def fillInUI(self, parent): import Pmw, Tkinter SaveModeless.fillInUI(self, parent) self.clientArea.columnconfigure(0, weight=1) row = 0 from chimera.widgets import ModelOptionMenu self.surfList = ModelOptionMenu(self.clientArea, labelpos='w', label_text="Save surface:", filtFunc=lambda m: isinstance(m, MSMSModel)) self.surfList.grid(row=row, column=0) row += 1 self.saveNormalsVar = Tkinter.IntVar(self.clientArea) self.saveNormalsVar.set(True) Tkinter.Checkbutton(self.clientArea, text="Save normals", variable=self.saveNormalsVar).grid(row=row) row += 1 self.displayedOnlyVar = Tkinter.IntVar(self.clientArea) self.displayedOnlyVar.set(True) Tkinter.Checkbutton(self.clientArea, text="Limit output to" " displayed surface sections", variable=self.displayedOnlyVar).grid(row=row) row += 1
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
self.clientArea.columnconfigure(0, weight=1)
self.clientArea.columnconfigure(1, weight=1)
self.amount = Pmw.RadioSelect(self.clientArea,
orient='vertical',
buttontype='radiobutton',
labelpos='w',
pady=0,
label_text="Record")
self.amount.add("selected commands")
self.amount.add("all commands")
self.amount.invoke(1)
self.amount.grid(row=0, column=0)
self.commandStyle = Pmw.RadioSelect(self.clientArea,
orient='vertical',
command=self._adjustFileName,
buttontype='radiobutton',
labelpos='w',
pady=0,
label_text="Record as")
self.commandStyle.add("Chimera commands")
self.commandStyle.add("Python commands")
self.commandStyle.invoke(0)
self.commandStyle.grid(row=1, column=0)
self.appending = Tkinter.IntVar(parent)
self.appending.set(0)
Tkinter.Checkbutton(self.clientArea,
variable=self.appending,
text="Append to file").grid(row=0,
column=1,
rowspan=2)
def fillInUI(self, parent):
import Tkinter as Tk
import Pmw
from HtmlText import HtmlText
SaveModeless.fillInUI(self, parent)
parent = self.clientArea
self.notes = Pmw.ScrolledText(parent,
text_pyclass=HtmlText,
text_relief=Tk.FLAT,
text_wrap=Tk.WORD,
text_height=4,
text_width=10,
text_highlightthickness=0)
self.notes.pack(side=Tk.TOP,
anchor=Tk.NW,
fill=Tk.BOTH,
expand=True,
pady=5,
padx=10)
self.notes.configure(text_state=Tk.DISABLED,
hscrollmode='dynamic',
vscrollmode='dynamic',
text_background=parent.cget('background'))
import exports
self.notes.settext(exports.getNotes(self.getFilter()))
def fillInUI(self, parent):
import Pmw, Tkinter
SaveModeless.fillInUI(self, parent)
row = 0
from chimera.widgets import MoleculeOptionMenu
self.modelMenu = MoleculeOptionMenu(
self.clientArea,
labelpos='w',
label_text="Save model:",
command=lambda m: self.configure(self.modelMenu.getvalue(),
refreshList=False))
self.modelMenu.grid(row=row, column=0, sticky='w')
row += 1
from AddCharge import knownChargeModels, defaultChargeModel
from chimera import dialogs
self.parmsetOption = Pmw.OptionMenu(
self.clientArea,
labelpos='w',
label_text="Select force field type: ",
initialitem=defaultChargeModel,
items=knownChargeModels)
# not always shown; remember row number
self._msmRow = row
self.parmsetOption.grid(row=row, column=0, sticky='w')
row += 1
def fillInUI(self, parent):
import Pmw, Tkinter
SaveModeless.fillInUI(self, parent)
self.clientArea.columnconfigure(0, weight=1)
row = 0
from chimera.widgets import ModelOptionMenu
self.surfList = ModelOptionMenu(
self.clientArea,
labelpos='w',
label_text="Save surface:",
filtFunc=lambda m: isinstance(m, MSMSModel))
self.surfList.grid(row=row, column=0)
row += 1
