| 1 | #!/usr/bin/env python |
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| 2 | # -*- coding: utf-8 -*- |
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| 3 | #GSASII |
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| 4 | ########### SVN repository information ################### |
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| 5 | # $Date: 2014-12-27 17:14:59 +0000 (Sat, 27 Dec 2014) $ |
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| 6 | # $Author: vondreele $ |
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| 7 | # $Revision: 1620 $ |
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| 8 | # $URL: trunk/GSASII.py $ |
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| 9 | # $Id: GSASII.py 1620 2014-12-27 17:14:59Z vondreele $ |
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| 10 | ########### SVN repository information ################### |
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| 11 | ''' |
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| 12 | *GSAS-II Main Module* |
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| 13 | ===================== |
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| 14 | |
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| 15 | Main routines for the GSAS-II program |
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| 16 | ''' |
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| 17 | |
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| 18 | import os |
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| 19 | import sys |
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| 20 | import math |
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| 21 | import copy |
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| 22 | import random as ran |
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| 23 | import time |
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| 24 | import copy |
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| 25 | import glob |
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| 26 | import imp |
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| 27 | import inspect |
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| 28 | import numpy as np |
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| 29 | import scipy as sp |
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| 30 | import wx |
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| 31 | import matplotlib as mpl |
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| 32 | try: |
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| 33 | import OpenGL as ogl |
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| 34 | except ImportError: |
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| 35 | print('*******************************************************') |
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| 36 | print('PyOpenGL is missing from your python installation') |
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| 37 | print(' - we will try to install it') |
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| 38 | print('*******************************************************') |
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| 39 | def install_with_easyinstall(package): |
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| 40 | try: |
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| 41 | print "trying a system-wide PyOpenGl install" |
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| 42 | easy_install.main(['-f',os.path.split(__file__)[0],package]) |
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| 43 | return |
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| 44 | except: |
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| 45 | pass |
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| 46 | try: |
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| 47 | print "trying a user level PyOpenGl install" |
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| 48 | easy_install.main(['-f',os.path.split(__file__)[0],'--user',package]) |
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| 49 | return |
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| 50 | except: |
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| 51 | print "Install of '+package+' failed. Please report this information:" |
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| 52 | import traceback |
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| 53 | print traceback.format_exc() |
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| 54 | sys.exit() |
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| 55 | from setuptools.command import easy_install |
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| 56 | install_with_easyinstall('PyOpenGl') |
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| 57 | print('*******************************************************') |
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| 58 | print('OpenGL has been installed. Restarting GSAS-II') |
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| 59 | print('*******************************************************') |
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| 60 | loc = os.path.dirname(__file__) |
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| 61 | import subprocess |
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| 62 | subprocess.Popen([sys.executable,os.path.join(loc,'GSASII.py')]) |
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| 63 | sys.exit() |
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| 64 | |
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| 65 | # load the GSAS routines |
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| 66 | import GSASIIpath |
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| 67 | GSASIIpath.SetVersionNumber("$Revision: 1620 $") |
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| 68 | import GSASIIIO as G2IO |
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| 69 | import GSASIIgrid as G2gd |
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| 70 | import GSASIIctrls as G2G |
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| 71 | import GSASIIplot as G2plt |
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| 72 | import GSASIIpwd as G2pwd |
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| 73 | import GSASIIpwdGUI as G2pdG |
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| 74 | import GSASIIspc as G2spc |
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| 75 | import GSASIIstrMain as G2stMn |
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| 76 | import GSASIIstrIO as G2stIO |
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| 77 | import GSASIImapvars as G2mv |
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| 78 | import GSASIIobj as G2obj |
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| 79 | import GSASIIlattice as G2lat |
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| 80 | import GSASIIlog as log |
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| 81 | |
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| 82 | #wx inspector - use as needed |
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| 83 | wxInspector = False |
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| 84 | |
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| 85 | __version__ = '0.2.0' |
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| 86 | G2gd.__version__ = __version__ |
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| 87 | |
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| 88 | # PATCH: for Mavericks (OS X 10.9.x), wx produces an annoying warning about LucidaGrandeUI. |
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| 89 | # In case stderr has been suppressed there, redirect python error output to stdout. Nobody |
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| 90 | # else should care much about this. |
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| 91 | sys.stderr = sys.stdout |
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| 92 | |
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| 93 | def create(parent): |
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| 94 | return GSASII(parent) |
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| 95 | |
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| 96 | def SetDefaultDData(dType,histoName,NShkl=0,NDij=0): |
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| 97 | if dType in ['SXC','SNC']: |
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| 98 | return {'Histogram':histoName,'Show':False,'Scale':[1.0,True], |
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| 99 | 'Babinet':{'BabA':[0.0,False],'BabU':[0.0,False]}, |
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| 100 | 'Extinction':['Lorentzian','None', {'Tbar':0.1,'Cos2TM':0.955, |
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| 101 | 'Eg':[1.e-10,False],'Es':[1.e-10,False],'Ep':[1.e-10,False]}]} |
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| 102 | elif dType == 'SNT': |
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| 103 | return {'Histogram':histoName,'Show':False,'Scale':[1.0,True], |
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| 104 | 'Babinet':{'BabA':[0.0,False],'BabU':[0.0,False]}, |
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| 105 | 'Extinction':['Lorentzian','None', { |
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| 106 | 'Eg':[1.e-10,False],'Es':[1.e-10,False],'Ep':[1.e-10,False]}]} |
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| 107 | elif 'P' in dType: |
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| 108 | return {'Histogram':histoName,'Show':False,'Scale':[1.0,False], |
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| 109 | 'Pref.Ori.':['MD',1.0,False,[0,0,1],0,{}], |
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| 110 | 'Size':['isotropic',[1.,1.,1.],[False,False,False],[0,0,1], |
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| 111 | [1.,1.,1.,0.,0.,0.],6*[False,]], |
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| 112 | 'Mustrain':['isotropic',[1000.0,1000.0,1.0],[False,False,False],[0,0,1], |
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| 113 | NShkl*[0.01,],NShkl*[False,]], |
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| 114 | 'HStrain':[NDij*[0.0,],NDij*[False,]], |
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| 115 | 'Extinction':[0.0,False],'Babinet':{'BabA':[0.0,False],'BabU':[0.0,False]}} |
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| 116 | |
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| 117 | class GSASII(wx.Frame): |
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| 118 | '''Define the main GSAS-II frame and its associated menu items |
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| 119 | ''' |
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| 120 | def MenuBinding(self,event): |
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| 121 | '''Called when a menu is clicked upon; looks up the binding in table |
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| 122 | ''' |
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| 123 | log.InvokeMenuCommand(event.GetId(),self,event) |
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| 124 | |
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| 125 | def Bind(self,eventtype,handler,*args,**kwargs): |
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| 126 | '''Override the Bind function so that we can wrap calls that will be logged. |
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| 127 | |
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| 128 | N.B. This is a bit kludgy. Menu bindings with an id are wrapped and |
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| 129 | menu bindings with an object and no id are not. |
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| 130 | ''' |
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| 131 | if eventtype == wx.EVT_MENU and 'id' in kwargs: |
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| 132 | menulabels = log.SaveMenuCommand(kwargs['id'],self,handler) |
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| 133 | if menulabels: |
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| 134 | wx.Frame.Bind(self,eventtype,self.MenuBinding,*args,**kwargs) |
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| 135 | return |
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| 136 | wx.Frame.Bind(self,eventtype,handler,*args,**kwargs) |
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| 137 | |
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| 138 | def _Add_FileMenuItems(self, parent): |
