addmenuitem('Stereo', 'command', 'Quad-Buffered Stereo',
label='Quad-Buffered Stereo',
command = lambda s=self: s.cmd.do("_ st
ereo quadbuffer"))
self.menuBar.addmenuitem('Stereo', 'command', 'Zalman Stereo',
label='Zalman Stereo',
command = lambda s=self: s.cmd.do("_ st
ereo byrow"))
self.menuBar.addmenuitem('Stereo', 'separator', '')
self.menuBar.addmenuitem('Stereo', 'command', 'Swap Sides',
label='Swap Sides',
command = lambda s=self: s.cmd.do("_ st
ereo swap"))
self.menuBar.addmenuitem('Display', 'separator', '')
self.menuBar.addcascademenu('Display', 'Zoom', 'Zoom',
label='Zoom')
self.menuBar.addmenuitem('Zoom', 'command', '4 Angstrom Sphere',
label='4 Angstrom Sphere',
command = lambda s=self: s.cmd.do("_ zo
om center,4,animate=-1"))
self.menuBar.addmenuitem('Zoom', 'command', '6 Angstrom Sphere',
label='6 Angstrom Sphere',
command = lambda s=self: s.cmd.do("_ zo
om center,6,animate=-1"))
self.menuBar.addmenuitem('Zoom', 'command', '8 Angstrom Sphere',
label='8 Angstrom Sphere',
command = lambda s=self: s.cmd.do("_ zo
om center,8,animate=-1"))
self.menuBar.addmenuitem('Zoom', 'command', '12 Angstrom Sphere',
label='12 Angstrom Sphere',
command = lambda s=self: s.cmd.do("_ zo
om center,12,animate=-1"))
self.menuBar.addmenuitem('Zoom', 'command', '20 Angstrom Sphere',
label='20 Angstrom Sphere',
command = lambda s=self: s.cmd.do("_ zo
om center,20,animate=-1"))
self.menuBar.addmenuitem('Zoom', 'command', 'All',
label='All',
command = lambda s=self: s.cmd.do("_ zo
om all,animate=-1"))
self.menuBar.addmenuitem('Zoom', 'command', 'Complete',
label='Complete',
command = lambda s=self: s.cmd.do("_ zo
om all,complete=1,animate=-1"))
self.menuBar.addcascademenu('Display', 'Clip', 'Clip',
label='Clip')
self.menuBar.addmenuitem('Clip', 'command', 'Nothing',
label='Nothing',
command = lambda s=self: s.cmd.do("_ cl
ip atoms,5,all"))
self.menuBar.addmenuitem('Clip', 'command', '8 Angstrom Slab',
label='8 Angstrom Slab',
command = lambda s=self: s.cmd.do("_ cl
ip slab,8"))
self.menuBar.addmenuitem('Clip', 'command', '12 Angstrom Slab',
label='12 Angstrom Slab',
command = lambda s=self: s.cmd.do("_ cl
ip slab,10"))
self.menuBar.addmenuitem('Clip', 'command', '16 Angstrom Slab',
label='16 Angstrom Slab',
command = lambda s=self: s.cmd.do("_ cl
ip slab,15"))
self.menuBar.addmenuitem('Clip', 'command', '20 Angstrom Slab',
label='20 Angstrom Slab',
command = lambda s=self: s.cmd.do("_ cl
ip slab,20"))
self.menuBar.addmenuitem('Clip', 'command', '30 Angstrom Slab',
label='30 Angstrom Slab',
command = lambda s=self: s.cmd.do("_ cl
ip slab,30"))
self.menuBar.addmenuitem('Display', 'separator', '')
self.menuBar.addcascademenu('Display', 'Background', 'Background',
label='Background')
self.menuBar.addmenuitem('Background', 'checkbutton',
'Opaque Background Color',
label='Opaque',
variable = self.setting.opaque_background,
)
self.menuBar.addmenuitem('Background', 'checkbutton',
'Show Alpha Checker',
label='Show Alpha Checker',
variable = self.setting.show_alpha_checker,
)
self.menuBar.addmenuitem('Background', 'separator', '')
var = self.setting.bg_rgb
for lab, val in [
('White', 0), # white
('Light Grey', 134), # grey80
('Grey', 104), # grey50
('Black', 1), # black
]:
addmenuitem('Background', 'radiobutton', label=lab, value=val, varia
ble=var)
self.menuBar.addcascademenu('Display', 'Color Space', 'Color Space',
label='Color Space')
self.menuBar.addmenuitem('Color Space', 'command', 'CMYK (for publicatio
ns)',
label='CMYK (for publications)',
command = lambda s=self: s.cmd.do("_ cm
d.space('cmyk')"))
self.menuBar.addmenuitem('Color Space', 'command', 'PyMOL (for video & w
eb)',
label='PyMOL (for video & web)',
command = lambda s=self: s.cmd.do("_ cm
d.space('pymol')"))
self.menuBar.addmenuitem('Color Space', 'command', 'RGB (default)',
label='RGB (default)',
command = lambda s=self: s.cmd.do("_ cm
d.space('rgb')"))
self.menuBar.addcascademenu('Display', 'Performance', 'Quality',
label='Quality')
self.menuBar.addmenuitem('Performance', 'command', 'Maximum Performance'
,
label='Maximum Performance',
command = lambda s=self: s.cmd.do("_ ut
il.performance(100)"))
self.menuBar.addmenuitem('Performance', 'command', 'Reasonable Performan
ce',
label='Reasonable Performance',
command = lambda s=self: s.cmd.do("_ ut
il.performance(66)"))
self.menuBar.addmenuitem('Performance', 'command', 'Reasonable Quality',
label='Reasonable Quality',