self.saveNormalsVar = Tkinter.IntVar(self.clientArea)
self.saveNormalsVar.set(True)
Tkinter.Checkbutton(self.clientArea,
text="Save normals",
variable=self.saveNormalsVar).grid(row=row)
row += 1
self.displayedOnlyVar = Tkinter.IntVar(self.clientArea)
self.displayedOnlyVar.set(True)
Tkinter.Checkbutton(self.clientArea,
text="Limit output to"
" displayed surface sections",
variable=self.displayedOnlyVar).grid(row=row)
row += 1
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
from CGLtk import Hybrid
br = Hybrid.Entry(self.clientArea, 'Bit rate (Kb/sec):', 6,
self.default_bit_rate)
br.frame.grid(row=0, column=0, sticky='w')
self.bit_rate = br.variable
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
from CGLtk import Hybrid
br = Hybrid.Entry(self.clientArea, 'Bit rate (Kb/sec):', 6,
self.default_bit_rate)
br.frame.grid(row = 0, column = 0, sticky = 'w')
self.bit_rate = br.variable
def fillInUI(self, parent): SaveModeless.fillInUI(self, parent) self.saveTypes = Pmw.RadioSelect(self.clientArea, pady=0, buttontype='checkbutton', labelpos='w', orient='vertical', label_text="Save:") self.saveTypes.grid(row=0, column=0) for name in self.structMeasure.notebook.pagenames(): mode = 'normal' if name not in [DISTANCES, ANGLES, BONDROTS, GEOMETRIES]: mode = 'disabled' self.saveTypes.add(name, state=mode) if mode == 'normal': self.saveTypes.invoke(name)
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
from chimera.tkoptions import SymbolicEnumOption, BooleanOption
class ColorModeOption(SymbolicEnumOption):
values = ["color", "gray", "mono"]
labels = ["color", "grayscale", "black & white"]
self.colorMode = ColorModeOption(self.clientArea,
0,
"color mode",
"color",
None,
balloon="output color range")
self.orientation = BooleanOption(
self.clientArea,
1,
"rotate 90",
False,
None,
balloon="If true, output will be rotated 90 degrees\n"
"(i.e. landscape mode)")
class ExtentOption(SymbolicEnumOption):
values = ["visible", "all"]
labels = ["visible region", "entire alignment"]
self.extent = ExtentOption(
self.clientArea,
2,
"extent",
"visible",
None,
balloon="save the entire alignment or just the visible part")
self.hideNodes = BooleanOption(
self.clientArea,
3,
"hide tree control nodes",
True,
None,
balloon="Hide square boxes used as controls for tree")
if not self.mav.seqCanvas.treeShown:
self.hideNodes.forget()
self._nodesHandler = self.mav.triggers.addHandler(
DISPLAY_TREE, self._treeDispCB, None)
def fillInUI(self, parent): SaveModeless.fillInUI(self, parent) self.selUnsel = Pmw.OptionMenu(self.clientArea, items=[ "selected", "unselected"], labelpos='w', label_text= "Write") self.selUnsel.grid(row=0, column=0, sticky='e') self.classMenu = Pmw.OptionMenu(self.clientArea, items= map(lambda c: c.__name__.lower() + "s", classes)) self.classMenu.grid(row=0, column=1, sticky='w') from tkoptions import NamingStyleOption if self.prefs[self.PREF_NAMING] in NamingStyleOption.values: default = self.prefs[self.PREF_NAMING] else: default = None self.naming = NamingStyleOption(self.clientArea, 1, None, default, None)
def fillInUI(self, *args): if isinstance(self, SaveModeless): SaveModeless.fillInUI(self, *args) else: SaveModal.fillInUI(self, *args) import Tkinter self.saveRegion = Tkinter.IntVar(self.clientArea) self.saveRegion.set(False) Tkinter.Checkbutton(self.clientArea, variable=self.saveRegion, text="Restrict save to active region").grid(row=0, sticky='w') self.omitGaps = Tkinter.IntVar(self.clientArea) self.omitGaps.set(True) Tkinter.Checkbutton(self.clientArea, variable=self.omitGaps, text="Omit all-gap columns").grid(row=1, sticky='w') self.appendNumberings = Tkinter.IntVar(self.clientArea) Tkinter.Checkbutton(self.clientArea, variable=self.appendNumberings, text="Append sequence" " numberings to sequence names").grid(row=2, sticky='w')