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| 139 | item = parent.Append( |
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| 140 | help='Open a GSAS-II project file (*.gpx)', id=wx.ID_ANY, |
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| 141 | kind=wx.ITEM_NORMAL,text='&Open project...') |
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| 142 | self.Bind(wx.EVT_MENU, self.OnFileOpen, id=item.GetId()) |
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| 143 | item = parent.Append( |
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| 144 | help='Save project under current name', id=wx.ID_ANY, |
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| 145 | kind=wx.ITEM_NORMAL,text='&Save project') |
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| 146 | self.Bind(wx.EVT_MENU, self.OnFileSave, id=item.GetId()) |
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| 147 | item = parent.Append( |
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| 148 | help='Save current project to new file', id=wx.ID_ANY, |
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| 149 | kind=wx.ITEM_NORMAL,text='Save project as...') |
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| 150 | self.Bind(wx.EVT_MENU, self.OnFileSaveas, id=item.GetId()) |
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| 151 | item = parent.Append( |
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| 152 | help='Create empty new project, saving current is optional', id=wx.ID_ANY, |
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| 153 | kind=wx.ITEM_NORMAL,text='&New project') |
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| 154 | self.Bind(wx.EVT_MENU, self.OnFileClose, id=item.GetId()) |
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| 155 | item = parent.Append( |
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| 156 | help='Exit from GSAS-II', id=wx.ID_ANY, |
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| 157 | kind=wx.ITEM_NORMAL,text='&Exit') |
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| 158 | self.Bind(wx.EVT_MENU, self.OnFileExit, id=item.GetId()) |
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| 159 | |
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| 160 | def _Add_DataMenuItems(self,parent): |
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| 161 | item = parent.Append( |
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| 162 | help='',id=wx.ID_ANY, |
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| 163 | kind=wx.ITEM_NORMAL, |
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| 164 | text='Read image data...') |
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| 165 | self.Bind(wx.EVT_MENU, self.OnImageRead, id=item.GetId()) |
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| 166 | item = parent.Append( |
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| 167 | help='',id=wx.ID_ANY, |
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| 168 | kind=wx.ITEM_NORMAL, |
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| 169 | text='Read Powder Pattern Peaks...') |
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| 170 | self.Bind(wx.EVT_MENU, self.OnReadPowderPeaks, id=item.GetId()) |
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| 171 | item = parent.Append( |
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| 172 | help='',id=wx.ID_ANY, |
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| 173 | kind=wx.ITEM_NORMAL, |
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| 174 | text='Sum powder data') |
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| 175 | self.Bind(wx.EVT_MENU, self.OnPwdrSum, id=item.GetId()) |
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| 176 | item = parent.Append( |
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| 177 | help='',id=wx.ID_ANY, |
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| 178 | kind=wx.ITEM_NORMAL, |
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| 179 | text='Sum image data') |
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| 180 | self.Bind(wx.EVT_MENU, self.OnImageSum, id=item.GetId()) |
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| 181 | item = parent.Append( |
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| 182 | help='',id=wx.ID_ANY, |
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| 183 | kind=wx.ITEM_NORMAL, |
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| 184 | text='Add phase') |
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| 185 | self.Bind(wx.EVT_MENU, self.OnAddPhase, id=item.GetId()) |
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| 186 | item = parent.Append( |
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| 187 | help='',id=wx.ID_ANY, |
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| 188 | kind=wx.ITEM_NORMAL, |
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| 189 | text='Delete phase') |
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| 190 | self.Bind(wx.EVT_MENU, self.OnDeletePhase, id=item.GetId()) |
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| 191 | item = parent.Append( |
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| 192 | help='',id=wx.ID_ANY, |
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| 193 | kind=wx.ITEM_NORMAL, |
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| 194 | text='Rename data') |
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| 195 | self.Bind(wx.EVT_MENU, self.OnRenameData, id=item.GetId()) |
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| 196 | item = parent.Append( |
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| 197 | help='',id=wx.ID_ANY, |
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| 198 | kind=wx.ITEM_NORMAL, |
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| 199 | text='Delete data') |
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| 200 | self.Bind(wx.EVT_MENU, self.OnDataDelete, id=item.GetId()) |
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| 201 | |
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| 202 | def _Add_CalculateMenuItems(self,parent): |
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| 203 | item = parent.Append(help='Make new PDFs from selected powder patterns', |
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| 204 | id=wx.ID_ANY, kind=wx.ITEM_NORMAL,text='Make new PDFs') |
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| 205 | self.MakePDF.append(item) |
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| 206 | # item.Enable(False) |
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| 207 | self.Bind(wx.EVT_MENU, self.OnMakePDFs, id=item.GetId()) |
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| 208 | |
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| 209 | item = parent.Append(help='View least squares parameters', |
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| 210 | id=wx.ID_ANY, kind=wx.ITEM_NORMAL,text='&View LS parms') |
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| 211 | self.Bind(wx.EVT_MENU, self.ShowLSParms, id=item.GetId()) |
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| 212 | |
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| 213 | item = parent.Append(help='', id=wx.ID_ANY, kind=wx.ITEM_NORMAL, |
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| 214 | text='&Refine') |
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| 215 | if len(self.Refine): # extend state for new menus to match main (on mac) |
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| 216 | state = self.Refine[0].IsEnabled() |
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| 217 | else: |
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| 218 | state = False |
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| 219 | item.Enable(state) |
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| 220 | self.Refine.append(item) |
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| 221 | self.Bind(wx.EVT_MENU, self.OnRefine, id=item.GetId()) |
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| 222 | |
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| 223 | item = parent.Append(help='', id=wx.ID_ANY, kind=wx.ITEM_NORMAL, |
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| 224 | text='Sequential refine') |
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| 225 | if len(self.SeqRefine): # extend state for new menus to match main (on mac) |
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| 226 | state = self.SeqRefine[0].IsEnabled() |
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| 227 | else: |
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| 228 | state = False |
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| 229 | item.Enable(state) |
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| 230 | self.SeqRefine.append(item) # save menu obj for use in self.EnableSeqRefineMenu |
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| 231 | self.Bind(wx.EVT_MENU, self.OnSeqRefine, id=item.GetId()) |
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| 232 | |
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| 233 | def _init_Imports(self): |
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| 234 | '''import all the G2phase*.py & G2sfact*.py & G2pwd*.py files that |
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| 235 | are found in the path |
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| 236 | ''' |
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| 237 | |
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| 238 | self.ImportPhaseReaderlist = [] |
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| 239 | self._init_Import_routines('phase',self.ImportPhaseReaderlist,'Phase') |
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| 240 | self.ImportSfactReaderlist = [] |
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| 241 | self._init_Import_routines('sfact',self.ImportSfactReaderlist,'Struct_Factor') |
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| 242 | self.ImportPowderReaderlist = [] |
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| 243 | self._init_Import_routines('pwd',self.ImportPowderReaderlist,'Powder_Data') |
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| 244 | self.ImportSmallAngleReaderlist = [] |
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| 245 | self._init_Import_routines('sad',self.ImportSmallAngleReaderlist,'SmallAngle_Data') |
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| 246 | self.ImportMenuId = {} |
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| 247 | |
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| 248 | def _init_Import_routines(self,prefix,readerlist,errprefix): |
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| 249 | '''import all the import readers matching the prefix |
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| 250 | ''' |
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| 251 | #path2GSAS2 = os.path.dirname(os.path.realpath(__file__)) # location of this file |
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| 252 | #pathlist = sys.path[:] |
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| 253 | #if path2GSAS2 not in pathlist: pathlist.append(path2GSAS2) |
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| 254 | #path2GSAS2 = os.path.join( |
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| 255 | # os.path.dirname(os.path.realpath(__file__)), # location of this file |
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| 256 | # 'imports') |
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| 257 | pathlist = sys.path[:] |
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| 258 | #if path2GSAS2 not in pathlist: pathlist.append(path2GSAS2) |
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| 259 | |
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| 260 | filelist = [] |
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| 261 | for path in pathlist: |
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| 262 | for filename in glob.iglob(os.path.join( |
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| 263 | path, |
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| 264 | "G2"+prefix+"*.py")): |
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| 265 | filelist.append(filename) |
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| 266 | #print 'debug: found',filename |
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| 267 | filelist = sorted(list(set(filelist))) # remove duplicates |
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| 268 | for filename in filelist: |
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| 269 | path,rootname = os.path.split(filename) |