command = lambda s=self: s.cmd.do("_ ut
il.performance(33)"))
self.menuBar.addmenuitem('Performance', 'command', 'Maximum Quality',
label='Maximum Quality',
command = lambda s=self: s.cmd.do("_ ut
il.performance(0)"))
self.menuBar.addcascademenu('Display', 'Grid', 'Grid',
label='Grid')
var = self.setting.grid_mode
for lab, val in [
('By Object', 1),
('By State', 2),
('By Object-State', 3),
('Disable', 0),
]:
addmenuitem('Grid', 'radiobutton', label=lab, value=val, variable=va
r)
self.menuBar.addmenuitem('Display', 'separator', '')
self.menuBar.addmenuitem('Display', 'checkbutton',
'Disable perspective.',
label='Orthoscopic View',
variable = self.setting.orthoscopic)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Show Valences.',
label='Show Valences',
variable = self.setting.valence,
)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Smooth Lines.',
label='Smooth Lines',
variable = self.setting.line_smooth,
)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Depth Cue (Fogging).',
label='Depth Cue',
variable = self.setting.depth_cue,
)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Two Sided Lighting.',
label='Two Sided Lighting',
variable = self.setting.two_sided_lighting,
)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Specular Reflections.',
label='Specular Reflections',
variable = self.setting.specular,
onvalue=1.0, offvalue=0.0,
)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Animation',
label='Animation',
variable = self.setting.animation,
)
self.menuBar.addmenuitem('Display', 'checkbutton',
'Roving Detail',
label='Roving Detail',
variable = self.setting.roving_detail,
)
self.menuBar.addmenu('Setting', 'Settings and Configuration',tearoff=TRU
E)
self.menuBar.addmenuitem('Setting', 'command',
'Edit PyMOL Settings',
label='Edit All...',
command = lambda s=self: SetEditor(s))
self.menuBar.addmenuitem('Setting', 'command',
'Edit PyMOL Colors',
label='Colors...',
command = lambda s=self: ColorEditor(s)
)
addmenuitem('Setting', 'separator', '')
self.menuBar.addcascademenu('Setting', 'Label', 'Label',
label='Label')
self.menuBar.addcascademenu('Label', 'LabelSize', 'Size',
label='Size',tearoff=TRUE)
for i in [10., 14., 18., 24., 36., 48., 72.]:
addmenuitem('LabelSize', 'radiobutton', label='%.0f Point' % i,
value=i, variable=self.setting.label_size)
self.menuBar.addmenuitem('LabelSize', 'separator', '')
for i in [-.3, -.5, -1., -2., -4.]:
addmenuitem('LabelSize', 'radiobutton', label='%.1f Angstrom' % (-i)
,
value=i, variable=self.setting.label_size)
self.menuBar.addcascademenu('Label', 'LabelFont', 'Font',
label='Font', tearoff=TRUE)
for label, val in [
('Sans', 5),
('Sans Oblique', 6),
('Sans Bold', 7),
('Sans Bold Oblique', 8),
('Serif', 9),
('Serif Oblique',17),
('Serif Bold', 10),
('Serif Bold Oblique', 18),
('Mono', 11),
('Mono Oblique', 12),
('Mono Bold', 13),
('Mono Bold Oblique', 14),
('Gentium Roman', 15),
('Gentium Italic', 16),
]:
addmenuitem('LabelFont', 'radiobutton', label=label, value=val,
variable=self.setting.label_font_id)
self.menuBar.addcascademenu('Setting', 'Cartoon', 'Cartoon',
tearoff=TRUE,
label='Cartoon')
self.menuBar.addcascademenu('Cartoon', 'Rings', 'Rings & Bases',
label='Rings & Bases')
for label, val in [
('Filled Rings (Round Edges)', 1),
('Filled Rings (Flat Edges)', 2),
('Filled Rings (with Border)', 3),
('Spheres', 4),
('Base Ladders', 0),
]:
addmenuitem('Rings', 'radiobutton', label=label, value=val,
variable=self.setting.cartoon_ring_mode)
self.menuBar.addmenuitem('Rings', 'separator', '')
for label, val in [
('Bases & Sugars', 1),
('Bases Only', 2),
('Non-protein Rings', 3),
('All Rings', 4),
]:
addmenuitem('Rings', 'radiobutton', label=label, value=val,
variable=self.setting.cartoon_ring_finder)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Side Chain Helper',
label='Side Chain Helper',
variable = self.setting.cartoon_side_chain_helpe
r,
)
self.menuBar.addmenuitem('Rings', 'separator', '')
for label, val in [
('Transparent Rings', .5),
('Default', -1.),
]:
addmenuitem('Rings', 'radiobutton', label=label, value=val,
variable=self.setting.cartoon_ring_transparency)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Round Helices',
label='Round Helices',
variable = self.setting.cartoon_round_helices,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Fancy Helices',
label='Fancy Helices',