def fillInUI(self, parent): SaveModeless.fillInUI(self, parent) from chimera.tkoptions import SymbolicEnumOption self.headerChoice = SymbolicEnumOption(self.clientArea, 0, "Save", None, None) self.omitNoValueVar = Tkinter.IntVar(self.clientArea) self.omitNoValueVar.set(True) frame = Tkinter.Frame(self.clientArea) frame.grid(row=1, column=0, columnspan=2) ckb = Tkinter.Checkbutton(frame, variable=self.omitNoValueVar, text="Omit no-value positions") ckb.grid() chimera.help.register(ckb, balloon= "If on, conservations positions without\n" "values will not have lines in the output file") self._populateMenu() from MAViewer import SHOW_HEADERS, HIDE_HEADERS for trig in [SHOW_HEADERS, HIDE_HEADERS]: self.mav.triggers.addHandler(trig, self._populateMenu, None)
def fillInUI(self, parent): import Pmw, Tkinter SaveModeless.fillInUI(self, parent) row = 0 from chimera.widgets import MoleculeOptionMenu self.modelMenu = MoleculeOptionMenu(self.clientArea, labelpos='w', label_text="Save model:", command=lambda m: self.configure( self.modelMenu.getvalue(), refreshList=False)) self.modelMenu.grid(row=row, column=0, sticky='w') row += 1 from AddCharge import knownChargeModels, defaultChargeModel from chimera import dialogs self.parmsetOption = Pmw.OptionMenu(self.clientArea, labelpos='w', label_text="Select force field type: ", initialitem=defaultChargeModel, items=knownChargeModels) # not always shown; remember row number self._msmRow = row self.parmsetOption.grid(row=row, column=0, sticky='w') row += 1
def fillInUI(self, *args):
if isinstance(self, SaveModeless):
SaveModeless.fillInUI(self, *args)
else:
SaveModal.fillInUI(self, *args)
import Tkinter
self.saveRegion = Tkinter.IntVar(self.clientArea)
self.saveRegion.set(False)
Tkinter.Checkbutton(self.clientArea,
variable=self.saveRegion,
text="Restrict save to active region").grid(
row=0, sticky='w')
self.omitGaps = Tkinter.IntVar(self.clientArea)
self.omitGaps.set(True)
Tkinter.Checkbutton(self.clientArea,
variable=self.omitGaps,
text="Omit all-gap columns").grid(row=1,
sticky='w')
self.appendNumberings = Tkinter.IntVar(self.clientArea)
Tkinter.Checkbutton(self.clientArea,
variable=self.appendNumberings,
text="Append sequence"
" numberings to sequence names").grid(row=2,
sticky='w')
def fillInUI(self, parent): SaveModeless.fillInUI(self, parent) from chimera.tkoptions import NamingStyleOption self.namingStyle = NamingStyleOption(self.clientArea, 0, None, None, None)
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
from chimera.tkoptions import NamingStyleOption
self.namingStyle = NamingStyleOption(self.clientArea, 0, None, None,
None)
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
self.clientArea.columnconfigure(1, weight=1)
startFrame = self.movie.startFrame
endFrame = self.movie.endFrame
from chimera.tkoptions import IntOption, BooleanOption, \
FloatOption, StringOption
self.startFrame = IntOption(self.clientArea, 0,
"Starting frame", startFrame, None,
min=startFrame, max=endFrame, width=6)
numFrames = endFrame - startFrame + 1
defStride = 1 + int(numFrames/300)