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| 270 | pkg = os.path.splitext(rootname)[0] |
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| 271 | try: |
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| 272 | fp = None |
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| 273 | fp, fppath,desc = imp.find_module(pkg,[path,]) |
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| 274 | pkg = imp.load_module(pkg,fp,fppath,desc) |
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| 275 | for clss in inspect.getmembers(pkg): # find classes defined in package |
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| 276 | if clss[0].startswith('_'): continue |
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| 277 | if inspect.isclass(clss[1]): |
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| 278 | # check if we have the required methods |
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| 279 | for m in 'Reader','ExtensionValidator','ContentsValidator': |
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| 280 | if not hasattr(clss[1],m): break |
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| 281 | if not callable(getattr(clss[1],m)): break |
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| 282 | else: |
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| 283 | reader = clss[1]() # create an import instance |
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| 284 | readerlist.append(reader) |
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| 285 | except AttributeError: |
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| 286 | print 'Import_'+errprefix+': Attribute Error '+str(filename) |
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| 287 | pass |
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| 288 | except ImportError: |
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| 289 | print 'Import_'+errprefix+': Error importing file '+str(filename) |
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| 290 | pass |
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| 291 | if fp: fp.close() |
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| 292 | |
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| 293 | def EnableSeqRefineMenu(self): |
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| 294 | '''Enable or disable the sequential refinement menu items based on the |
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| 295 | contents of the Controls 'Seq Data' item (if present) |
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| 296 | ''' |
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| 297 | controls = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,self.root, 'Controls')) |
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| 298 | if controls.get('Seq Data'): |
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| 299 | for i in self.SeqRefine: i.Enable(True) |
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| 300 | else: |
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| 301 | for i in self.SeqRefine: i.Enable(False) |
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| 302 | |
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| 303 | def OnImportGeneric(self,reader,readerlist,label,multiple=False,usedRanIdList=[]): |
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| 304 | '''Used to import Phases, powder dataset or single |
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| 305 | crystal datasets (structure factor tables) using reader objects |
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| 306 | subclassed from :class:`GSASIIIO.ImportPhase`, :class:`GSASIIIO.ImportStructFactor` |
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| 307 | or :class:`GSASIIIO.ImportPowderData`. If a reader is specified, only |
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| 308 | that will be attempted, but if no reader is specified, every one |
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| 309 | that is potentially compatible (by file extension) will |
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| 310 | be tried on the selected file(s). |
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| 311 | |
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| 312 | :param readerobject reader: This will be a reference to |
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| 313 | a particular object to be used to read a file or None, |
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| 314 | if every appropriate reader should be used. |
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| 315 | |
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| 316 | :param list readerlist: a list of reader objects appropriate for |
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| 317 | the current read attempt. At present, this will be either |
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| 318 | self.ImportPhaseReaderlist, self.ImportSfactReaderlist or |
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| 319 | self.ImportPowderReaderlist (defined in _init_Imports from |
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| 320 | the files found in the path), but in theory this list could |
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| 321 | be tailored. Used only when reader is None. |
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| 322 | |
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| 323 | :param str label: string to place on the open file dialog: |
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| 324 | Open `label` input file |
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| 325 | |
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| 326 | :param bool multiple: True if multiple files can be selected |
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| 327 | in the file dialog. False is default. At present True is used |
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| 328 | only for reading of powder data. |
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| 329 | |
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| 330 | :param list usedRanIdList: an optional list of random Ids that |
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| 331 | have been used and should not be reused |
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| 332 | |
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| 333 | :returns: a list of reader objects (rd_list) that were able |
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| 334 | to read the specified file(s). This list may be empty. |
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| 335 | ''' |
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| 336 | self.lastimport = '' |
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| 337 | self.zipfile = None |
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| 338 | singlereader = True |
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| 339 | if reader is None: |
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| 340 | singlereader = False |
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| 341 | multiple = False |
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| 342 | #print "use all formats" |
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| 343 | choices = "any file (*.*)|*.*" |
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| 344 | choices += "|zip archive (.zip)|*.zip" |
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| 345 | extdict = {} |
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| 346 | # compile a list of allowed extensions |
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| 347 | for rd in readerlist: |
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| 348 | fmt = rd.formatName |
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| 349 | for extn in rd.extensionlist: |
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| 350 | if not extdict.get(extn): extdict[extn] = [] |
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| 351 | extdict[extn] += [fmt,] |
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| 352 | for extn in sorted(extdict.keys(),cmp=lambda x,y: cmp(x.lower(), y.lower())): |
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| 353 | fmt = '' |
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| 354 | for f in extdict[extn]: |
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| 355 | if fmt != "": fmt += ', ' |
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| 356 | fmt += f |
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| 357 | choices += "|" + fmt + " file (*" + extn + ")|*" + extn |
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| 358 | else: |
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| 359 | readerlist = [reader,] |
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| 360 | # compile a list of allowed extensions |
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| 361 | choices = reader.formatName + " file (" |
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| 362 | w = "" |
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| 363 | for extn in reader.extensionlist: |
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| 364 | if w != "": w += ";" |
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| 365 | w += "*" + extn |
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| 366 | choices += w + ")|" + w |
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| 367 | choices += "|zip archive (.zip)|*.zip" |
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| 368 | if not reader.strictExtension: |
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| 369 | choices += "|any file (*.*)|*.*" |
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| 370 | # get the file(s) |
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| 371 | if multiple: |
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| 372 | mode = style=wx.OPEN | wx.CHANGE_DIR | wx.MULTIPLE |
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| 373 | else: |
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| 374 | mode = style=wx.OPEN | wx.CHANGE_DIR |
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| 375 | dlg = wx.FileDialog(self, message="Choose "+label+" input file", |
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| 376 | defaultFile="",wildcard=choices, style=mode) |
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| 377 | if self.Tutorials: |
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| 378 | dlg.SetDirectory(os.path.join(GSASIIpath.path2GSAS2,'Exercises')) |
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| 379 | self.Tutorials = False |
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| 380 | try: |
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| 381 | if dlg.ShowModal() == wx.ID_OK: |
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| 382 | if multiple: |
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| 383 | filelist = dlg.GetPaths() |
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| 384 | if len(filelist) == 0: return [] |
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| 385 | else: |
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| 386 | filename = dlg.GetPath() |
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| 387 | filelist = [filename,] |
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| 388 | os.chdir(dlg.GetDirectory()) # to get Mac/Linux to change directory! |
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| 389 | else: # cancel was pressed |
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| 390 | return [] |
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| 391 | finally: |
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| 392 | dlg.Destroy() |
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| 393 | rd_list = [] |
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| 394 | filelist1 = [] |
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| 395 | for filename in filelist: |
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| 396 | # is this a zip file? |
|---|
| 397 | if os.path.splitext(filename)[1].lower() == '.zip': |
|---|
| 398 | extractedfiles = G2IO.ExtractFileFromZip( |
|---|
| 399 | filename,parent=self, |
|---|
| 400 | multipleselect=True) |
|---|
| 401 | if extractedfiles is None: continue # error or Cancel |
|---|
| 402 | if extractedfiles != filename: |
|---|
| 403 | self.zipfile = filename # save zip name |
|---|
| 404 | filelist1 += extractedfiles |
|---|
| 405 | continue |
|---|
| 406 | filelist1.append(filename) |
|---|
| 407 | filelist = filelist1 |
|---|
| 408 | for filename in filelist: |
|---|
| 409 | # is this a zip file? |
|---|
| 410 | if os.path.splitext(filename)[1].lower() == '.zip': |
|---|
| 411 | extractedfile = G2IO.ExtractFileFromZip(filename,parent=self) |