variable = self.setting.cartoon_fancy_helices,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Cylindrical Helices',
label='Cylindrical Helices',
variable = self.setting.cartoon_cylindrical_heli
ces,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Flat Sheets',
label='Flat Sheets',
variable = self.setting.cartoon_flat_sheets,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Fancy Sheets',
label='Fancy Sheets',
variable = self.setting.cartoon_fancy_sheets,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Smooth Loops',
label='Smooth Loops',
variable = self.setting.cartoon_smooth_loops,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Discrete Colors',
label='Discrete Colors',
variable = self.setting.cartoon_discrete_colors,
)
self.menuBar.addmenuitem('Cartoon', 'checkbutton',
'Highlight Color',
label='Highlight Color',
variable = self.setting.cartoon_highlight_color,
onvalue=104, offvalue=-1,
)
addcascademenu('Cartoon', 'CartoonSampling', label='Sampling')
addmenuitem('CartoonSampling', 'radiobutton', label="Atom count dependen
t",
value=-1, variable=self.setting.cartoon_sampling)
for i in [2, 7, 14]:
addmenuitem('CartoonSampling', 'radiobutton', label=str(i),
value=i, variable=self.setting.cartoon_sampling)
addcascademenu('Cartoon', 'CartoonGapCutoff', label='Gap Cutoff')
for i in [0, 5, 10, 20]:
addmenuitem('CartoonGapCutoff', 'radiobutton', label=str(i),
value=i, variable=self.setting.cartoon_gap_cutoff)
self.menuBar.addcascademenu('Setting', 'Ribbon', 'Ribbon',
label='Ribbon')
self.menuBar.addmenuitem('Ribbon', 'checkbutton',
'Side Chain Helper',
label='Side Chain Helper',
variable = self.setting.ribbon_side_chain_helper
,
)
self.menuBar.addmenuitem('Ribbon', 'checkbutton',
'Trace Atoms',
label='Trace Atoms',
variable = self.setting.ribbon_trace_atoms,
)
addmenuitem('Ribbon', 'separator')
addmenuitem('Ribbon', 'radiobutton', label='As Lines', value=0,
variable=self.setting.ribbon_as_cylinders)
addmenuitem('Ribbon', 'radiobutton', label='As Cylinders', value=1,
variable=self.setting.ribbon_as_cylinders)
addcascademenu('Ribbon', 'RibbonRadius', label='Cylinder Radius')
addmenuitem('RibbonRadius', 'radiobutton', label='Match Line Width',
value=0., variable=self.setting.ribbon_radius)
for val in [.2, .5, 1.]:
addmenuitem('RibbonRadius', 'radiobutton', label='%.1f Angstrom' % v
al,
value=val, variable=self.setting.ribbon_radius)
self.menuBar.addcascademenu('Setting', 'Surface', 'Surface',
label='Surface')
self.menuBar.addcascademenu('Surface', 'Surface Color', 'Color',
label='Color')
for label, val in [
('White', 0), # white
('Light Grey', 134), # grey80
('Grey', 24), # grey
('Default (Atomic)', -1),
]:
addmenuitem('Surface Color', 'radiobutton', label=label, value=val,
variable=self.setting.surface_color)
addmenuitem('Surface', 'separator', '')
for label, val in [
('Dot', 1),
('Wireframe', 2),
('Solid', 0),
]:
addmenuitem('Surface', 'radiobutton', label=label, value=val,
variable=self.setting.surface_type)
self.menuBar.addmenuitem('Surface', 'separator', '')
for label, val in [
('Exterior (Normal)', 0),
('Cavities & Pockets Only', 1),
('Cavities & Pockets (Culled)', 2),
]:
addmenuitem('Surface', 'radiobutton', label=label, value=val,
variable=self.setting.surface_cavity_mode)
self.menuBar.addcascademenu('Surface', 'Detection', 'Cavity Detection Ra
dius',
label='Cavity Detection Radius')
for val in [7]:
addmenuitem('Detection', 'radiobutton', label='%d Angstrom' % val, v
alue=float(val),
variable=self.setting.surface_cavity_radius)
for val in [3, 4, 5, 6, 8, 10, 20]:
addmenuitem('Detection', 'radiobutton', label='%d Solvent Radii' % v
al, value=val * -1.0,
variable=self.setting.surface_cavity_radius)
self.menuBar.addcascademenu('Surface', 'Cutoff', 'Cavity Detection Cutof
f',
label='Cavity Detection Cutoff')
for val in [1, 2, 3, 4, 5]:
addmenuitem('Cutoff', 'radiobutton', label='%d Solvent Radii' % val,
value=val * -1.0,
variable=self.setting.surface_cavity_cutoff)
self.menuBar.addmenuitem('Surface', 'separator', '')
self.menuBar.addmenuitem('Surface', 'checkbutton',
'Solvent Accessible',
label='Solvent Accessible',
variable = self.setting.surface_solvent,
)
addmenuitem('Surface', 'separator', '')
addmenuitem('Surface', 'checkbutton', label='Smooth Edges (Incentive-Onl
y)',
state='disabled',
variable=self.setting.surface_smooth_edges)
addmenuitem('Surface', 'checkbutton', label='Edge Proximity',
variable=self.setting.surface_proximity)