self.stride = IntOption(self.clientArea, 2, "Step size",
defStride, None, min=1, max=numFrames, width=3)
self.endFrame = IntOption(self.clientArea, 3, "Ending frame",
endFrame, None, min=startFrame, max=endFrame, width=6)
self.roundtrip = BooleanOption(self.clientArea, 4, "Encode"
' forward then backward ("roundtrip")', prefs[
RECORDER_ROUNDTRIP], None, balloon=
"Encode the frames in forward and then reverse\n"
"order so that if the movie is played as a loop\n"
"the motion seems continuous")
class FrameQuality(BooleanOption):
labels = ["screen", "supersampled"]
self.supersample = FrameQuality(self.clientArea, 5,
"Frame quality", prefs[RECORDER_SUPERSAMPLE],
self.supersampleCB, balloon=
"Whether each frame should be taken as is from\n"
"the screen (fast) or redrawn at higher quality\n"
"with several samples per pixel.")
from chimera.printer import SupersampleOption
self.samples = SupersampleOption(self.clientArea, 6,
"Samples", prefs[RECORDER_SAMPLES], None)
self.supersampleCB()
self.raytrace = BooleanOption(self.clientArea, 7, "Raytrace"
" with POV-Ray", prefs[RECORDER_RAYTRACE], None)
def povOptCB():
from chimera.dialogs import display
d = display("preferences")
from chimera.printer import POVRAY_SETUP
d.setCategoryMenu(POVRAY_SETUP)
Tkinter.Button(self.clientArea, text="POV-Ray Options", pady=0,
command=povOptCB).grid(row=8, column=0, columnspan=2)
self.recordArgs = StringOption(self.clientArea, 9,
"Additional recording options",
prefs[RECORDER_RECORD_ARGS], None, balloon=
"Options (other than 'supersample' and 'raytrace')\n"
"for recording frames as per Chimera's 'movie record'"
" command")
self.encodeArgs = StringOption(self.clientArea, 10,
"Additional encoding options",
prefs[RECORDER_ENCODE_ARGS], None, balloon=
"Options (other than 'mformat', 'output', and\n"
"'roundtrip') for composing the frames into the\n"
"final animation as per Chimera's 'movie encode'\n"
"command")
Tkinter.Label(self.clientArea, text=
"On some computers it may be necessary to make sure"
" that no\nwindows occlude the main Chimera graphics"
" window (even\npartially) during non-raytraced movie"
" recording").grid(row=11, column=0, columnspan=2)
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
self.clientArea.columnconfigure(1, weight=1)
startFrame = self.movie.startFrame
endFrame = self.movie.endFrame
from chimera.tkoptions import IntOption, BooleanOption, \
FloatOption, StringOption
self.startFrame = IntOption(self.clientArea,
0,
"Starting frame",
startFrame,
None,
min=startFrame,
max=endFrame,
width=6)
numFrames = endFrame - startFrame + 1
defStride = 1 + int(numFrames / 300)
self.stride = IntOption(self.clientArea,
2,
"Step size",
defStride,
None,
min=1,
max=numFrames,
width=3)
self.endFrame = IntOption(self.clientArea,
3,
"Ending frame",
endFrame,
None,
min=startFrame,
max=endFrame,
width=6)
self.roundtrip = BooleanOption(
self.clientArea,
4, "Encode"
' forward then backward ("roundtrip")',
prefs[RECORDER_ROUNDTRIP],
None,
balloon="Encode the frames in forward and then reverse\n"
"order so that if the movie is played as a loop\n"
"the motion seems continuous")
class FrameQuality(BooleanOption):
labels = ["screen", "supersampled"]
self.supersample = FrameQuality(
self.clientArea,
5,
"Frame quality",
prefs[RECORDER_SUPERSAMPLE],
self.supersampleCB,
balloon="Whether each frame should be taken as is from\n"
"the screen (fast) or redrawn at higher quality\n"
"with several samples per pixel.")