|---|
| 412 | if extractedfile is None: continue # error or Cancel |
|---|
| 413 | if extractedfile != filename: |
|---|
| 414 | filename,self.zipfile = extractedfile,filename # now use the file that was created |
|---|
| 415 | # set what formats are compatible with this file |
|---|
| 416 | primaryReaders = [] |
|---|
| 417 | secondaryReaders = [] |
|---|
| 418 | for rd in readerlist: |
|---|
| 419 | flag = rd.ExtensionValidator(filename) |
|---|
| 420 | if flag is None: |
|---|
| 421 | secondaryReaders.append(rd) |
|---|
| 422 | elif flag: |
|---|
| 423 | primaryReaders.append(rd) |
|---|
| 424 | if len(secondaryReaders) + len(primaryReaders) == 0: |
|---|
| 425 | self.ErrorDialog('No Format','No matching format for file '+filename) |
|---|
| 426 | return [] |
|---|
| 427 | |
|---|
| 428 | fp = None |
|---|
| 429 | msg = '' |
|---|
| 430 | try: |
|---|
| 431 | fp = open(filename,'Ur') |
|---|
| 432 | if len(filelist) == 1: |
|---|
| 433 | # confirm we have the right file |
|---|
| 434 | rdmsg = 'File '+str(filename)+' begins:\n\n' |
|---|
| 435 | for i in range(3): |
|---|
| 436 | rdmsg += fp.readline() |
|---|
| 437 | rdmsg += '\n\nDo you want to read this file?' |
|---|
| 438 | if not all([ord(c) < 128 and ord(c) != 0 for c in rdmsg]): # show only if ASCII |
|---|
| 439 | rdmsg = 'File '+str( |
|---|
| 440 | filename)+' is a binary file. Do you want to read this file?' |
|---|
| 441 | result = wx.ID_NO |
|---|
| 442 | # it would be better to use something that |
|---|
| 443 | # would resize better, but this will do for now |
|---|
| 444 | dlg = wx.MessageDialog( |
|---|
| 445 | self, rdmsg, |
|---|
| 446 | 'Is this the file you want?', |
|---|
| 447 | wx.YES_NO | wx.ICON_QUESTION, |
|---|
| 448 | ) |
|---|
| 449 | dlg.SetSize((700,300)) # does not resize on Mac |
|---|
| 450 | try: |
|---|
| 451 | result = dlg.ShowModal() |
|---|
| 452 | finally: |
|---|
| 453 | dlg.Destroy() |
|---|
| 454 | if result == wx.ID_NO: return [] |
|---|
| 455 | |
|---|
| 456 | self.lastimport = filename # this is probably not what I want to do -- it saves only the |
|---|
| 457 | # last name in a series. See rd.readfilename for a better name. |
|---|
| 458 | |
|---|
| 459 | # try the file first with Readers that specify the |
|---|
| 460 | # file's extension and later with ones that merely allow it |
|---|
| 461 | errorReport = '' |
|---|
| 462 | for rd in primaryReaders+secondaryReaders: |
|---|
| 463 | rd.ReInitialize() # purge anything from a previous read |
|---|
| 464 | fp.seek(0) # rewind |
|---|
| 465 | rd.errors = "" # clear out any old errors |
|---|
| 466 | if not rd.ContentsValidator(fp): # rejected on cursory check |
|---|
| 467 | errorReport += "\n "+rd.formatName + ' validator error' |
|---|
| 468 | if rd.errors: |
|---|
| 469 | errorReport += ': '+rd.errors |
|---|
| 470 | continue |
|---|
| 471 | repeat = True |
|---|
| 472 | rdbuffer = {} # create temporary storage for file reader |
|---|
| 473 | block = 0 |
|---|
| 474 | while repeat: # loop if the reader asks for another pass on the file |
|---|
| 475 | block += 1 |
|---|
| 476 | repeat = False |
|---|
| 477 | fp.seek(0) # rewind |
|---|
| 478 | rd.objname = os.path.basename(filename) |
|---|
| 479 | flag = False |
|---|
| 480 | try: |
|---|
| 481 | flag = rd.Reader(filename,fp,self, |
|---|
| 482 | buffer=rdbuffer, |
|---|
| 483 | blocknum=block, |
|---|
| 484 | usedRanIdList=usedRanIdList, |
|---|
| 485 | ) |
|---|
| 486 | except rd.ImportException as detail: |
|---|
| 487 | rd.errors += "\n Read exception: "+str(detail) |
|---|
| 488 | except Exception as detail: |
|---|
| 489 | import traceback |
|---|
| 490 | rd.errors += "\n Unhandled read exception: "+str(detail) |
|---|
| 491 | rd.errors += "\n Traceback info:\n"+str(traceback.format_exc()) |
|---|
| 492 | if flag: # this read succeeded |
|---|
| 493 | rd.readfilename = filename |
|---|
| 494 | rd_list.append(copy.deepcopy(rd)) # save the result before it is written over |
|---|
| 495 | if rd.repeat: |
|---|
| 496 | repeat = True |
|---|
| 497 | continue |
|---|
| 498 | errorReport += '\n'+rd.formatName + ' read error' |
|---|
| 499 | if rd.errors: |
|---|
| 500 | errorReport += ': '+rd.errors |
|---|
| 501 | if rd_list: # read succeeded, was there a warning or any errors? |
|---|
| 502 | if rd.warnings: |
|---|
| 503 | self.ErrorDialog('Read Warning','The '+ rd.formatName+ |
|---|
| 504 | ' reader reported a warning message:\n\n'+ |
|---|
| 505 | rd.warnings) |
|---|
| 506 | break # success in reading, try no further |
|---|
| 507 | else: |
|---|
| 508 | if singlereader: |
|---|
| 509 | self.ErrorDialog('Read Error','The '+ rd.formatName+ |
|---|
| 510 | ' reader was not able to read file '+filename+msg+ |
|---|
| 511 | '\n\nError message(s):\n'+errorReport |
|---|
| 512 | ) |
|---|
| 513 | else: |
|---|
| 514 | self.ErrorDialog('Read Error','No reader was able to read file '+filename+msg+ |
|---|
| 515 | '\n\nError messages:\n'+errorReport |
|---|
| 516 | ) |
|---|
| 517 | except: |
|---|
| 518 | import traceback |
|---|
| 519 | print traceback.format_exc() |
|---|
| 520 | self.ErrorDialog('Open Error','Unexpected error trying to open or read file '+filename) |
|---|
| 521 | if fp: fp.close() |
|---|
| 522 | return rd_list |
|---|
| 523 | |
|---|
| 524 | def _Add_ImportMenu_Phase(self,parent): |
|---|
| 525 | '''configure the Import Phase menus accord to the readers found in _init_Imports |
|---|
| 526 | ''' |
|---|
| 527 | submenu = wx.Menu() |
|---|
| 528 | item = parent.AppendMenu(wx.ID_ANY, 'Phase', |
|---|
| 529 | submenu, help='Import phase data') |
|---|
| 530 | for reader in self.ImportPhaseReaderlist: |
|---|
| 531 | item = submenu.Append(wx.ID_ANY,help=reader.longFormatName, |
|---|
| 532 | kind=wx.ITEM_NORMAL,text='from '+reader.formatName+' file') |
|---|
| 533 | self.ImportMenuId[item.GetId()] = reader |
|---|
| 534 | self.Bind(wx.EVT_MENU, self.OnImportPhase, id=item.GetId()) |
|---|
| 535 | item = submenu.Append(wx.ID_ANY, |
|---|
| 536 | help='Import phase data, use file to try to determine format', |
|---|
| 537 | kind=wx.ITEM_NORMAL, |
|---|
| 538 | text='guess format from file') |
|---|
| 539 | self.Bind(wx.EVT_MENU, self.OnImportPhase, id=item.GetId()) |
|---|
| 540 | |
|---|
| 541 | def OnImportPhase(self,event): |
|---|
| 542 | '''Called in response to an Import/Phase/... menu item |
|---|
| 543 | to read phase information. |
|---|
| 544 | dict self.ImportMenuId is used to look up the specific |
|---|
| 545 | reader item associated with the menu item, which will be |
|---|
| 546 | None for the last menu item, which is the "guess" option |
|---|
| 547 | where all appropriate formats will be tried. |
|---|
| 548 | ''' |
|---|
| 549 | # look up which format was requested |
|---|
| 550 | reqrdr = self.ImportMenuId.get(event.GetId()) |
|---|
| 551 | |
|---|
| 552 | # make a list of phase names, ranId's and the histograms used in those phases |
|---|
| 553 | phaseRIdList,usedHistograms = self.GetPhaseInfofromTree() |
|---|
| 554 | phaseNameList = usedHistograms.keys() # phase names in use |
|---|
| 555 | usedHKLFhists = [] # used single-crystal histograms |
|---|
| 556 | for p in usedHistograms: |
|---|
| 557 | for h in usedHistograms[p]: |
|---|
| 558 | if h.startswith('HKLF ') and h not in usedHKLFhists: |
|---|
| 559 | usedHKLFhists.append(h) |
|---|
| 560 | rdlist = self.OnImportGeneric(reqrdr, |
|---|
| 561 | self.ImportPhaseReaderlist, |
|---|
| 562 | 'phase',usedRanIdList=phaseRIdList) |
|---|
| 563 | if len(rdlist) == 0: return |
|---|
| 564 | # for now rdlist is only expected to have one element |
|---|
| 565 | # but below will allow multiple phases to be imported |
|---|
| 566 | # if ever the import routines ever implement multiple phase reads. |
|---|
| 567 | self.CheckNotebook() |
|---|
| 568 | newPhaseList = [] |
|---|
| 569 | for rd in rdlist: |
|---|
| 570 | PhaseName = '' |
|---|
| 571 | dlg = wx.TextEntryDialog( # allow editing of phase name |
|---|
| 572 | self, 'Enter the name for the new phase', |
|---|
| 573 | 'Edit phase name', rd.Phase['General']['Name'], |
|---|
| 574 | style=wx.OK) |
|---|
| 575 | while PhaseName == '': |
|---|
| 576 | dlg.CenterOnParent() |
|---|
| 577 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 578 | PhaseName = dlg.GetValue().strip() |
|---|
| 579 | else: |
|---|
| 580 | dlg.Destroy() |
|---|
| 581 | return |
|---|
| 582 | dlg.Destroy() |
|---|
| 583 | # make new phase names unique |
|---|
| 584 | rd.Phase['General']['Name'] = G2obj.MakeUniqueLabel(PhaseName,phaseNameList) |
|---|
| 585 | PhaseName = rd.Phase['General']['Name'][:] |
|---|
| 586 | newPhaseList.append(PhaseName) |
|---|
| 587 | print 'Read phase '+str(PhaseName)+' from file '+str(self.lastimport) |
|---|
| 588 | if not G2gd.GetPatternTreeItemId(self,self.root,'Phases'): |
|---|
| 589 | sub = self.PatternTree.AppendItem(parent=self.root,text='Phases') |
|---|
| 590 | else: |
|---|
| 591 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 592 | psub = self.PatternTree.AppendItem(parent=sub,text=PhaseName) |
|---|
| 593 | self.PatternTree.SetItemPyData(psub,rd.Phase) |
|---|
| 594 | self.PatternTree.Expand(self.root) # make sure phases are seen |
|---|
| 595 | self.PatternTree.Expand(sub) |
|---|
| 596 | self.PatternTree.Expand(psub) |
|---|
| 597 | self.PatternTree.SelectItem(psub) # show the page to complete the initialization (yuk!) |
|---|
| 598 | wx.Yield() # make sure call of GSASII.OnPatternTreeSelChanged happens before we go on |
|---|
| 599 | |
|---|
| 600 | if rd.Constraints: |
|---|
| 601 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Constraints') # was created in CheckNotebook if needed |
|---|
| 602 | Constraints = self.PatternTree.GetItemPyData(sub) |
|---|
| 603 | # TODO: make sure that NEWVAR names are unique here? |
|---|
| 604 | for i in rd.Constraints: |
|---|
| 605 | if type(i) is dict: |
|---|
| 606 | #for j in i: print j,' --> ',i[j] |
|---|
| 607 | if '_Explain' not in Constraints: Constraints['_Explain'] = {} |
|---|
| 608 | Constraints['_Explain'].update(i) |
|---|
| 609 | continue |
|---|
| 610 | Constraints['Phase'].append(i) |
|---|
| 611 | if not newPhaseList: return # somehow, no new phases |
|---|
| 612 | # get a list of existing histograms |
|---|
| 613 | PWDRlist = [] |
|---|
| 614 | HKLFlist = [] |
|---|
| 615 | if self.PatternTree.GetCount(): |
|---|
| 616 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 617 | while item: |
|---|
| 618 | name = self.PatternTree.GetItemText(item) |
|---|
| 619 | if name.startswith('PWDR ') and name not in PWDRlist: |
|---|
| 620 | PWDRlist.append(name) |
|---|
| 621 | if name.startswith('HKLF ') and name not in HKLFlist: |
|---|
| 622 | HKLFlist.append(name) |
|---|
| 623 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 624 | TextList = PWDRlist + HKLFlist |
|---|
| 625 | if not len(TextList): return # no data loaded yet |
|---|
| 626 | header = 'Select histogram(s) to add to new phase(s):' |
|---|
| 627 | for phaseName in newPhaseList: |
|---|
| 628 | header += '\n '+str(phaseName) |
|---|
| 629 | |
|---|
| 630 | notOK = True |
|---|
| 631 | while notOK: |
|---|
| 632 | result = G2gd.ItemSelector(TextList,self,header,header='Add histogram(s)',multiple=True) |
|---|
| 633 | if not result: return |
|---|
| 634 | # check that selected single crystal histograms are not already in use! |
|---|
| 635 | used = [TextList[i] for i in result if TextList[i] in usedHKLFhists] |
|---|
| 636 | #for i in result: |
|---|
| 637 | # if TextList[i] in usedHKLFhists: used.append(TextList[i]) |
|---|
| 638 | if used: |
|---|
| 639 | msg = 'The following single crystal histogram(s) are already in use' |
|---|
| 640 | for i in used: |
|---|
| 641 | msg += '\n '+str(i) |
|---|
| 642 | msg += '\nAre you sure you want to add them to this phase? ' |
|---|
| 643 | msg += 'Associating a single crystal dataset to >1 histogram is usually an error, ' |
|---|
| 644 | msg += 'so No is suggested here.' |
|---|
| 645 | if self.ErrorDialog('Likely error',msg,self,wtype=wx.YES_NO) == wx.ID_YES: notOK = False |
|---|
| 646 | else: |
|---|
| 647 | notOK = False |
|---|
| 648 | # connect new phases to histograms |
|---|
| 649 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 650 | if not sub: |
|---|
| 651 | raise Exception('ERROR -- why are there no phases here?') |
|---|
| 652 | wx.BeginBusyCursor() |
|---|
| 653 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 654 | while item: # loop over (new) phases |
|---|
| 655 | phaseName = self.PatternTree.GetItemText(item) |
|---|
| 656 | data = self.PatternTree.GetItemPyData(item) |
|---|
| 657 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 658 | if phaseName not in newPhaseList: continue |
|---|
| 659 | generalData = data['General'] |
|---|
| 660 | SGData = generalData['SGData'] |
|---|
| 661 | Super = generalData.get('Super',0) |
|---|
| 662 | SuperVec = [] |