self.menuBar.addmenuitem('Surface', 'separator', '')
for label, val in [
('Ignore None', 1),
('Ignore HETATMs', 0),
('Ignore Hydrogens', 2),
('Ignore Unsurfaced', 3),
]:
addmenuitem('Surface', 'radiobutton', label=label, value=val,
variable=self.setting.surface_mode)
self.menuBar.addcascademenu('Setting', 'Volume', label='Volume')
self.menuBar.addmenuitem('Volume', 'checkbutton', label='Pre-integrated
Rendering (Incentive-Only)',
state='disabled',
variable = self.setting.volume_mode)
self.menuBar.addcascademenu('Volume', 'VolumeLayers', label='Number of L
ayers')
for i in (100., 256., 500., 1000.):
self.menuBar.addmenuitem('VolumeLayers', 'radiobutton', label='%.0f'
% i,
value=i, variable=self.setting.volume_layers)
self.menuBar.addcascademenu('Setting', 'Transparency', 'Transparency',
label='Transparency')
self.transparency_menu('CartoonTransparency','Cartoon','cartoon_transpar
ency')
self.transparency_menu('SurfaceTransparency','Surface','transparency')
self.transparency_menu('StickTransparency','Stick','stick_transparency')
self.transparency_menu('SphereTransparency','Sphere','sphere_transparenc
y')
self.menuBar.addmenuitem('Transparency', 'separator', '')
for label, val, command in [
('Uni-Layer', 2, '_ set backface_cull, 1; set two_sided_li
ghting, 0'),
('Multi-Layer', 1, '_ set backface_cull, 0; set two_sided_li
ghting, 1'),
('Multi-Layer (Real-time OIT)', 3, ''),
('Fast and Ugly', 0, '_ set backface_cull, 1; set two_sided_li
ghting, 0'),
]:
addmenuitem('Transparency', 'radiobutton', label=label,
state='disabled' if val == 3 else 'normal', # not available in O
pen-Source PyMOL
value=val, variable=self.setting.transparency_mode,
command = lambda c=command: self.cmd.do(c))
addmenuitem('Transparency', 'separator', '')
addmenuitem('Transparency', 'checkbutton', label='Angle-dependent',
variable = self.setting.ray_transparency_oblique,
onvalue=1.0, offvalue=0.0)
self.menuBar.addcascademenu('Setting', 'Rendering', 'Rendering',
label='Rendering')
addmenuitem('Rendering', 'checkbutton', label='OpenGL 2.0 Shaders',
variable = self.setting.use_shaders)
addmenuitem('Rendering', 'separator', '')
self.menuBar.addmenuitem('Rendering', 'checkbutton',
'Smooth raytracing.',
label='Antialias (Ray Tracing)',
variable = self.setting.antialias,
)
self.menuBar.addmenuitem('Rendering', 'command', 'Modernize',
label='Modernize',
command = lambda s=self: s.util.modernize_rende
ring(1,s.cmd))
self.menuBar.addmenuitem('Rendering', 'separator', '')
self.menuBar.addcascademenu('Rendering', 'Shadows', 'Shadows',
label='Shadows')
self.menuBar.addmenuitem('Shadows', 'command', 'None',
label='None',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('none')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Light',
label='Light',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('light')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Medium',
label='Medium',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('medium')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Heavy',
label='Heavy',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('heavy')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Black',
label='Black',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('black')"))
self.menuBar.addmenuitem('Shadows', 'separator', '')
self.menuBar.addmenuitem('Shadows', 'command', 'Matte',
label='Matte',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('matte')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Soft',
label='Soft',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('soft')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Occlusion',
label='Occlusion',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('occlusion')"))
self.menuBar.addmenuitem('Shadows', 'command', 'Occlusion 2',
label='Occlusion 2',
command = lambda s=self: s.cmd.do("_ ut
il.ray_shadows('occlusion2')"))
self.menuBar.addcascademenu('Rendering', 'Texture', 'Texture',
label='Texture')
for label, val in [
('None', 0),
('Matte 1', 1),
('Matte 2', 4),
('Swirl 1', 2),
('Swirl 2', 3),
('Fiber', 5),
]:
addmenuitem('Texture', 'radiobutton', label=label, value=val,
variable=self.setting.ray_texture)
self.menuBar.addcascademenu('Rendering', 'Interior Texture', 'Interior T
exture',
label='Interior Texture')
for label, val in [
('Default', -1),
('None', 0),
('Matte 1', 1),
('Matte 2', 4),
('Swirl 1', 2),
('Swirl 2', 3),