from chimera.printer import SupersampleOption
self.samples = SupersampleOption(self.clientArea, 6, "Samples",
prefs[RECORDER_SAMPLES], None)
self.supersampleCB()
self.raytrace = BooleanOption(self.clientArea, 7, "Raytrace"
" with POV-Ray",
prefs[RECORDER_RAYTRACE], None)
def povOptCB():
from chimera.dialogs import display
d = display("preferences")
from chimera.printer import POVRAY_SETUP
d.setCategoryMenu(POVRAY_SETUP)
Tkinter.Button(self.clientArea,
text="POV-Ray Options",
pady=0,
command=povOptCB).grid(row=8, column=0, columnspan=2)
self.recordArgs = StringOption(
self.clientArea,
9,
"Additional recording options",
prefs[RECORDER_RECORD_ARGS],
None,
balloon="Options (other than 'supersample' and 'raytrace')\n"
"for recording frames as per Chimera's 'movie record'"
" command")
self.encodeArgs = StringOption(
self.clientArea,
10,
"Additional encoding options",
prefs[RECORDER_ENCODE_ARGS],
None,
balloon="Options (other than 'mformat', 'output', and\n"
"'roundtrip') for composing the frames into the\n"
"final animation as per Chimera's 'movie encode'\n"
"command")
Tkinter.Label(self.clientArea,
text="On some computers it may be necessary to make sure"
" that no\nwindows occlude the main Chimera graphics"
" window (even\npartially) during non-raytraced movie"
" recording").grid(row=11, column=0, columnspan=2)
def fillInUI(self, parent):
import Pmw, Tkinter
SaveModeless.fillInUI(self, parent)
row = 0
from chimera.widgets import MoleculeScrolledListBox, \
ModelOptionMenu
self.modelList = MoleculeScrolledListBox(self.clientArea,
labelpos='w', label_text="Save models:",
listbox_selectmode='extended',
selectioncommand=lambda: self.configure(
self.modelList.getvalue(), refreshList=False))
self.modelList.grid(row=row, column=0, sticky='nsew')
self.clientArea.rowconfigure(row, weight=1)
self.clientArea.columnconfigure(0, weight=1)
row += 1
from chimera import dialogs
self.labelMap = {
"individual":
"a single file [individual @MOLECULE sections]",
"combined":
"a single file [combined @MOLECULE section]",
"multiple":
"multiple files [appending model number]"
}
preferred = self.labelMap[self.prefs["multiSaveMol2"]]
self.multiSaveMenu = Pmw.OptionMenu(self.clientArea,
labelpos='w', label_text="Save multiple models in",
initialitem=preferred, items=self.labelMap.values())
# not always shown; remember row number
self._msmRow = row
row += 1
self.saveRelativeVar = Tkinter.IntVar(self.clientArea)
self.saveRelativeVar.set(False)
self.relativeFrame = f = Tkinter.Frame(self.clientArea)
Tkinter.Checkbutton(f, variable=self.saveRelativeVar,
text="Save relative to model:").grid(row=0,
column=0, sticky='e')
self.relModelMenu = ModelOptionMenu(f)
self.relModelMenu.grid(row=0, column=1, sticky='w')
self.saveUntransformedVar = Tkinter.IntVar(parent)
self.saveUntransformedVar.set(True)
self.untransformedButton = Tkinter.Checkbutton(self.clientArea,
variable=self.saveUntransformedVar,
text="Use untransformed coordinates")
self._rfRow = row
row += 1
self.sybylHydNamesVar = Tkinter.IntVar(self.clientArea)
self.sybylHydNamesVar.set(
self.prefs["hydrogen naming"] == "sybyl")