|---|
| 663 | if Super: |
|---|
| 664 | SuperVec = np.array(generalData['SuperVec'][0]) |
|---|
| 665 | UseList = data['Histograms'] |
|---|
| 666 | NShkl = len(G2spc.MustrainNames(SGData)) |
|---|
| 667 | NDij = len(G2spc.HStrainNames(SGData)) |
|---|
| 668 | for i in result: |
|---|
| 669 | histoName = TextList[i] |
|---|
| 670 | if histoName in HKLFlist: |
|---|
| 671 | #redo UpdateHKLFdata(histoName) here: |
|---|
| 672 | Id = G2gd.GetPatternTreeItemId(self,self.root,histoName) |
|---|
| 673 | refDict,reflData = self.PatternTree.GetItemPyData(Id) |
|---|
| 674 | G,g = G2lat.cell2Gmat(generalData['Cell'][1:7]) |
|---|
| 675 | Super = reflData.get('Super',0) |
|---|
| 676 | for iref,ref in enumerate(reflData['RefList']): |
|---|
| 677 | hkl = ref[:3] |
|---|
| 678 | if Super: |
|---|
| 679 | H = list(hkl+SuperVec*ref[3]) |
|---|
| 680 | else: |
|---|
| 681 | H = hkl |
|---|
| 682 | ref[4+Super] = np.sqrt(1./G2lat.calc_rDsq2(H,G)) |
|---|
| 683 | iabsnt,ref[3+Super],Uniq,phi = G2spc.GenHKLf(H,SGData) |
|---|
| 684 | UseList[histoName] = SetDefaultDData(reflData['Type'],histoName) |
|---|
| 685 | elif histoName in PWDRlist: |
|---|
| 686 | Id = G2gd.GetPatternTreeItemId(self,self.root,histoName) |
|---|
| 687 | refList = self.PatternTree.GetItemPyData( |
|---|
| 688 | G2gd.GetPatternTreeItemId(self,Id,'Reflection Lists')) |
|---|
| 689 | refList[generalData['Name']] = [] |
|---|
| 690 | UseList[histoName] = SetDefaultDData('PWDR',histoName,NShkl=NShkl,NDij=NDij) |
|---|
| 691 | else: |
|---|
| 692 | raise Exception('Unexpected histogram '+str(histoName)) |
|---|
| 693 | wx.EndBusyCursor() |
|---|
| 694 | return # success |
|---|
| 695 | |
|---|
| 696 | def _Add_ImportMenu_Sfact(self,parent): |
|---|
| 697 | '''configure the Import Structure Factor menus accord to the readers found in _init_Imports |
|---|
| 698 | ''' |
|---|
| 699 | submenu = wx.Menu() |
|---|
| 700 | item = parent.AppendMenu(wx.ID_ANY, 'Structure Factor', |
|---|
| 701 | submenu, help='Import Structure Factor data') |
|---|
| 702 | for reader in self.ImportSfactReaderlist: |
|---|
| 703 | item = submenu.Append(wx.ID_ANY,help=reader.longFormatName, |
|---|
| 704 | kind=wx.ITEM_NORMAL,text='from '+reader.formatName+' file') |
|---|
| 705 | self.ImportMenuId[item.GetId()] = reader |
|---|
| 706 | self.Bind(wx.EVT_MENU, self.OnImportSfact, id=item.GetId()) |
|---|
| 707 | item = submenu.Append(wx.ID_ANY, |
|---|
| 708 | help='Import Structure Factor, use file to try to determine format', |
|---|
| 709 | kind=wx.ITEM_NORMAL, |
|---|
| 710 | text='guess format from file') |
|---|
| 711 | self.Bind(wx.EVT_MENU, self.OnImportSfact, id=item.GetId()) |
|---|
| 712 | |
|---|
| 713 | def OnImportSfact(self,event): |
|---|
| 714 | '''Called in response to an Import/Structure Factor/... menu item |
|---|
| 715 | to read single crystal datasets. |
|---|
| 716 | dict self.ImportMenuId is used to look up the specific |
|---|
| 717 | reader item associated with the menu item, which will be |
|---|
| 718 | None for the last menu item, which is the "guess" option |
|---|
| 719 | where all appropriate formats will be tried. |
|---|
| 720 | ''' |
|---|
| 721 | # get a list of existing histograms |
|---|
| 722 | HKLFlist = [] |
|---|
| 723 | if self.PatternTree.GetCount(): |
|---|
| 724 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 725 | while item: |
|---|
| 726 | name = self.PatternTree.GetItemText(item) |
|---|
| 727 | if name.startswith('HKLF ') and name not in HKLFlist: |
|---|
| 728 | HKLFlist.append(name) |
|---|
| 729 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 730 | # look up which format was requested |
|---|
| 731 | reqrdr = self.ImportMenuId.get(event.GetId()) |
|---|
| 732 | rdlist = self.OnImportGeneric(reqrdr,self.ImportSfactReaderlist, |
|---|
| 733 | 'Structure Factor',multiple=True) |
|---|
| 734 | if len(rdlist) == 0: return |
|---|
| 735 | self.CheckNotebook() |
|---|
| 736 | newHistList = [] |
|---|
| 737 | for rd in rdlist: |
|---|
| 738 | HistName = rd.objname |
|---|
| 739 | if len(rdlist) <= 2: |
|---|
| 740 | dlg = wx.TextEntryDialog( # allow editing of Structure Factor name |
|---|
| 741 | self, 'Enter the name for the new Structure Factor', |
|---|
| 742 | 'Edit Structure Factor name', HistName, |
|---|
| 743 | style=wx.OK) |
|---|
| 744 | dlg.CenterOnParent() |
|---|
| 745 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 746 | HistName = dlg.GetValue() |
|---|
| 747 | dlg.Destroy() |
|---|
| 748 | HistName = 'HKLF '+HistName |
|---|
| 749 | # make new histogram names unique |
|---|
| 750 | if len(rd.Banks): |
|---|
| 751 | for Bank in rd.Banks: |
|---|
| 752 | valuesdict = {'wtFactor':1.0,'Dummy':False,'ranId':ran.randint(0,sys.maxint),} |
|---|
| 753 | HistName = G2obj.MakeUniqueLabel(HistName,HKLFlist) |
|---|
| 754 | print 'Read structure factor table '+str(HistName)+' from file '+str(self.lastimport) |
|---|
| 755 | Id = self.PatternTree.AppendItem(parent=self.root,text=HistName) |
|---|
| 756 | if not Bank['RefDict'].get('FF'): |
|---|
| 757 | Bank['RefDict']['FF'] = [{} for i in range(len(Bank['RefDict']['RefList']))] |
|---|
| 758 | self.PatternTree.SetItemPyData(Id,[valuesdict,Bank['RefDict']]) |
|---|
| 759 | Sub = self.PatternTree.AppendItem(Id,text='Instrument Parameters') |
|---|
| 760 | self.PatternTree.SetItemPyData(Sub,copy.copy(rd.Parameters)) |
|---|
| 761 | self.PatternTree.SetItemPyData( |
|---|
| 762 | self.PatternTree.AppendItem(Id,text='Reflection List'),[]) #dummy entry for GUI use |
|---|
| 763 | newHistList.append(HistName) |
|---|
| 764 | else: |
|---|
| 765 | valuesdict = {'wtFactor':1.0,'Dummy':False,'ranId':ran.randint(0,sys.maxint),} |
|---|
| 766 | HistName = G2obj.MakeUniqueLabel(HistName,HKLFlist) |
|---|
| 767 | print 'Read structure factor table '+str(HistName)+' from file '+str(self.lastimport) |
|---|
| 768 | if not rd.RefDict.get('FF'): |
|---|
| 769 | rd.RefDict['FF'] = [{} for i in range(len(rd.RefDict['RefList']))] |
|---|
| 770 | Id = self.PatternTree.AppendItem(parent=self.root,text=HistName) |
|---|
| 771 | self.PatternTree.SetItemPyData(Id,[valuesdict,rd.RefDict]) |
|---|
| 772 | Sub = self.PatternTree.AppendItem(Id,text='Instrument Parameters') |
|---|
| 773 | self.PatternTree.SetItemPyData(Sub,rd.Parameters) |
|---|
| 774 | self.PatternTree.SetItemPyData( |
|---|
| 775 | self.PatternTree.AppendItem(Id,text='Reflection List'),[]) #dummy entry for GUI use |
|---|
| 776 | newHistList.append(HistName) |
|---|
| 777 | |
|---|
| 778 | self.PatternTree.SelectItem(Id) |
|---|
| 779 | self.PatternTree.Expand(Id) |
|---|
| 780 | self.Sngl = True |
|---|
| 781 | |
|---|
| 782 | if not newHistList: return # somehow, no new histograms |
|---|
| 783 | # make a list of phase names |
|---|
| 784 | phaseRIdList,usedHistograms = self.GetPhaseInfofromTree() |
|---|
| 785 | phaseNameList = usedHistograms.keys() # phase names in use |
|---|
| 786 | if not phaseNameList: return # no phases yet, nothing to do |
|---|
| 787 | header = 'Select phase(s) to add the new\nsingle crystal dataset(s) to:' |
|---|
| 788 | for Name in newHistList: |
|---|
| 789 | header += '\n '+str(Name) |
|---|
| 790 | result = G2gd.ItemSelector(phaseNameList,self,header,header='Add to phase(s)',multiple=True) |
|---|
| 791 | if not result: return |
|---|
| 792 | # connect new phases to histograms |
|---|
| 793 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 794 | if not sub: |
|---|
| 795 | raise Exception('ERROR -- why are there no phases here?') |
|---|
| 796 | wx.BeginBusyCursor() |
|---|
| 797 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 798 | iph = -1 |
|---|
| 799 | while item: # loop over (new) phases |
|---|
| 800 | iph += 1 |
|---|
| 801 | phaseName = self.PatternTree.GetItemText(item) |
|---|
| 802 | data = self.PatternTree.GetItemPyData(item) |
|---|
| 803 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 804 | if iph not in result: continue |
|---|
| 805 | generalData = data['General'] |
|---|
| 806 | SGData = generalData['SGData'] |
|---|
| 807 | Super = generalData.get('Super',0) |
|---|
| 808 | SuperVec = [] |
|---|
| 809 | if Super: |
|---|
| 810 | SuperVec = np.array(generalData['SuperVec'][0]) |
|---|
| 811 | UseList = data['Histograms'] |
|---|
| 812 | for histoName in newHistList: |
|---|
| 813 | #redo UpdateHKLFdata(histoName) here: |
|---|
| 814 | Id = G2gd.GetPatternTreeItemId(self,self.root,histoName) |
|---|
| 815 | refDict,reflData = self.PatternTree.GetItemPyData(Id) |
|---|
| 816 | UseList[histoName] = SetDefaultDData(reflData['Type'],histoName) |
|---|
| 817 | G,g = G2lat.cell2Gmat(generalData['Cell'][1:7]) |
|---|
| 818 | for iref,ref in enumerate(reflData['RefList']): |
|---|
| 819 | hkl = ref[:3] |
|---|
| 820 | if Super: |
|---|
| 821 | H = list(hkl+SuperVec*ref[3]) |
|---|
| 822 | else: |
|---|
| 823 | H = hkl |
|---|
| 824 | ref[4+Super] = np.sqrt(1./G2lat.calc_rDsq2(H,G)) |
|---|
| 825 | iabsnt,ref[3+Super],Uniq,phi = G2spc.GenHKLf(H,SGData) |
|---|
| 826 | wx.EndBusyCursor() |
|---|
| 827 | |
|---|
| 828 | return # success |
|---|
| 829 | |
|---|
| 830 | def _Add_ImportMenu_powder(self,parent): |
|---|
| 831 | '''configure the Powder Data menus accord to the readers found in _init_Imports |
|---|
| 832 | ''' |
|---|
| 833 | submenu = wx.Menu() |
|---|
| 834 | item = parent.AppendMenu(wx.ID_ANY, 'Powder Data', |
|---|
| 835 | submenu, help='Import Powder data') |
|---|
| 836 | for reader in self.ImportPowderReaderlist: |
|---|
| 837 | item = submenu.Append(wx.ID_ANY,help=reader.longFormatName, |
|---|
| 838 | kind=wx.ITEM_NORMAL,text='from '+reader.formatName+' file') |
|---|
| 839 | self.ImportMenuId[item.GetId()] = reader |
|---|
| 840 | self.Bind(wx.EVT_MENU, self.OnImportPowder, id=item.GetId()) |
|---|
| 841 | item = submenu.Append(wx.ID_ANY, |
|---|
| 842 | help='Import powder data, use file to try to determine format', |
|---|
| 843 | kind=wx.ITEM_NORMAL,text='guess format from file') |
|---|
| 844 | self.Bind(wx.EVT_MENU, self.OnImportPowder, id=item.GetId()) |
|---|
| 845 | submenu.AppendSeparator() |
|---|
| 846 | item = submenu.Append(wx.ID_ANY, |
|---|
| 847 | help='Create a powder data set entry that will be simulated', |
|---|
| 848 | kind=wx.ITEM_NORMAL,text='Simulate a dataset') |
|---|
| 849 | self.Bind(wx.EVT_MENU, self.OnDummyPowder, id=item.GetId()) |
|---|
| 850 | |
|---|
| 851 | def OpenPowderInstprm(self,instfile): |
|---|
| 852 | '''Read a GSAS-II (new) instrument parameter file |
|---|
| 853 | |
|---|
| 854 | :param str instfile: name of instrument parameter file |
|---|
| 855 | |
|---|
| 856 | ''' |
|---|
| 857 | if os.path.splitext(instfile)[1].lower() != '.instprm': # invalid file |
|---|
| 858 | return None |
|---|
| 859 | if not os.path.exists(instfile): # no such file |
|---|
| 860 | return None |
|---|
| 861 | File = open(instfile,'r') |
|---|
| 862 | lines = File.readlines() |
|---|
| 863 | File.close() |
|---|
| 864 | return lines |
|---|
| 865 | |
|---|
| 866 | def ReadPowderInstprm(self,instLines): |
|---|
| 867 | '''Read lines from a GSAS-II (new) instrument parameter file |
|---|
| 868 | |
|---|
| 869 | :param list instLines: strings from GSAS-II parameter file; can be concatenated with ';' |
|---|
| 870 | |
|---|
| 871 | ''' |
|---|
| 872 | if not instLines[0].startswith('#GSAS-II'): # not a valid file |
|---|
| 873 | return None |
|---|
| 874 | newItems = [] |
|---|
| 875 | newVals = [] |
|---|
| 876 | for S in instLines: |
|---|
| 877 | if S[0] == '#': |
|---|
| 878 | continue |
|---|
| 879 | S = S.replace(' ','') |
|---|
| 880 | SS = S[:-1].split(';') |
|---|
| 881 | for s in SS: |
|---|
| 882 | [item,val] = s.split(':') |
|---|
| 883 | newItems.append(item) |
|---|
| 884 | try: |
|---|
| 885 | newVals.append(float(val)) |
|---|
| 886 | except ValueError: |
|---|
| 887 | newVals.append(val) |
|---|
| 888 | return G2IO.makeInstDict(newItems,newVals,len(newVals)*[False,]),{} |
|---|
| 889 | |
|---|
| 890 | def ReadPowderIparm(self,instfile,bank,databanks,rd): |
|---|
| 891 | '''Read a GSAS (old) instrument parameter file |
|---|
| 892 | |
|---|
| 893 | :param str instfile: name of instrument parameter file |
|---|
| 894 | |
|---|
| 895 | :param int bank: the bank number read in the raw data file |
|---|
| 896 | |
|---|
| 897 | :param int databanks: the number of banks in the raw data file. |
|---|
| 898 | If the number of banks in the data and instrument parameter files |
|---|
| 899 | agree, then the sets of banks are assumed to match up and bank |
|---|
| 900 | is used to select the instrument parameter file. If not, the user |
|---|
| 901 | is asked to make a selection. |
|---|
| 902 | |
|---|
| 903 | :param obj rd: the raw data (histogram) data object. This |
|---|
| 904 | sets rd.instbank. |
|---|
| 905 | |
|---|
| 906 | ''' |
|---|
| 907 | if not os.path.exists(instfile): # no such file |
|---|
| 908 | return {} |
|---|
| 909 | fp = 0 |