('Fiber', 5),
]:
addmenuitem('Interior Texture', 'radiobutton', label=label, value=va
l,
variable=self.setting.ray_interior_texture)
self.menuBar.addcascademenu('Rendering', 'Memory', 'Memory',
label='Memory')
for label, val in [
('Use Less (slower)', 70),
('Use Standard Amount', 100),
('Use More (faster)', 170),
('Use Even More', 230),
('Use Most', 300),
]:
addmenuitem('Memory', 'radiobutton', label=label, value=val,
variable=self.setting.hash_max)
self.menuBar.addmenuitem('Rendering', 'separator', '')
self.menuBar.addmenuitem('Rendering', 'checkbutton',
'Cull Backfaces when Rendering',
label='Cull Backfaces',
variable = self.setting.backface_cull,
)
self.menuBar.addmenuitem('Rendering', 'checkbutton',
'Opaque Interior Colors',
label='Opaque Interiors',
variable = self.setting.ray_interior_color,
onvalue=74, offvalue=-1,
)
self.menuBar.addmenuitem('Setting', 'separator', '')
self.menuBar.addmenuitem('Setting', 'command', label='GUI Font Size (Dia
log)',
command=self.inc_fontsize_dialog)
self.menuBar.addcascademenu('Setting', 'Control', 'Control Size',
label='Control Size')
for val in [12, 14, 16, 18, 20, 24, 30]:
addmenuitem('Control', 'radiobutton', label=str(val), value=val,
variable=self.setting.internal_gui_control_size)
self.menuBar.addmenuitem('Setting', 'separator', '')
addcascademenu('Setting', 'PDBLoading', label='PDB File Loading')
addmenuitem('PDBLoading', 'checkbutton',
'Ignore PDB segi.',
label='Ignore PDB Segment Identifier',
variable = self.setting.ignore_pdb_segi
,
)
addcascademenu('Setting', 'CIFLoading', label='mmCIF File Loading')
addmenuitem('CIFLoading', 'checkbutton', label='Use "auth" Identifiers',
variable = self.setting.cif_use_auth)
addmenuitem('CIFLoading', 'checkbutton', label='Load Assembly (Biologica
l Unit)',
variable = self.setting.assembly, onvalue="1", offvalue="")
addmenuitem('CIFLoading', 'checkbutton', label='Bonding by "Chemical Com
ponent Dictionary"',
variable = self.setting.connect_mode, onvalue=4)
addcascademenu('Setting', 'MapLoading', label='Map File Loading')
addmenuitem('MapLoading', 'checkbutton', label='Normalize CCP4 Maps',
variable = self.setting.normalize_ccp4_maps)
addmenuitem('MapLoading', 'checkbutton', label='Normalize O Maps',
variable = self.setting.normalize_o_maps)
addmenuitem('Setting', 'separator', '')
addcascademenu('Setting', 'AutoShow', label='Auto-Show ...', tearoff=TRU
E)
addmenuitem('AutoShow', 'checkbutton',
label='Cartoon/Sticks/Spheres by Classification',
variable=self.setting.auto_show_classified)
addmenuitem('AutoShow', 'separator', '')
addmenuitem('AutoShow', 'checkbutton', label='Auto-Show Lines', variable
=self.setting.auto_show_lines)
addmenuitem('AutoShow', 'checkbutton', label='Auto-Show Spheres', variab
le=self.setting.auto_show_spheres)
addmenuitem('AutoShow', 'checkbutton', label='Auto-Show Nonbonded', vari
able=self.setting.auto_show_nonbonded)
addmenuitem('AutoShow', 'separator', '')
addmenuitem('AutoShow', 'checkbutton',
'Auto-Show Selections.',
label='Auto-Show New Selections',
variable = self.setting.auto_show_selections,
)
addmenuitem('AutoShow', 'checkbutton',
'Auto-Hide Selections.',
label='Auto-Hide Selections',
variable = self.setting.auto_hide_selections,
)
self.menuBar.addmenuitem('Setting', 'checkbutton',
'Auto-Zoom.',
label='Auto-Zoom New Objects',
variable = self.setting.auto_zoom,
)
self.menuBar.addmenuitem('Setting', 'checkbutton',
'Auto-Remove Hydrogens.',
label='Auto-Remove Hydrogens',
variable = self.setting.auto_remove_hydrogens,
)
self.menuBar.addmenuitem('Setting', 'separator', '')
addmenuitem('Setting', 'checkbutton', label='Show Text / Hide Graphics [
Esc]',
variable = self.setting.text)
self.menuBar.addmenuitem('Setting', 'checkbutton',
'Overlay Text Output on Graphics',
label='Overlay Text',
variable = self.setting.overlay,
)
self.menuBar.addmenu('Scene', 'Scene Storage',tearoff=TRUE)
self.menuBar.addmenuitem('Scene', 'command', 'Next',
label='Next [PgDn]',
command = lambda s=self: s.cmd.scene('a
uto','next'))
self.menuBar.addmenuitem('Scene', 'command', 'Previous',
label='Previous [PgUp]',
command = lambda s=self: s.cmd.scene('a
uto','previous'))
self.menuBar.addmenuitem('Scene', 'separator', '')
self.menuBar.addmenuitem('Scene', 'command', 'Append',
label='Append',
command = lambda s=self: s.cmd.scene('n
ew','store'))
self.menuBar.addcascademenu('Scene', 'SceneAppend', label='Append...')
