def Apply(self):
if not self.propertyName.valid():
raise chimera.UserError(
"Please enter valid attribute name")
propName = self.propertyName.getvalue()
pageName = self.notebook.getcurselection()
if pageName == "Molecules":
target = self.molChooser.getvalue()
elif pageName == "Chains":
target = self.chainChooser.getvalue()
if not target:
raise chimera.UserError(
"Please select molecule or chain")
opts = self.outputOptions.getvalue()
rba = "rba" in opts
save = "save" in opts
show = "show" in opts
serverName = self.serverChooser.getcurselection()
f = self.Servers[serverName][1]
parts = self.paramFrames[serverName][1]
opts = self.Servers[serverName][3](self, parts)
output = f(target, opts, propName, rba)
if save:
_save(output, show)
elif show:
# create temporary file and invoke browser
from OpenSave import osTemporaryFile
filename = osTemporaryFile(suffix=".html")
f = open(filename, "w")
f.write(output)
f.close()
import urllib
from chimera import help
help.display("file:" + urllib.pathname2url(filename))
def _insertSymbol(self, item):
if len(item) > 1:
from chimera import help
help.display("ContributedSoftware/2dlabels/symbols.html")
return
if not self.model.labels:
self.status("No labels have been created yet", color="red")
return
if not self.labelTable.selected():
self.status("No labels active", color="red")
self.labelText.insert("insert", item)
self.setLabelFromText()
def _insertSymbol(self, item):
if len(item) > 1:
from chimera import help
help.display("ContributedSoftware/2dlabels/symbols.html")
return
if not self.model.labels:
self.status("No labels have been created yet", color="red")
return
if not self.labelTable.selected():
self.status("No labels active", color="red")
self.labelText.insert("insert", item)
self.setLabelFromText()
def _fileChosen(okayed, dialog): if okayed: paths = dialog.getPaths() if paths: filename = paths[0] from OpenSave import osOpen outFile = osOpen(filename, "w") outFile.write(dialog._output) outFile.close() if dialog._show: import urllib from chimera import help help.display(urllib.pathname2url(filename)) delattr(dialog, "_output") delattr(dialog, "_show")
def __init__(self, parent):
from Trajectory.prefs import prefs, INPUT_FILES
inputPrefs = prefs[INPUT_FILES].setdefault(self.formatName, {})
self.options = []
for i in range(len(self.labels)):
label = self.labels[i]
self.options.append(
InputFileOption(parent,
i,
label,
inputPrefs.get(label, True),
None,
title="Choose %s File" % label,
historyID="%s %s" % (self.formatName, label)))
parent.columnconfigure(1, weight=1)
f = Tkinter.Frame(parent)
f.grid(row=len(self.labels), column=0, columnspan=2)
Tkinter.Label(f, text="PSF/DCD support courtesy of").grid(row=0,
column=0,
sticky='e')
from chimera import help
Tkinter.Button(f,
text="MDTools",
padx=0,
pady=0,
command=lambda: help.display(
"http://www.ks.uiuc.edu/~jim/mdtools/")).grid(
row=0, column=1, sticky='w')
def __init__(self, parent):
from Trajectory.prefs import prefs, INPUT_FILES
inputPrefs = prefs[INPUT_FILES].setdefault(self.formatName, {})
self.options = []
for i in range(len(self.labels)):
label = self.labels[i]
self.options.append(InputFileOption(parent, i,
label, inputPrefs.get(label, True),
None, title="Choose %s File" % label,
historyID="%s %s" % (self.formatName, label)))
parent.columnconfigure(1, weight=1)
f = Tkinter.Frame(parent)
f.grid(row=len(self.labels), column=0, columnspan=2)
Tkinter.Label(f, text="PSF/DCD support courtesy of"
).grid(row=0, column=0, sticky='e')
from chimera import help
Tkinter.Button(f, text="MDTools", padx=0, pady=0,
command=lambda: help.display(
"http://www.ks.uiuc.edu/~jim/mdtools/")
).grid(row=0, column=1, sticky='w')
def show_scores_web_page(self):
url = 'http://www.cgl.ucsf.edu/chimera/benchmarks.html'
from chimera.help import display
display(url)
def Help(self):
# implement our own help, since we want different
# URLs depending on the current preferences category
nameTag = self.menu.getcurselection()
help.display("UsersGuide/preferences.html#%s" % nameTag)
def Tips(self): import help help.display(self.help + "#tips")
def fillInUI(self, master):
self._ModelTrigger = None
#self._SetupTrigger = None
self._SizeTrigger = None
self.raytrace = None
# Image Size
imageSetup = Tix.LabelFrame(master, label="Image Size")
imageSetup.pack(fill=Tk.X, ipadx=2, ipady=2)