Tkinter.Checkbutton(self.clientArea,
variable=self.sybylHydNamesVar,
text="Use Sybyl-style hydrogen naming (e.g. HE12"
" rather than 2HE1)").grid(row=row, column=0,
sticky="w")
row += 1
self.resNumsVar = Tkinter.IntVar(self.clientArea)
self.resNumsVar.set(self.prefs["residue numbers"])
Tkinter.Checkbutton(self.clientArea, variable=self.resNumsVar,
text="Include residue sequence numbers in substructure"
" names").grid(row=row, column=0, sticky='w')
row += 1
self.writeGaffVar = Tkinter.IntVar(self.clientArea)
self.resNumsVar.set(False)
Tkinter.Checkbutton(self.clientArea, variable=self.writeGaffVar,
text="Write Amber/GAFF atom types instead of Sybyl atom types"
).grid(row=row, column=0, sticky='w')
row += 1
self.rigidVar = Tkinter.IntVar(self.clientArea)
self.rigidVar.set(False)
Tkinter.Checkbutton(self.clientArea, variable=self.rigidVar,
text="Write current selection to @SETS section of file"
).grid(row=row, column=0, sticky="w")
row += 1
def fillInUI(self, parent):
SaveModeless.fillInUI(self, parent)
row = 0
from chimera.widgets import MoleculeScrolledListBox, \
ModelOptionMenu
self.modelList = MoleculeScrolledListBox(self.clientArea,
labelpos='w', label_text="Save models:",
listbox_selectmode='extended',
selectioncommand=lambda: self.configure(
self.modelList.getvalue(), refreshList=False))
self.modelList.grid(row=row, column=0, sticky='nsew')
self.clientArea.rowconfigure(row, weight=1)
self.clientArea.columnconfigure(0, weight=1)
row += 1
import Tkinter, Pmw
self.dispOnlyVar = Tkinter.IntVar(parent)
self.dispOnlyVar.set(False)
Tkinter.Checkbutton(self.clientArea, variable=self.dispOnlyVar,
text="Save displayed atoms only").grid(row=row,
column=0, sticky='w')
row += 1
self.selOnlyVar = Tkinter.IntVar(parent)
self.selOnlyVar.set(False)
Tkinter.Checkbutton(self.clientArea, variable=self.selOnlyVar,
text="Save selected atoms only").grid(row=row,
column=0, sticky='w')
row += 1
self.saveRelativeVar = Tkinter.IntVar(parent)
self.saveRelativeVar.set(False)
self.relativeFrame = f = Tkinter.Frame(self.clientArea)
Tkinter.Checkbutton(f, variable=self.saveRelativeVar,
text="Save relative to model:"
).grid(row=0, column=0, sticky='e')
self.relModelMenu = ModelOptionMenu(f)
self.relModelMenu.grid(row=0, column=1, sticky='w')
self.saveUntransformedVar = Tkinter.IntVar(parent)
self.saveUntransformedVar.set(True)
self.untransformedButton = Tkinter.Checkbutton(self.clientArea,
variable=self.saveUntransformedVar,
text="Use untransformed coordinates")
self._rfRow = row
row += 1
self.frameSave = Pmw.OptionMenu(self.clientArea,
labelpos='w', label_text="Save",
initialitem="current frame",
items=["current frame", "all frames"])
# not always shown; remember row number
self._fsRow = row
row += 1
from chimera import dialogs
self.labelMap = {
"single": "a single file",
"multiple":
"multiple files [appending model number]"
}
preferred = self.labelMap[self.prefs["multiSavePDB"]]
self.multiSaveMenu = Pmw.OptionMenu(self.clientArea,
labelpos='w', label_text="Save multiple models in",
initialitem=preferred, items=self.labelMap.values())
# not always shown; remember row number
self._msmRow = row
row += 1