addmenuitem('SceneAppend', 'command', label='Camera',
command = lambda: self.cmd.scene('new', 'store', view=1, color=0, re
p=0))
addmenuitem('SceneAppend', 'command', label='Color',
command = lambda: self.cmd.scene('new', 'store', view=0, color=1, re
p=0))
addmenuitem('SceneAppend', 'command', label='Color & Camera',
command = lambda: self.cmd.scene('new', 'store', view=1, color=1, re
p=0))
addmenuitem('SceneAppend', 'command', label='Reps',
command = lambda: self.cmd.scene('new', 'store', view=0, color=0, re
p=1))
addmenuitem('SceneAppend', 'command', label='Reps & Color',
command = lambda: self.cmd.scene('new', 'store', view=0, color=1, re
p=1))
self.menuBar.addmenuitem('Scene', 'command', 'Insert Before',
label='Insert (before)',
command = lambda s=self: s.cmd.scene(''
,'insert_before'))
self.menuBar.addmenuitem('Scene', 'command', 'Insert After',
label='Insert (after)',
command = lambda s=self: s.cmd.scene(''
,'insert_after'))
self.menuBar.addmenuitem('Scene', 'command', 'Update',
label='Update',
command = lambda s=self: s.cmd.scene('a
uto','update'))
# self.menuBar.addmenuitem('Scene', 'command', 'Annotate',
# label='Append',
# command = lambda s=self: s.cmd.scene('new','stor
e'))
self.menuBar.addmenuitem('Scene', 'separator', '')
self.menuBar.addmenuitem('Scene', 'command', 'Delete',
label='Delete',
command = lambda s=self: s.cmd.scene('a
uto','clear'))
self.menuBar.addmenuitem('Scene', 'separator', '')
self.menuBar.addcascademenu('Scene', 'Recall', 'Recall',
label='Recall')
self.menuBar.addcascademenu('Scene', 'Store', 'Store',
label='Store')
# self.menuBar.addcascademenu('Store', 'StoreSHFT', 'StoreSHFT',
# label='Shift')
self.menuBar.addcascademenu('Scene', 'Clear', 'Clear',
label='Clear')
# self.menuBar.addcascademenu('Scene', 'SceneSHFT', 'SceneSHFT',
# label='Shift')
for x in range(1,13):
self.menuBar.addmenuitem('Store', 'checkbutton', 'F%d'%x,
label='F%d'%x,
variable = self.scene_F_keys[x - 1]
,
command = lambda x=x,s=self: s.cmd.
do("scene F%d,store"%x))
# self.menuBar.addmenuitem('ClearSHFT', 'checkbutton', 'SHFT-F%d'%x,
# label='SHFT-F%d'%x,
# variable = self.setting.SHFTF[x],
# command = lambda x=x,s=self: s.cmd.do("scene
SHFT-F%d,clear"%x))
self.menuBar.addmenuitem('Scene', 'separator', '')
self.menuBar.addmenuitem('Scene', 'checkbutton', 'Buttons',
label='Buttons',
variable = self.setting.scene_buttons,
)
self.menuBar.addcascademenu('Scene', 'Cache', 'Cache',
label='Cache')
self.menuBar.addmenuitem('Cache', 'command', 'Enable',
label='Enable',
command = lambda s=self:
s.cmd.do("_ cache enable"))
self.menuBar.addmenuitem('Cache', 'command', 'Optimize',
label='Optimize',
command = lambda s=self:
s.cmd.do("_ cache optimize"))
self.menuBar.addmenuitem('Cache', 'command', 'Read Only',
label='Read Only',
command = lambda s=self:
s.cmd.do("_ cache read_only"))
self.menuBar.addmenuitem('Cache', 'command', 'Disable',
label='Disable',
command = lambda s=self:
s.cmd.do("_ cache disable"))
self.menuBar.addmenu('Mouse', 'Mouse Configuration',tearoff=TRUE)
self.menuBar.addcascademenu('Mouse', 'SelectionMode', 'Selection Mode',
label='Selection Mode')
var = self.setting.mouse_selection_mode
for lab, val in [
('Atoms', 0),
('Residues', 1),
('Chains', 2),
('Segments', 3),
('Objects', 4),
('', -1),
('Molecules', 5),
('', -1),
('C-alphas', 6),
]:
if not lab:
addmenuitem('SelectionMode', 'separator', '')
else:
addmenuitem('SelectionMode', 'radiobutton', label=lab, value=val
, variable=var)
self.menuBar.addmenuitem('Mouse', 'separator', '')
self.menuBar.addmenuitem('Mouse', 'command', '3 Button Motions',
label='3 Button Motions',
command = lambda s=self: s.cmd.config_m
ouse('three_button_motions'))
self.menuBar.addmenuitem('Mouse', 'command', '3 Button Editing',
label='3 Button Editing',
command = lambda s=self: s.cmd.config_m
ouse('three_button_editing'))
self.menuBar.addmenuitem('Mouse', 'command', '3 Button Viewing',
label='3 Button Viewing',
command = lambda s=self: s.cmd.mouse('t
hree_button_viewing'))
self.menuBar.addmenuitem('Mouse', 'command', '3 Button Lights',
label='3 Button Lights',
command = lambda s=self: s.cmd.mouse('t
hree_button_lights'))
self.menuBar.addmenuitem('Mouse', 'command', '3 Button All Modes',