subframe = imageSetup.frame
#subframe = Tk.Frame(imageSetup.frame)
#subframe.pack(fill=Tk.BOTH, expand=1)
# add in conversion factor for pixels and graphics screen
from chimera import tkgui
win = tkgui.app.graphics
res = tkgui.getScreenMMWidth() / win.winfo_screenwidth()
convert['pixels'] = mm2pt(res)
self.matchAspect = Tk.BooleanVar(master)
self.matchAspect.set(1)
self.usePrint = Tk.BooleanVar(master)
self.usePrint.set(preferences.get(IMAGE_SETUP, USE_PRINT_UNITS))
import itertools
row = itertools.count()
self.showUsePrint = Tk.Checkbutton(subframe, indicatoron=1,
variable=self.usePrint, highlightthickness=0,
text=USE_PRINT_UNITS,
command=self._updateUsePrint)
self.showUsePrint.grid(columnspan=2, row=row.next(), sticky=Tk.W)
w, h = chimera.viewer.windowSize
self.units = ImageUnitsOption(subframe, row.next(), UNITS,
'pixels', self.updateImageUnits)
self.iWidth = FloatOption(subframe, row.next(), 'Image width',
w, self.updateImageWidth, min=1e-10)
self.iHeight = FloatOption(subframe, row.next(), 'Image height',
h, self.updateImageHeight, min=1e-10)
matchAspect = Tk.Checkbutton(subframe, indicatoron=1,
variable=self.matchAspect, highlightthickness=0,
text="Maintain current aspect ratio",
command=self.updateMatchAspect)
matchAspect.grid(columnspan=2, row=row.next(), sticky=Tk.W)
self.grow = Tk.Button(imageSetup.frame, text="Grow to Fit",
command=self.Resize, state=Tk.DISABLED)
fitrow = row.next()
self.grow.grid(row=fitrow, column=0, padx=2, pady=2,
sticky=Tk.NSEW)
self.shrink = Tk.Button(imageSetup.frame, text="Shrink to Fit",
command=lambda f=self.Resize: f(False),
state=Tk.DISABLED)
self.shrink.grid(row=fitrow, column=1, padx=2, pady=2,
sticky=Tk.NSEW)
#fetch = Tk.Button(imageSetup.frame, text="Get Pixels",
# command=self.fetchWindowSize)
#fetch.grid(row=row.next(), column=0, padx=2, pady=2, sticky=Tk.NSEW)
#calc = Tk.Button(imageSetup.frame, text="Image Setup",
# command=self.showImageSetupDialog)
#calc.grid(row=row.next(), column=1, padx=2, pady=2, sticky=Tk.NSEW)
self.printRes = FloatOption(subframe, row.next(), DPI,
preferences.get(IMAGE_SETUP, DPI),
self._updatePrint, min=1)
# Image Information
info = Tix.LabelFrame(master, label="Image Information")
info.pack(fill=Tk.X)
d = Tk.Label(info.frame, text="Description:")
d.grid(columnspan=2, row=0, column=0, sticky=Tk.W, padx=2,
pady=1)
self.description = Tk.Entry(info.frame)
info.frame.grid_columnconfigure(0, weight=1)
info.frame.grid_columnconfigure(1, weight=1)
self.description.grid(columnspan=2, row=1, column=0,
sticky=Tk.EW, padx=2, pady=2)
imageCredits = Tk.Button(info.frame,
text="Image Credits",
command=self.showImageCreditsDialog)
imageCredits.grid(row=2, column=0, padx=2, pady=2)
credit = Tk.Button(info.frame, text="Citing Chimera",
command=lambda: help.display("credits.html"))
credit.grid(row=2, column=1, padx=2, pady=2)
# Image camera
self.raytrace = BooleanOption(master, -1,
'Raytrace with POV-Ray', False,
self._updateRaytrace)
self.raytraceOptions = Tk.Button(master, text=POVRAY_SETUP,
command=self.showPOVRayOptions)
self.raytraceOptions.pack()
self.raytraceOptions.pack_forget()
self.supersample = SupersampleOption(master, -1, SUPERSAMPLE,
preferences.get(IMAGE_SETUP, SUPERSAMPLE),
self._updateSS)
self.adjustFOV = AdjustFOVOption(master, -1, ADJUST_FOV,
preferences.get(IMAGE_SETUP, ADJUST_FOV),
self._updateAdjustFOV)
self.printMode = _PrintModeOption(master, -1,
'Image camera mode', _PrintModeOption.SAME,
self._updatePrintMode)
self.lenticular = IntOption(master, -1,
'Number of lenticular images',
chimera.Camera.lenticularImageCount(),
self._updateLenticular, min=2, width=4)
self.lenticular.forget()
# switch to user's prefered units
self.adjust = convert['pixels']
units = preferences.get(IMAGE_SETUP, UNITS)
self._updateUsePrint()
self.units.set(units)
self.updateImageUnits()
def Help(self):
# implement our own help, since we want different
# URLs depending on the current preferences category
nameTag = self.menu.getcurselection()
help.display("UsersGuide/preferences.html#%s" % nameTag)
def show_users_guide():
'Show users guide in web browser'
from chimera import help
help.display('UsersGuide/index.html')
def show_scores_web_page(self):
url = 'http://www.cgl.ucsf.edu/chimera/benchmarks.html'
from chimera.help import display
display(url)