|---|
| 910 | try: |
|---|
| 911 | fp = open(instfile,'Ur') |
|---|
| 912 | Iparm = {} |
|---|
| 913 | for S in fp: |
|---|
| 914 | if '#' in S[0]: |
|---|
| 915 | continue |
|---|
| 916 | Iparm[S[:12]] = S[12:-1] |
|---|
| 917 | except IOError: |
|---|
| 918 | print('Error reading file:'+str(instfile)) |
|---|
| 919 | if fp: |
|---|
| 920 | fp.close() |
|---|
| 921 | |
|---|
| 922 | ibanks = int(Iparm.get('INS BANK ','1').strip()) |
|---|
| 923 | hType = Iparm['INS HTYPE '].strip() |
|---|
| 924 | if ibanks == 1: # there is only one bank here, return it |
|---|
| 925 | rd.instbank = 1 |
|---|
| 926 | return Iparm |
|---|
| 927 | if 'PNT' in hType: |
|---|
| 928 | rd.instbank = bank |
|---|
| 929 | elif ibanks != databanks: |
|---|
| 930 | # number of banks in data and prm file not not agree, need a |
|---|
| 931 | # choice from a human here |
|---|
| 932 | choices = [] |
|---|
| 933 | for i in range(1,1+ibanks): |
|---|
| 934 | choices.append('Bank '+str(i)) |
|---|
| 935 | bank = rd.BlockSelector( |
|---|
| 936 | choices, self, |
|---|
| 937 | title='Select an instrument parameter bank for '+ |
|---|
| 938 | os.path.split(rd.powderentry[0])[1]+' BANK '+str(bank)+ |
|---|
| 939 | '\nOr use Cancel to select from the default parameter sets', |
|---|
| 940 | header='Block Selector') |
|---|
| 941 | if bank is None: return {} |
|---|
| 942 | # pull out requested bank # bank from the data, and change the bank to 1 |
|---|
| 943 | IparmS = {} |
|---|
| 944 | for key in Iparm: |
|---|
| 945 | if key[4:6] == " ": |
|---|
| 946 | IparmS[key] = Iparm[key] |
|---|
| 947 | elif int(key[4:6].strip()) == bank: |
|---|
| 948 | IparmS[key[:4]+' 1'+key[6:]] = Iparm[key] |
|---|
| 949 | rd.instbank = bank |
|---|
| 950 | return IparmS |
|---|
| 951 | |
|---|
| 952 | def GetPowderIparm(self,rd, prevIparm, lastIparmfile, lastdatafile): |
|---|
| 953 | '''Open and read an instrument parameter file for a data file |
|---|
| 954 | Returns the list of parameters used in the data tree |
|---|
| 955 | |
|---|
| 956 | :param obj rd: the raw data (histogram) data object. |
|---|
| 957 | |
|---|
| 958 | :param str prevIparm: not used |
|---|
| 959 | |
|---|
| 960 | :param str lastIparmfile: Name of last instrument parameter |
|---|
| 961 | file that was read, or a empty string. |
|---|
| 962 | |
|---|
| 963 | :param str lastdatafile: Name of last data file that was read. |
|---|
| 964 | |
|---|
| 965 | :returns: a list of two dicts, the first containing instrument parameters |
|---|
| 966 | and the second used for TOf lookup tables for profile coeff. |
|---|
| 967 | |
|---|
| 968 | ''' |
|---|
| 969 | def SetPowderInstParms(Iparm, rd): |
|---|
| 970 | '''extracts values from instrument parameters in rd.instdict |
|---|
| 971 | or in array Iparm. |
|---|
| 972 | Create and return the contents of the instrument parameter tree entry. |
|---|
| 973 | ''' |
|---|
| 974 | DataType = Iparm['INS HTYPE '].strip()[:3] # take 1st 3 chars |
|---|
| 975 | # override inst values with values read from data file |
|---|
| 976 | if rd.instdict.get('type'): |
|---|
| 977 | DataType = rd.instdict.get('type') |
|---|
| 978 | data = [DataType,] |
|---|
| 979 | instname = Iparm.get('INS 1INAME ') |
|---|
| 980 | if instname: |
|---|
| 981 | rd.Sample['InstrName'] = instname.strip() |
|---|
| 982 | if 'C' in DataType: |
|---|
| 983 | wave1 = None |
|---|
| 984 | wave2 = 0.0 |
|---|
| 985 | if rd.instdict.get('wave'): |
|---|
| 986 | wl = rd.instdict.get('wave') |
|---|
| 987 | wave1 = wl[0] |
|---|
| 988 | if len(wl) > 1: wave2 = wl[1] |
|---|
| 989 | s = Iparm['INS 1 ICONS'] |
|---|
| 990 | if not wave1: |
|---|
| 991 | wave1 = G2IO.sfloat(s[:10]) |
|---|
| 992 | wave2 = G2IO.sfloat(s[10:20]) |
|---|
| 993 | v = (wave1,wave2, |
|---|
| 994 | G2IO.sfloat(s[20:30]),G2IO.sfloat(s[55:65]),G2IO.sfloat(s[40:50])) #get lam1, lam2, zero, pola & ratio |
|---|
| 995 | if not v[1]: |
|---|
| 996 | names = ['Type','Lam','Zero','Polariz.','U','V','W','X','Y','SH/L','Azimuth'] |
|---|
| 997 | v = (v[0],v[2],v[4]) |
|---|
| 998 | codes = [0,0,0,0] |
|---|
| 999 | else: |
|---|
| 1000 | names = ['Type','Lam1','Lam2','Zero','I(L2)/I(L1)','Polariz.','U','V','W','X','Y','SH/L','Azimuth'] |
|---|
| 1001 | codes = [0,0,0,0,0,0] |
|---|
| 1002 | data.extend(v) |
|---|
| 1003 | if 'INS 1PRCF ' in Iparm: |
|---|
| 1004 | v1 = Iparm['INS 1PRCF '].split() |
|---|
| 1005 | v = Iparm['INS 1PRCF 1'].split() |
|---|
| 1006 | data.extend([float(v[0]),float(v[1]),float(v[2])]) #get GU, GV & GW - always here |
|---|
| 1007 | azm = float(Iparm.get('INS 1DETAZM','0.0')) |
|---|
| 1008 | v = Iparm['INS 1PRCF 2'].split() |
|---|
| 1009 | if v1[0] == 3: |
|---|
| 1010 | data.extend([float(v[0]),float(v[1]),float(v[2])+float(v[3],azm)]) #get LX, LY, S+H/L & azimuth |
|---|
| 1011 | else: |
|---|
| 1012 | data.extend([0.0,0.0,0.002,azm]) #OK defaults if fxn #3 not 1st in iprm file |
|---|
| 1013 | else: |
|---|
| 1014 | v1 = Iparm['INS 1PRCF1 '].split() |
|---|
| 1015 | v = Iparm['INS 1PRCF11'].split() |
|---|
| 1016 | data.extend([float(v[0]),float(v[1]),float(v[2])]) #get GU, GV & GW - always here |
|---|
| 1017 | azm = float(Iparm.get('INS 1DETAZM','0.0')) |
|---|
| 1018 | v = Iparm['INS 1PRCF12'].split() |
|---|
| 1019 | if v1[0] == 3: |
|---|
| 1020 | data.extend([float(v[0]),float(v[1]),float(v[2])+float(v[3],azm)]) #get LX, LY, S+H/L & azimuth |
|---|
| 1021 | else: |
|---|
| 1022 | data.extend([0.0,0.0,0.002,azm]) #OK defaults if fxn #3 not 1st in iprm file |
|---|
| 1023 | codes.extend([0,0,0,0,0,0,0]) |
|---|
| 1024 | return [G2IO.makeInstDict(names,data,codes),{}] |
|---|
| 1025 | elif 'T' in DataType: |
|---|
| 1026 | names = ['Type','fltPath','2-theta','difC','difA', 'difB','Zero','alpha','beta-0','beta-1', |
|---|
| 1027 | 'beta-q','sig-0','sig-1','sig-2','sig-q', 'X','Y','Azimuth',] |
|---|
| 1028 | codes = [0,0,0,0,0, 0,0,0,0,0, 0,0,0,0,0, 0,0,0,] |
|---|
| 1029 | azm = 0. |
|---|
| 1030 | if 'INS 1DETAZM' in Iparm: |
|---|
| 1031 | azm = float(Iparm['INS 1DETAZM']) |
|---|
| 1032 | s = Iparm['INS FPATH1'].split() |
|---|
| 1033 | fltPath0 = G2IO.sfloat(s[0]) |
|---|
| 1034 | s = Iparm['INS 1BNKPAR'].split() |
|---|
| 1035 | fltPath1 = G2IO.sfloat(s[0]) |
|---|
| 1036 | data.extend([fltPath0+fltPath1,]) #Flight path source-sample-detector |
|---|
| 1037 | data.extend([G2IO.sfloat(s[1]),]) #2-theta for bank |
|---|
| 1038 | s = Iparm['INS 1 ICONS'].split() |
|---|
| 1039 | data.extend([G2IO.sfloat(s[0]),G2IO.sfloat(s[1]),0.0,G2IO.sfloat(s[2])]) #difC,difA,difB,Zero |
|---|
| 1040 | if 'INS 1PRCF ' in Iparm: |
|---|
| 1041 | s = Iparm['INS 1PRCF '].split() |
|---|
| 1042 | pfType = int(s[0]) |
|---|
| 1043 | s = Iparm['INS 1PRCF 1'].split() |
|---|
| 1044 | if abs(pfType) == 1: |
|---|
| 1045 | data.extend([G2IO.sfloat(s[1]),G2IO.sfloat(s[2]),G2IO.sfloat(s[3])]) #alpha, beta-0, beta-1 |
|---|
| 1046 | s = Iparm['INS 1PRCF 2'].split() |
|---|
| 1047 | data.extend([0.0,0.0,G2IO.sfloat(s[1]),G2IO.sfloat(s[2]),0.0,0.0,0.0,azm]) #beta-q, sig-0, sig-1, sig-2, sig-q, X, Y |
|---|
| 1048 | elif abs(pfType) in [3,4,5]: |
|---|
| 1049 | data.extend([G2IO.sfloat(s[0]),G2IO.sfloat(s[1]),G2IO.sfloat(s[2])]) #alpha, beta-0, beta-1 |
|---|
| 1050 | if abs(pfType) == 4: |
|---|
| 1051 | data.extend([0.0,0.0,G2IO.sfloat(s[3]),0.0,0.0,0.0,0.0,azm]) #beta-q, sig-0, sig-1, sig-2, sig-q, X, Y |
|---|
| 1052 | else: |
|---|
| 1053 | s = Iparm['INS 1PRCF 2'].split() |
|---|
| 1054 | data.extend([0.0,0.0,G2IO.sfloat(s[0]),G2IO.sfloat(s[1]),0.0,0.0,0.0,azm]) #beta-q, sig-0, sig-1, sig-2, sig-q, X, Y |
|---|
| 1055 | else: |
|---|
| 1056 | s = Iparm['INS 1PRCF1 '].split() |
|---|
| 1057 | pfType = int(s[0]) |
|---|
| 1058 | s = Iparm['INS 1PRCF11'].split() |
|---|
| 1059 | if abs(pfType) == 1: |
|---|
| 1060 | data.extend([G2IO.sfloat(s[1]),G2IO.sfloat(s[2]),G2IO.sfloat(s[3])]) #alpha, beta-0, beta-1 |
|---|
| 1061 | s = Iparm['INS 1PRCF12'].split() |
|---|
| 1062 | data.extend([0.0,0.0,G2IO.sfloat(s[1]),G2IO.sfloat(s[2]),0.0,0.0,0.0,azm]) #beta-q, sig-0, sig-1, sig-2, sig-q, X, Y |
|---|
| 1063 | elif abs(pfType) in [3,4,5]: |
|---|
| 1064 | data.extend([G2IO.sfloat(s[0]),G2IO.sfloat(s[1]),G2IO.sfloat(s[2])]) #alpha, beta-0, beta-1 |
|---|
| 1065 | if abs(pfType) == 4: |
|---|
| 1066 | data.extend([0.0,0.0,G2IO.sfloat(s[3]),0.0,0.0,0.0,0.0,azm]) #beta-q, sig-0, sig-1, sig-2, sig-q, X, Y |
|---|
| 1067 | else: |
|---|
| 1068 | s = Iparm['INS 1PRCF12'].split() |
|---|
| 1069 | data.extend([0.0,0.0,G2IO.sfloat(s[0]),G2IO.sfloat(s[1]),0.0,0.0,0.0,azm]) #beta-q, sig-0, sig-1, sig-2, sig-q, X, Y |
|---|
| 1070 | Inst1 = G2IO.makeInstDict(names,data,codes) |
|---|
| 1071 | Inst2 = {} |
|---|
| 1072 | if pfType < 0: |
|---|
| 1073 | Ipab = 'INS 1PAB'+str(-pfType) |
|---|
| 1074 | Npab = int(Iparm[Ipab+' '].strip()) |
|---|
| 1075 | Inst2['Pdabc'] = [] |
|---|
| 1076 | for i in range(Npab): |
|---|
| 1077 | k = Ipab+str(i+1).rjust(2) |
|---|
| 1078 | s = Iparm[k].split() |
|---|
| 1079 | Inst2['Pdabc'].append([float(t) for t in s]) |
|---|
| 1080 | Inst2['Pdabc'] = np.array(Inst2['Pdabc']) |
|---|
| 1081 | Inst2['Pdabc'].T[3] += Inst2['Pdabc'].T[0]*Inst1['difC'][0] #turn 3rd col into TOF |
|---|
| 1082 | if 'INS 1I ITYP' in Iparm: |
|---|
| 1083 | s = Iparm['INS 1I ITYP'].split() |
|---|
| 1084 | Ityp = int(s[0]) |
|---|
| 1085 | Tminmax = [float(s[1])*1000.,float(s[2])*1000.] |
|---|
| 1086 | Itypes = ['Exponential','Maxwell/Exponential','','Maxwell/Chebyschev',''] |
|---|
| 1087 | if Ityp in [1,2,4]: |
|---|
| 1088 | Inst2['Itype'] = Itypes[Ityp-1] |
|---|
| 1089 | Inst2['Tminmax'] = Tminmax |
|---|
| 1090 | Icoeff = [] |
|---|
| 1091 | Iesd = [] |
|---|
| 1092 | Icovar = [] |
|---|
| 1093 | for i in range(3): |
|---|
| 1094 | s = Iparm['INS 1ICOFF'+str(i+1)].split() |
|---|
| 1095 | Icoeff += [float(S) for S in s] |
|---|
| 1096 | s = Iparm['INS 1IECOF'+str(i+1)].split() |
|---|
| 1097 | Iesd += [float(S) for S in s] |
|---|
| 1098 | NT = 10 |
|---|
| 1099 | for i in range(8): |
|---|
| 1100 | s = Iparm['INS 1IECOR'+str(i+1)] |
|---|
| 1101 | if i == 7: |
|---|
| 1102 | NT = 8 |
|---|
| 1103 | Icovar += [float(s[6*j:6*j+6]) for j in range(NT)] |
|---|
| 1104 | Inst2['Icoeff'] = Icoeff |
|---|
| 1105 | Inst2['Iesd'] = Iesd |
|---|
| 1106 | Inst2['Icovar'] = Icovar |
|---|
| 1107 | return [Inst1,Inst2] |
|---|
| 1108 | |
|---|
| 1109 | # stuff we might need from the reader |
|---|
| 1110 | filename = rd.powderentry[0] |
|---|
| 1111 | bank = rd.powderentry[2] |
|---|
| 1112 | numbanks = rd.numbanks |
|---|
| 1113 | # is there an instrument parameter file defined for the current data set? |
|---|
| 1114 | # or if this is a read on a set of set of files, use the last one again |
|---|
| 1115 | #if rd.instparm or (lastdatafile == filename and lastIparmfile): |
|---|
| 1116 | if rd.instparm or lastIparmfile: |
|---|
| 1117 | if rd.instparm: |
|---|
| 1118 | instfile = os.path.join(os.path.split(filename)[0], |
|---|
| 1119 | rd.instparm) |
|---|
| 1120 | else: |
|---|
| 1121 | # for multiple reads of one data file, reuse the inst parm file |
|---|
| 1122 | instfile = lastIparmfile |
|---|
| 1123 | if os.path.exists(instfile): |
|---|
| 1124 | #print 'debug: try read',instfile |
|---|
| 1125 | Lines = self.OpenPowderInstprm(instfile) |
|---|
| 1126 | instParmList = None |
|---|
| 1127 | if Lines is not None: |
|---|
| 1128 | instParmList = self.ReadPowderInstprm(Lines) |
|---|
| 1129 | if instParmList is not None: |
|---|
| 1130 | rd.instfile = instfile |
|---|
| 1131 | rd.instmsg = 'GSAS-II file '+instfile |
|---|
| 1132 | return instParmList |
|---|
| 1133 | Iparm = self.ReadPowderIparm(instfile,bank,numbanks,rd) |
|---|
| 1134 | if Iparm: |
|---|
| 1135 | #print 'debug: success' |
|---|
| 1136 | rd.instfile = instfile |
|---|
| 1137 | rd.instmsg = instfile + ' bank ' + str(rd.instbank) |
|---|
| 1138 | return SetPowderInstParms(Iparm,rd) |
|---|
| 1139 | else: |
|---|
| 1140 | self.ErrorDialog('Open Error','Error opening instrument parameter file ' |
|---|
| 1141 | +str(instfile)+' requested by file '+ filename) |
|---|
| 1142 | # is there an instrument parameter file matching the current file |
|---|
| 1143 | # with extension .inst or .prm? If so read it |
|---|
| 1144 | basename = os.path.splitext(filename)[0] |
|---|
| 1145 | for ext in '.instprm','.prm','.inst','.ins': |
|---|
| 1146 | instfile = basename + ext |
|---|
| 1147 | Lines = self.OpenPowderInstprm(instfile) |
|---|
| 1148 | instParmList = None |
|---|
| 1149 | if Lines is not None: |
|---|
| 1150 | instParmList = self.ReadPowderInstprm(Lines) |
|---|
| 1151 | if instParmList is not None: |
|---|
| 1152 | rd.instfile = instfile |
|---|
| 1153 | rd.instmsg = 'GSAS-II file '+instfile |
|---|
| 1154 | return instParmList |
|---|
| 1155 | Iparm = self.ReadPowderIparm(instfile,bank,numbanks,rd) |
|---|
| 1156 | if Iparm: |
|---|
| 1157 | #print 'debug: success' |
|---|