label='3 Button All Modes',
command = lambda s=self: s.cmd.config_m
ouse('three_button_all_modes'))
self.menuBar.addmenuitem('Mouse', 'command', '2 Button Editing',
label='2 Button Editing',
command = lambda s=self: s.cmd.config_m
ouse('two_button_editing'))
self.menuBar.addmenuitem('Mouse', 'command', '2 Button Viewing',
label='2 Button Viewing',
command = lambda s=self: s.cmd.config_m
ouse('two_button'))
self.menuBar.addmenuitem('Mouse', 'command', '1 Button Viewing Mode',
label='1 Button Viewing Mode',
command = lambda s=self: s.cmd.mouse('o
ne_button_viewing'))
self.menuBar.addmenuitem('Mouse', 'separator', '')
self.menuBar.addcascademenu('Mouse', 'Emulate', 'Emulate',
label='Emulate')
self.menuBar.addmenuitem('Emulate', 'command', 'Maestro',
label='Maestro',
command = lambda s=self: s.cmd.mouse('t
hree_button_maestro'))
self.menuBar.addmenuitem('Mouse', 'separator', '')
self.menuBar.addmenuitem('Mouse', 'checkbutton',
'Virtual Trackball.',
label='Virtual Trackball',
variable = self.setting.virtual_trackball,
)
self.menuBar.addmenuitem('Mouse', 'checkbutton',
'Show Mouse Grid.',
label='Show Mouse Grid',
variable = self.setting.mouse_grid,
)
self.menuBar.addmenuitem('Mouse', 'checkbutton',
'Roving Origin.',
label='Roving Origin',
variable = self.setting.roving_origin,
)
# self.menuBar.addmenuitem('Mouse', 'checkbutton',
# 'Roving Detail.',
# label='Roving Detail',
# variable = self.setting.roving_detail,
# )
if sys.platform == 'darwin':		if sys.platform == 'darwin':
self.menuBar.addmenuitem('Mouse', 'separator', '')		self.menuBar.addmenuitem('Mouse', 'separator', '')
self.menuBar.addcascademenu('Mouse', 'MacX11Focus', 'Mac OS X11',		self.menuBar.addcascademenu('Mouse', 'MacX11Focus', 'Mac OS X11',
label='Mac OS X11')		label='Mac OS X11')
self.menuBar.addmenuitem('MacX11Focus', 'command',		self.menuBar.addmenuitem('MacX11Focus', 'command',
'Enable Click Through',		'Enable Click Through',
label='Enable Click Through',		label='Enable Click Through',
command = lambda s=self:		command = lambda s=self:
s.toggleClickThrough(1))		s.toggleClickThrough(1))
self.menuBar.addmenuitem('MacX11Focus', 'command',		self.menuBar.addmenuitem('MacX11Focus', 'command',
'Disable Click Through',		'Disable Click Through',
label='Disable Click Through',		label='Disable Click Through',
command = lambda s=self:		command = lambda s=self:
s.toggleClickThrough(0))		s.toggleClickThrough(0))
self.menuBar.addmenu('Wizard', 'Task Wizards',tearoff=TRUE)
self.menuBar.addmenuitem('Wizard', 'command', 'Appearance',
label='Appearance',
command = lambda s=self: s.cmd.do("_ wi
zard appearance"))
self.menuBar.addmenuitem('Wizard', 'command', 'Measurement',
label='Measurement',
command = lambda s=self: s.cmd.do("_ wi
zard measurement"))
self.menuBar.addmenuitem('Wizard', 'command', 'Mutagenesis',
label='Mutagenesis',
command = lambda s=self: s.cmd.do("_ wi
zard mutagenesis"))
self.menuBar.addmenuitem('Wizard', 'command', 'Pair Fitting',
label='Pair Fitting',
command = lambda s=self: s.cmd.do("_ wi
zard pair_fit"))
self.menuBar.addmenuitem('Wizard', 'separator', '')
self.menuBar.addmenuitem('Wizard', 'command', 'Density Map Wizard',
label='Density',
command = lambda s=self: s.cmd.do("_ wi
zard density"))
self.menuBar.addmenuitem('Wizard', 'command', 'Filter',
label='Filter',
command = lambda s=self: s.cmd.do("_ wi
zard filter"))
self.menuBar.addmenuitem('Wizard', 'command', 'Sculpting',
label='Sculpting',
command = lambda s=self: s.cmd.do("_ wi
zard sculpting"))
if cleanup.auto_configure()>0:
self.menuBar.addmenuitem('Wizard', 'separator', '')
self.menuBar.addmenuitem('Wizard', 'command', 'Cleanup',
label='Cleanup',
command = lambda s=self: s.cmd.do("
_ wizard cleanup"))
self.menuBar.addmenuitem('Wizard', 'separator', '')
self.menuBar.addmenuitem('Wizard', 'command', 'Label',
label='Label',
command = lambda s=self: s.cmd.do("_ wi
zard label"))
self.menuBar.addmenuitem('Wizard', 'command', 'Charge',
label='Charge',
command = lambda s=self: s.cmd.do("_ wi
zard charge"))
self.menuBar.addmenuitem('Wizard', 'separator', '')
self.menuBar.addcascademenu('Wizard', 'Demo', 'Demo',
label='Demo',tearoff=TRUE)