| 1158 | rd.instfile = instfile |
|---|
| 1159 | rd.instmsg = instfile + ' bank ' + str(rd.instbank) |
|---|
| 1160 | return SetPowderInstParms(Iparm,rd) |
|---|
| 1161 | else: |
|---|
| 1162 | #print 'debug: open/read failed',instfile |
|---|
| 1163 | pass # fail silently |
|---|
| 1164 | |
|---|
| 1165 | # did we read the data file from a zip? If so, look there for a |
|---|
| 1166 | # instrument parameter file |
|---|
| 1167 | if self.zipfile: |
|---|
| 1168 | for ext in '.instprm','.prm','.inst','.ins': |
|---|
| 1169 | instfile = G2IO.ExtractFileFromZip( |
|---|
| 1170 | self.zipfile, |
|---|
| 1171 | selection=os.path.split(basename + ext)[1], |
|---|
| 1172 | parent=self) |
|---|
| 1173 | if instfile is not None and instfile != self.zipfile: |
|---|
| 1174 | print 'debug:',instfile,'created from ',self.zipfile |
|---|
| 1175 | Lines = self.OpenPowderInstprm(instfile) |
|---|
| 1176 | instParmList = None |
|---|
| 1177 | if Lines is not None: |
|---|
| 1178 | instParmList = self.ReadPowderInstprm(Lines) |
|---|
| 1179 | if instParmList is not None: |
|---|
| 1180 | rd.instfile = instfile |
|---|
| 1181 | rd.instmsg = 'GSAS-II file '+instfile |
|---|
| 1182 | return instParmList |
|---|
| 1183 | Iparm = self.ReadPowderIparm(instfile,bank,numbanks,rd) |
|---|
| 1184 | if Iparm: |
|---|
| 1185 | rd.instfile = instfile |
|---|
| 1186 | rd.instmsg = instfile + ' bank ' + str(rd.instbank) |
|---|
| 1187 | return SetPowderInstParms(Iparm,rd) |
|---|
| 1188 | else: |
|---|
| 1189 | #print 'debug: open/read for',instfile,'from',self.zipfile,'failed' |
|---|
| 1190 | pass # fail silently |
|---|
| 1191 | |
|---|
| 1192 | while True: # loop until we get a file that works or we get a cancel |
|---|
| 1193 | instfile = '' |
|---|
| 1194 | dlg = wx.FileDialog( |
|---|
| 1195 | self, |
|---|
| 1196 | 'Choose inst. param file for "' |
|---|
| 1197 | +rd.idstring |
|---|
| 1198 | +'" (or Cancel for default)', |
|---|
| 1199 | '.', '', |
|---|
| 1200 | 'GSAS iparm file (*.prm,*.inst,*.ins)|*.prm;*.inst;*.ins|' |
|---|
| 1201 | 'GSAS-II iparm file (*.instprm)|*.instprm|' |
|---|
| 1202 | 'All files (*.*)|*.*', |
|---|
| 1203 | wx.OPEN|wx.CHANGE_DIR) |
|---|
| 1204 | if os.path.exists(lastIparmfile): |
|---|
| 1205 | dlg.SetFilename(lastIparmfile) |
|---|
| 1206 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 1207 | instfile = dlg.GetPath() |
|---|
| 1208 | dlg.Destroy() |
|---|
| 1209 | if not instfile: break |
|---|
| 1210 | Lines = self.OpenPowderInstprm(instfile) |
|---|
| 1211 | instParmList = None |
|---|
| 1212 | if Lines is not None: |
|---|
| 1213 | instParmList = self.ReadPowderInstprm(Lines) |
|---|
| 1214 | if instParmList is not None: |
|---|
| 1215 | rd.instfile = instfile |
|---|
| 1216 | rd.instmsg = 'GSAS-II file '+instfile |
|---|
| 1217 | return instParmList |
|---|
| 1218 | Iparm = self.ReadPowderIparm(instfile,bank,numbanks,rd) |
|---|
| 1219 | if Iparm: |
|---|
| 1220 | #print 'debug: success with',instfile |
|---|
| 1221 | rd.instfile = instfile |
|---|
| 1222 | rd.instmsg = instfile + ' bank ' + str(rd.instbank) |
|---|
| 1223 | return SetPowderInstParms(Iparm,rd) |
|---|
| 1224 | else: |
|---|
| 1225 | self.ErrorDialog('Read Error', |
|---|
| 1226 | 'Error opening/reading file '+str(instfile)) |
|---|
| 1227 | |
|---|
| 1228 | # still no success: offer user choice of defaults |
|---|
| 1229 | import defaultIparms as dI |
|---|
| 1230 | while True: # loop until we get a choice |
|---|
| 1231 | choices = [] |
|---|
| 1232 | head = 'Select from default instrument parameters for '+rd.idstring |
|---|
| 1233 | |
|---|
| 1234 | for l in dI.defaultIparm_lbl: |
|---|
| 1235 | choices.append('Defaults for '+l) |
|---|
| 1236 | res = rd.BlockSelector( |
|---|
| 1237 | choices, |
|---|
| 1238 | ParentFrame=self, |
|---|
| 1239 | title=head, |
|---|
| 1240 | header='Select default inst parms', |
|---|
| 1241 | useCancel=False) |
|---|
| 1242 | if res is None: continue |
|---|
| 1243 | rd.instfile = '' |
|---|
| 1244 | rd.instmsg = 'default: '+dI.defaultIparm_lbl[res] |
|---|
| 1245 | return self.ReadPowderInstprm(dI.defaultIparms[res]) |
|---|
| 1246 | |
|---|
| 1247 | def OnImportPowder(self,event): |
|---|
| 1248 | '''Called in response to an Import/Powder Data/... menu item |
|---|
| 1249 | to read a powder diffraction data set. |
|---|
| 1250 | dict self.ImportMenuId is used to look up the specific |
|---|
| 1251 | reader item associated with the menu item, which will be |
|---|
| 1252 | None for the last menu item, which is the "guess" option |
|---|
| 1253 | where all appropriate formats will be tried. |
|---|
| 1254 | |
|---|
| 1255 | Also reads an instrument parameter file for each dataset. |
|---|
| 1256 | ''' |
|---|
| 1257 | # get a list of existing histograms |
|---|
| 1258 | PWDRlist = [] |
|---|
| 1259 | if self.PatternTree.GetCount(): |
|---|
| 1260 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 1261 | while item: |
|---|
| 1262 | name = self.PatternTree.GetItemText(item) |
|---|
| 1263 | if name.startswith('PWDR ') and name not in PWDRlist: |
|---|
| 1264 | PWDRlist.append(name) |
|---|
| 1265 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 1266 | # look up which format was requested |
|---|
| 1267 | reqrdr = self.ImportMenuId.get(event.GetId()) |
|---|
| 1268 | rdlist = self.OnImportGeneric( |
|---|
| 1269 | reqrdr,self.ImportPowderReaderlist,'Powder Data',multiple=True) |
|---|
| 1270 | if len(rdlist) == 0: return |
|---|
| 1271 | self.CheckNotebook() |
|---|
| 1272 | Iparm = None |
|---|
| 1273 | lastIparmfile = '' |
|---|
| 1274 | lastdatafile = '' |
|---|
| 1275 | newHistList = [] |
|---|
| 1276 | self.EnablePlot = False |
|---|
| 1277 | for rd in rdlist: |
|---|
| 1278 | if 'Instrument Parameters' not in rd.pwdparms: |
|---|
| 1279 | # get instrument parameters for each dataset, unless already set |
|---|
| 1280 | Iparm1,Iparm2 = self.GetPowderIparm(rd, Iparm, lastIparmfile, lastdatafile) |
|---|
| 1281 | if rd.repeat_instparm: |
|---|
| 1282 | lastIparmfile = rd.instfile |
|---|
| 1283 | else: |
|---|
| 1284 | Iparm1,Iparm2 = rd.pwdparms['Instrument Parameters'] |
|---|
| 1285 | lastdatafile = rd.powderentry[0] |
|---|
| 1286 | HistName = rd.idstring |
|---|
| 1287 | HistName = 'PWDR '+HistName |
|---|
| 1288 | # make new histogram names unique |
|---|
| 1289 | HistName = G2obj.MakeUniqueLabel(HistName,PWDRlist) |
|---|
| 1290 | print 'Read powder data '+str(HistName)+ \ |
|---|
| 1291 | ' from file '+str(rd.readfilename) + \ |
|---|
| 1292 | ' with parameters from '+str(rd.instmsg) |
|---|
| 1293 | # data are read, now store them in the tree |
|---|
| 1294 | Id = self.PatternTree.AppendItem(parent=self.root,text=HistName) |
|---|
| 1295 | if 'T' in Iparm1['Type'][0]: |
|---|
| 1296 | if not rd.clockWd and rd.GSAS: |
|---|
| 1297 | rd.powderdata[0] *= 100. #put back the CW centideg correction |
|---|
| 1298 | cw = np.diff(rd.powderdata[0]) |
|---|
| 1299 | rd.powderdata[0] = rd.powderdata[0][:-1]+cw/2. |
|---|
| 1300 | if rd.GSAS: #NB: old GSAS wanted intensities*CW even if normalized! |
|---|
| 1301 | rd.powderdata[1] = rd.powderdata[1][:-1]/cw |
|---|
| 1302 | rd.powderdata[2] = rd.powderdata[2][:-1]*cw**2 #1/var=w at this point |
|---|
| 1303 | else: #NB: from topas/fullprof type files |
|---|
| 1304 | rd.powderdata[1] = rd.powderdata[1][:-1] |
|---|
| 1305 | rd.powderdata[2] = rd.powderdata[2][:-1] |
|---|
| 1306 | if 'Itype' in Iparm2: |
|---|
| 1307 | Ibeg = np.searchsorted(rd.powderdata[0],Iparm2['Tminmax'][0]) |
|---|
| 1308 | Ifin = np.searchsorted(rd.powderdata[0],Iparm2['Tminmax'][1]) |
|---|
| 1309 | rd.powderdata[0] = rd.powderdata[0][Ibeg:Ifin] |
|---|
| 1310 | YI,WYI = G2pwd.calcIncident(Iparm2,rd.powderdata[0]) |
|---|
| 1311 | rd.powderdata[1] = rd.powderdata[1][Ibeg:Ifin]/YI |
|---|
| 1312 | var = 1./rd.powderdata[2][Ibeg:Ifin] |
|---|
| 1313 | var += WYI*rd.powderdata[1]**2 |
|---|
| 1314 | var /= YI**2 |
|---|
| 1315 | rd.powderdata[2] = 1./var |
|---|
| 1316 | rd.powderdata[3] = np.zeros_like(rd.powderdata[0]) |
|---|
| 1317 | rd.powderdata[4] = np.zeros_like(rd.powderdata[0]) |
|---|
| 1318 | rd.powderdata[5] = np.zeros_like(rd.powderdata[0]) |
|---|
| 1319 | valuesdict = { |
|---|
| 1320 | 'wtFactor':1.0, |
|---|
| 1321 | 'Dummy':False, |
|---|
| 1322 | 'ranId':ran.randint(0,sys.maxint), |
|---|
| 1323 | } |
|---|
| 1324 | rd.Sample['ranId'] = valuesdict['ranId'] # this should be removed someday |
|---|
| 1325 | self.PatternTree.SetItemPyData(Id,[valuesdict,rd.powderdata]) |
|---|
| 1326 | self.PatternTree.SetItemPyData( |
|---|
| 1327 | self.PatternTree.AppendItem(Id,text='Comments'), |
|---|
| 1328 | rd.comments) |
|---|
| 1329 | Tmin = min(rd.powderdata[0]) |
|---|
| 1330 | Tmax = max(rd.powderdata[0]) |
|---|
| 1331 | self.PatternTree.SetItemPyData( |
|---|
| 1332 | self.PatternTree.AppendItem(Id,text='Limits'), |
|---|
| 1333 | rd.pwdparms.get('Limits',[(Tmin,Tmax),[Tmin,Tmax]]) |
|---|
| 1334 | ) |
|---|
| 1335 | self.PatternId = G2gd.GetPatternTreeItemId(self,Id,'Limits') |
|---|
| 1336 | self.PatternTree.SetItemPyData( |
|---|
| 1337 | self.PatternTree.AppendItem(Id,text='Background'), |
|---|
| 1338 | rd.pwdparms.get('Background', |
|---|
| 1339 | [['chebyschev',True,3,1.0,0.0,0.0],{'nDebye':0,'debyeTerms':[],'nPeaks':0,'peaksList':[]}]) |
|---|
| 1340 | ) |
|---|
| 1341 | self.PatternTree.SetItemPyData( |
|---|
| 1342 | self.PatternTree.AppendItem(Id,text='Instrument Parameters'), |
|---|
| 1343 | [Iparm1,Iparm2]) |
|---|
| 1344 | self.PatternTree.SetItemPyData( |
|---|
| 1345 | self.PatternTree.AppendItem(Id,text='Sample Parameters'), |
|---|
| 1346 | rd.Sample) |
|---|
| 1347 | self.PatternTree.SetItemPyData( |
|---|
| 1348 | self.PatternTree.AppendItem(Id,text='Peak List') |
|---|
| 1349 | ,{'peaks':[],'sigDict':{}}) |
|---|
| 1350 | self.PatternTree.SetItemPyData( |
|---|
| 1351 | self.PatternTree.AppendItem(Id,text='Index Peak List'), |
|---|
| 1352 | [[],[]]) |
|---|
| 1353 | self.PatternTree.SetItemPyData( |
|---|
| 1354 | self.PatternTree.AppendItem(Id,text='Unit Cells List'), |
|---|
| 1355 | []) |
|---|
| 1356 | self.PatternTree.SetItemPyData( |
|---|
| 1357 | self.PatternTree.AppendItem(Id,text='Reflection Lists'), |
|---|
| 1358 | {}) |
|---|
| 1359 | newHistList.append(HistName) |
|---|
| 1360 | else: |
|---|
| 1361 | self.EnablePlot = True |
|---|
| 1362 | self.PatternTree.Expand(Id) |
|---|
| 1363 | self.PatternTree.SelectItem(Id) |
|---|
| 1364 | |
|---|
| 1365 | if not newHistList: return # somehow, no new histograms |
|---|
| 1366 | # make a list of phase names |
|---|
| 1367 | phaseRIdList,usedHistograms = self.GetPhaseInfofromTree() |
|---|
| 1368 | phaseNameList = usedHistograms.keys() # phase names in use |
|---|
| 1369 | if not phaseNameList: return # no phases yet, nothing to do |
|---|
| 1370 | header = 'Select phase(s) to add the new\npowder dataset(s) to:' |
|---|
| 1371 | for Name in newHistList: |
|---|
| 1372 | header += '\n '+str(Name) |
|---|
| 1373 | |
|---|
| 1374 | result = G2gd.ItemSelector(phaseNameList,self,header,header='Add to phase(s)',multiple=True) |
|---|
| 1375 | if not result: return |
|---|
| 1376 | # connect new phases to histograms |
|---|
| 1377 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 1378 | if not sub: |
|---|
| 1379 | raise Exception('ERROR -- why are there no phases here?') |
|---|
| 1380 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 1381 | iph = -1 |
|---|
| 1382 | while item: # loop over (new) phases |
|---|
| 1383 | iph += 1 |
|---|
| 1384 | phaseName = self.PatternTree.GetItemText(item) |
|---|
| 1385 | data = self.PatternTree.GetItemPyData(item) |
|---|
| 1386 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 1387 | if iph not in result: continue |
|---|
| 1388 | generalData = data['General'] |
|---|
| 1389 | SGData = generalData['SGData'] |
|---|
| 1390 | UseList = data['Histograms'] |
|---|
| 1391 | NShkl = len(G2spc.MustrainNames(SGData)) |
|---|
| 1392 | NDij = len(G2spc.HStrainNames(SGData)) |
|---|
| 1393 | for histoName in newHistList: |
|---|
| 1394 | UseList[histoName] = SetDefaultDData('PWDR',histoName,NShkl=NShkl,NDij=NDij) |
|---|
| 1395 | Id = G2gd.GetPatternTreeItemId(self,self.root,histoName) |
|---|
| 1396 | refList = self.PatternTree.GetItemPyData( |
|---|
| 1397 | G2gd.GetPatternTreeItemId(self,Id,'Reflection Lists')) |
|---|
| 1398 | refList[generalData['Name']] = [] |
|---|
| 1399 | return # success |
|---|
| 1400 | |
|---|
| 1401 | def OnDummyPowder(self,event): |
|---|
| 1402 | '''Called in response to Import/Powder Data/Simulate menu item |
|---|
| 1403 | to create a Dummy powder diffraction data set. |
|---|
| 1404 | |
|---|
| 1405 | Reads an instrument parameter file and then gets input from the user |
|---|
| 1406 | ''' |
|---|
| 1407 | # get a list of existing histograms |
|---|
| 1408 | PWDRlist = [] |
|---|
| 1409 | if self.PatternTree.GetCount(): |
|---|