self.menuBar.addmenuitem('Demo', 'command', 'Representations',
label='Representations',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,reps"))
self.menuBar.addmenuitem('Demo', 'command', 'Cartoon Ribbons',
label='Cartoon Ribbons',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,cartoon"))
self.menuBar.addmenuitem('Demo', 'command', 'Roving Detail',
label='Roving Detail',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,roving"))
self.menuBar.addmenuitem('Demo', 'command', 'Roving Density',
label='Roving Density',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,roving_density"))
self.menuBar.addmenuitem('Demo', 'command', 'Transparency',
label='Transparency',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,trans"))
self.menuBar.addmenuitem('Demo', 'command', 'Ray Tracing',
label='Ray Tracing',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,ray"))
self.menuBar.addmenuitem('Demo', 'command', 'Sculpting',
label='Sculpting',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,sculpt"))
self.menuBar.addmenuitem('Demo', 'command', 'Scripted Animation',
label='Scripted Animation',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,anime"))
self.menuBar.addmenuitem('Demo', 'command', 'Electrostatics',
label='Electrostatics',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,elec"))
self.menuBar.addmenuitem('Demo', 'command', 'Compiled Graphics Objects',
label='Compiled Graphics Objects',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,cgo"))
self.menuBar.addmenuitem('Demo', 'command', 'MolScript/Raster3D Input',
label='Molscript/Raster3D Input',
command = lambda s=self: s.cmd.do(
"_ replace_wizard demo,raster3d"))
self.menuBar.addmenuitem('Demo', 'separator', '')
self.menuBar.addmenuitem('Demo', 'command', 'End Demonstration',
label='End Demonstration',
command = lambda s=self: s.cmd.do(
'_ replace_wizard demo,finish'))
self.menuBar.addmenu('Plugin', 'Plugin',tearoff=TRUE)
# hook up scene menu updates		# hook up scene menu updates
index = self.pymol.setting.index_dict.get('scenes_changed')		index = self.pymol.setting.index_dict.get('scenes_changed')
self.setting.active_dict[index] = self.update_scene_menu		self.setting.active_dict[index] = self.update_scene_menu
		def settings_edit_all_dialog(self):
		SetEditor(self)
		def edit_colors_dialog(self):
		ColorEditor(self)
def update_scene_menu(self):		def update_scene_menu(self):
scene_list = self.cmd.get_scene_list()		scene_list = self.cmd.get_scene_list()
for action in ['recall', 'clear']:		for action in ['recall', 'clear']:
parent = action.capitalize()		parent = 'Scene/' + action.capitalize()
self.menuBar.deletemenuitems(parent, 0, 999)		self.menuBar.deletemenuitems(parent, 0, 999)
for k in scene_list:		for k in scene_list:
self.menuBar.addmenuitem(parent, 'command', k, label=k,		self.menuBar.addmenuitem(parent, 'command', k, label=k,
command=lambda k=k, a=action: self.cmd.scene(k, a))		command=lambda k=k, a=action: self.cmd.scene(k, a))
		parent = 'Scene/Store'
		self.menuBar.deletemenuitems(parent, 0, 11)
for i in range(12):		for i in range(12):
k = 'F' + str(i + 1)		k = 'F' + str(i + 1)
self.scene_F_keys[i].set(1 if k in scene_list else 0)		self.scene_F_keys[i].set(1 if k in scene_list else 0)
		self.menuBar.addmenuitem(parent, 'checkbutton', k, label=k,
		variable=self.scene_F_keys[i],
		command=lambda k=k: self.cmd.scene(k, 'store'))
def show_about(self):		def show_about(self):
Pmw.aboutversion(self.appversion)		Pmw.aboutversion(self.appversion)
Pmw.aboutcopyright(self.copyright)		Pmw.aboutcopyright(self.copyright)
Pmw.aboutcontact(		Pmw.aboutcontact(
'For more information, browse to: %s\n or send email to: %s' %\		'For more information, browse to: %s\n or send email to: %s' %\
(self.contactweb, self.contactemail))		(self.contactweb, self.contactemail))
self.about = Pmw.AboutDialog(self.root, applicationname=self.appname)		self.about = Pmw.AboutDialog(self.root, applicationname=self.appname)
self.my_activate(self.about)		self.my_activate(self.about)
self.about.withdraw()		self.about.withdraw()
End of changes. 28 change blocks.
2538 lines changed or deleted		129 lines changed or added

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