| 1410 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 1411 | while item: |
|---|
| 1412 | name = self.PatternTree.GetItemText(item) |
|---|
| 1413 | if name.startswith('PWDR ') and name not in PWDRlist: |
|---|
| 1414 | PWDRlist.append(name) |
|---|
| 1415 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 1416 | # Initialize a base class reader |
|---|
| 1417 | rd = G2IO.ImportPowderData( |
|---|
| 1418 | extensionlist=tuple(), |
|---|
| 1419 | strictExtension=False, |
|---|
| 1420 | formatName = 'Simulate dataset', |
|---|
| 1421 | longFormatName = 'Compute a simulated pattern') |
|---|
| 1422 | rd.powderentry[0] = '' # no filename |
|---|
| 1423 | # #self.powderentry[1] = pos # bank offset (N/A here) |
|---|
| 1424 | rd.powderentry[2] = 1 # only one bank |
|---|
| 1425 | rd.comments.append('This is a dummy dataset for powder pattern simulation') |
|---|
| 1426 | self.CheckNotebook() |
|---|
| 1427 | Iparm = None |
|---|
| 1428 | lastIparmfile = '' |
|---|
| 1429 | lastdatafile = '' |
|---|
| 1430 | self.zipfile = None |
|---|
| 1431 | # get instrument parameters for it |
|---|
| 1432 | Iparm1,Iparm2 = self.GetPowderIparm(rd, Iparm, lastIparmfile, lastdatafile) |
|---|
| 1433 | if 'T' in Iparm1['Type'][0]: |
|---|
| 1434 | print('TOF simulation not supported yet') |
|---|
| 1435 | return False |
|---|
| 1436 | else: |
|---|
| 1437 | # need to get name, 2theta start, end, step |
|---|
| 1438 | rd.idstring = ' CW' |
|---|
| 1439 | if 'X' in Iparm1['Type'][0]: |
|---|
| 1440 | rd.idstring = 'CW x-ray simulation' |
|---|
| 1441 | else: |
|---|
| 1442 | rd.idstring = 'CW neutron simulation' |
|---|
| 1443 | # base initial range on wavelength |
|---|
| 1444 | wave = Iparm1.get('Lam') |
|---|
| 1445 | if wave: |
|---|
| 1446 | wave = wave[0] |
|---|
| 1447 | else: |
|---|
| 1448 | wave = Iparm1.get('Lam1') |
|---|
| 1449 | if wave: |
|---|
| 1450 | wave = wave[0] |
|---|
| 1451 | N = 0 |
|---|
| 1452 | while (N < 3): # insist on a dataset with a few points |
|---|
| 1453 | names = ('dataset name', 'start angle', 'end angle', 'step size') |
|---|
| 1454 | if not wave or wave < 1.0: |
|---|
| 1455 | inp = [rd.idstring, 10.,40.,0.005] # see names for what's what |
|---|
| 1456 | else: |
|---|
| 1457 | inp = [rd.idstring, 10.,80.,0.01] # see names for what's what |
|---|
| 1458 | dlg = G2G.ScrolledMultiEditor( |
|---|
| 1459 | self,[inp] * len(inp),range(len(inp)),names, |
|---|
| 1460 | header='Enter simulation name and range', |
|---|
| 1461 | minvals=(None,0.001,0.001,0.0001), |
|---|
| 1462 | maxvals=(None,180.,180.,.1), |
|---|
| 1463 | sizevals=((225,-1),) |
|---|
| 1464 | ) |
|---|
| 1465 | dlg.CenterOnParent() |
|---|
| 1466 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 1467 | if inp[1] > inp[2]: |
|---|
| 1468 | end,start,step = inp[1:] |
|---|
| 1469 | else: |
|---|
| 1470 | start,end,step = inp[1:] |
|---|
| 1471 | step = abs(step) |
|---|
| 1472 | else: |
|---|
| 1473 | return False |
|---|
| 1474 | N = int((end-start)/step)+1 |
|---|
| 1475 | x = np.linspace(start,end,N,True) |
|---|
| 1476 | N = len(x) |
|---|
| 1477 | rd.powderdata = [ |
|---|
| 1478 | np.array(x), # x-axis values |
|---|
| 1479 | np.zeros_like(x), # powder pattern intensities |
|---|
| 1480 | np.ones_like(x), # 1/sig(intensity)^2 values (weights) |
|---|
| 1481 | np.zeros_like(x), # calc. intensities (zero) |
|---|
| 1482 | np.zeros_like(x), # calc. background (zero) |
|---|
| 1483 | np.zeros_like(x), # obs-calc profiles |
|---|
| 1484 | ] |
|---|
| 1485 | Tmin = rd.powderdata[0][0] |
|---|
| 1486 | Tmax = rd.powderdata[0][-1] |
|---|
| 1487 | # data are read, now store them in the tree |
|---|
| 1488 | HistName = inp[0] |
|---|
| 1489 | HistName = 'PWDR '+HistName |
|---|
| 1490 | HistName = G2obj.MakeUniqueLabel(HistName,PWDRlist) # make new histogram names unique |
|---|
| 1491 | Id = self.PatternTree.AppendItem(parent=self.root,text=HistName) |
|---|
| 1492 | valuesdict = { |
|---|
| 1493 | 'wtFactor':1.0, |
|---|
| 1494 | 'Dummy':True, |
|---|
| 1495 | 'ranId':ran.randint(0,sys.maxint), |
|---|
| 1496 | } |
|---|
| 1497 | self.PatternTree.SetItemPyData(Id,[valuesdict,rd.powderdata]) |
|---|
| 1498 | self.PatternTree.SetItemPyData( |
|---|
| 1499 | self.PatternTree.AppendItem(Id,text='Comments'), |
|---|
| 1500 | rd.comments) |
|---|
| 1501 | self.PatternTree.SetItemPyData( |
|---|
| 1502 | self.PatternTree.AppendItem(Id,text='Limits'), |
|---|
| 1503 | [(Tmin,Tmax),[Tmin,Tmax]]) |
|---|
| 1504 | self.PatternId = G2gd.GetPatternTreeItemId(self,Id,'Limits') |
|---|
| 1505 | self.PatternTree.SetItemPyData( |
|---|
| 1506 | self.PatternTree.AppendItem(Id,text='Background'), |
|---|
| 1507 | [['chebyschev',True,3,1.0,0.0,0.0], |
|---|
| 1508 | {'nDebye':0,'debyeTerms':[],'nPeaks':0,'peaksList':[]}]) |
|---|
| 1509 | self.PatternTree.SetItemPyData( |
|---|
| 1510 | self.PatternTree.AppendItem(Id,text='Instrument Parameters'), |
|---|
| 1511 | [Iparm1,Iparm2]) |
|---|
| 1512 | self.PatternTree.SetItemPyData( |
|---|
| 1513 | self.PatternTree.AppendItem(Id,text='Sample Parameters'), |
|---|
| 1514 | rd.Sample) |
|---|
| 1515 | self.PatternTree.SetItemPyData( |
|---|
| 1516 | self.PatternTree.AppendItem(Id,text='Peak List') |
|---|
| 1517 | ,{'peaks':[],'sigDict':{}}) |
|---|
| 1518 | self.PatternTree.SetItemPyData( |
|---|
| 1519 | self.PatternTree.AppendItem(Id,text='Index Peak List'), |
|---|
| 1520 | [[],[]]) |
|---|
| 1521 | self.PatternTree.SetItemPyData( |
|---|
| 1522 | self.PatternTree.AppendItem(Id,text='Unit Cells List'), |
|---|
| 1523 | []) |
|---|
| 1524 | self.PatternTree.SetItemPyData( |
|---|
| 1525 | self.PatternTree.AppendItem(Id,text='Reflection Lists'), |
|---|
| 1526 | {}) |
|---|
| 1527 | self.PatternTree.Expand(Id) |
|---|
| 1528 | self.PatternTree.SelectItem(Id) |
|---|
| 1529 | print('Added simulation powder data '+str(HistName)+ |
|---|
| 1530 | ' with parameters from '+str(rd.instmsg)) |
|---|
| 1531 | |
|---|
| 1532 | # make a list of phase names |
|---|
| 1533 | phaseRIdList,usedHistograms = self.GetPhaseInfofromTree() |
|---|
| 1534 | phaseNameList = usedHistograms.keys() # phase names in use |
|---|
| 1535 | if not phaseNameList: return # no phases yet, nothing to do |
|---|
| 1536 | header = 'Select phase(s) to add the new\npowder simulation (dummy) dataset to:' |
|---|
| 1537 | result = G2gd.ItemSelector(phaseNameList,self,header,header='Add to phase(s)',multiple=True) |
|---|
| 1538 | if not result: return |
|---|
| 1539 | # connect new phases to histograms |
|---|
| 1540 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 1541 | if not sub: |
|---|
| 1542 | raise Exception('ERROR -- why are there no phases here?') |
|---|
| 1543 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 1544 | iph = -1 |
|---|
| 1545 | while item: # loop over (new) phases |
|---|
| 1546 | iph += 1 |
|---|
| 1547 | phaseName = self.PatternTree.GetItemText(item) |
|---|
| 1548 | data = self.PatternTree.GetItemPyData(item) |
|---|
| 1549 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 1550 | if iph not in result: continue |
|---|
| 1551 | generalData = data['General'] |
|---|
| 1552 | SGData = generalData['SGData'] |
|---|
| 1553 | UseList = data['Histograms'] |
|---|
| 1554 | NShkl = len(G2spc.MustrainNames(SGData)) |
|---|
| 1555 | NDij = len(G2spc.HStrainNames(SGData)) |
|---|
| 1556 | UseList[HistName] = SetDefaultDData('PWDR',HistName,NShkl=NShkl,NDij=NDij) |
|---|
| 1557 | Id = G2gd.GetPatternTreeItemId(self,self.root,HistName) |
|---|
| 1558 | refList = self.PatternTree.GetItemPyData( |
|---|
| 1559 | G2gd.GetPatternTreeItemId(self,Id,'Reflection Lists')) |
|---|
| 1560 | refList[generalData['Name']] = [] |
|---|
| 1561 | return # success |
|---|
| 1562 | |
|---|
| 1563 | def _Add_ImportMenu_smallangle(self,parent): |
|---|
| 1564 | '''configure the Small Angle Data menus accord to the readers found in _init_Imports |
|---|
| 1565 | ''' |
|---|
| 1566 | submenu = wx.Menu() |
|---|
| 1567 | item = parent.AppendMenu(wx.ID_ANY, 'Small Angle Data', |
|---|
| 1568 | submenu, help='Import small angle data') |
|---|
| 1569 | for reader in self.ImportSmallAngleReaderlist: |
|---|
| 1570 | item = submenu.Append(wx.ID_ANY,help=reader.longFormatName, |
|---|
| 1571 | kind=wx.ITEM_NORMAL,text='from '+reader.formatName+' file') |
|---|
| 1572 | self.ImportMenuId[item.GetId()] = reader |
|---|
| 1573 | self.Bind(wx.EVT_MENU, self.OnImportSmallAngle, id=item.GetId()) |
|---|
| 1574 | # item = submenu.Append(wx.ID_ANY, |
|---|
| 1575 | # help='Import small angle data, use file to try to determine format', |
|---|
| 1576 | # kind=wx.ITEM_NORMAL,text='guess format from file') |
|---|
| 1577 | # self.Bind(wx.EVT_MENU, self.OnImportSmallAngle, id=item.GetId()) |
|---|
| 1578 | |
|---|
| 1579 | def OnImportSmallAngle(self,event): |
|---|
| 1580 | '''Called in response to an Import/Small Angle Data/... menu item |
|---|
| 1581 | to read a small angle diffraction data set. |
|---|
| 1582 | dict self.ImportMenuId is used to look up the specific |
|---|
| 1583 | reader item associated with the menu item, which will be |
|---|
| 1584 | None for the last menu item, which is the "guess" option |
|---|
| 1585 | where all appropriate formats will be tried. |
|---|
| 1586 | |
|---|
| 1587 | ''' |
|---|
| 1588 | |
|---|
| 1589 | def GetSASDIparm(reader): |
|---|
| 1590 | parm = reader.instdict |
|---|
| 1591 | Iparm = {'Type':[parm['type'],parm['type'],0],'Lam':[parm['wave'], |
|---|
| 1592 | parm['wave'],0],'Azimuth':[0.,0.,0]} |
|---|
| 1593 | return Iparm,{} |
|---|
| 1594 | |
|---|
| 1595 | # get a list of existing histograms |
|---|
| 1596 | SASDlist = [] |
|---|
| 1597 | if self.PatternTree.GetCount(): |
|---|
| 1598 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 1599 | while item: |
|---|
| 1600 | name = self.PatternTree.GetItemText(item) |
|---|
| 1601 | if name.startswith('SASD ') and name not in SASDlist: |
|---|
| 1602 | SASDlist.append(name) |
|---|
| 1603 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 1604 | # look up which format was requested |
|---|
| 1605 | reqrdr = self.ImportMenuId.get(event.GetId()) |
|---|
| 1606 | rdlist = self.OnImportGeneric( |
|---|
| 1607 | reqrdr,self.ImportSmallAngleReaderlist,'Small Angle Data',multiple=True) |
|---|
| 1608 | if len(rdlist) == 0: return |
|---|
| 1609 | self.CheckNotebook() |
|---|
| 1610 | Iparm = None |
|---|
| 1611 | lastdatafile = '' |
|---|
| 1612 | newHistList = [] |
|---|
| 1613 | self.EnablePlot = False |
|---|
| 1614 | for rd in rdlist: |
|---|
| 1615 | lastdatafile = rd.smallangleentry[0] |
|---|
| 1616 | HistName = rd.idstring |
|---|
| 1617 | HistName = 'SASD '+HistName |
|---|
| 1618 | # make new histogram names unique |
|---|
| 1619 | HistName = G2obj.MakeUniqueLabel(HistName,SASDlist) |
|---|
| 1620 | print 'Read small angle data '+str(HistName)+ \ |
|---|
| 1621 | ' from file '+str(self.lastimport) |
|---|
| 1622 | # data are read, now store them in the tree |
|---|
| 1623 | Id = self.PatternTree.AppendItem(parent=self.root,text=HistName) |
|---|
| 1624 | Iparm1,Iparm2 = GetSASDIparm(rd) |
|---|
| 1625 | # if 'T' in Iparm1['Type'][0]: |
|---|
| 1626 | # if not rd.clockWd and rd.GSAS: |
|---|
| 1627 | # rd.powderdata[0] *= 100. #put back the CW centideg correction |
|---|
| 1628 | # cw = np.diff(rd.powderdata[0]) |
|---|
| 1629 | # rd.powderdata[0] = rd.powderdata[0][:-1]+cw/2. |
|---|
| 1630 | # rd.powderdata[1] = rd.powderdata[1][:-1]/cw |
|---|
| 1631 | # rd.powderdata[2] = rd.powderdata[2][:-1]*cw**2 #1/var=w at this point |
|---|
| 1632 | # if 'Itype' in Iparm2: |
|---|
| 1633 | # Ibeg = np.searchsorted(rd.powderdata[0],Iparm2['Tminmax'][0]) |
|---|
| 1634 | # Ifin = np.searchsorted(rd.powderdata[0],Iparm2['Tminmax'][1]) |
|---|
| 1635 | # rd.powderdata[0] = rd.powderdata[0][Ibeg:Ifin] |
|---|
| 1636 | # YI,WYI = G2pwd.calcIncident(Iparm2,rd.powderdata[0]) |
|---|
| 1637 | # rd.powderdata[1] = rd.powderdata[1][Ibeg:Ifin]/YI |
|---|
| 1638 | # var = 1./rd.powderdata[2][Ibeg:Ifin] |
|---|
| 1639 | # var += WYI*rd.powderdata[1]**2 |
|---|
| 1640 | # var /= YI**2 |
|---|
| 1641 | # rd.powderdata[2] = 1./var |
|---|
| 1642 | # rd.powderdata[3] = np.zeros_like(rd.powderdata[0]) |
|---|
| 1643 | # rd.powderdata[4] = np.zeros_like(rd.powderdata[0]) |
|---|
| 1644 | # rd.powderdata[5] = np.zeros_like(rd.powderdata[0]) |
|---|
| 1645 | Tmin = min(rd.smallangledata[0]) |
|---|
| 1646 | Tmax = max(rd.smallangledata[0]) |
|---|
| 1647 | valuesdict = { |
|---|
| 1648 | 'wtFactor':1.0, |
|---|
| 1649 | 'Dummy':False, |
|---|
| 1650 | 'ranId':ran.randint(0,sys.maxint), |
|---|
| 1651 | } |
|---|
| 1652 | rd.Sample['ranId'] = valuesdict['ranId'] # this should be removed someday |
|---|
| 1653 | self.PatternTree.SetItemPyData(Id,[valuesdict,rd.smallangledata]) |
|---|
| 1654 | self.PatternTree.SetItemPyData( |
|---|
| 1655 | self.PatternTree.AppendItem(Id,text='Comments'), |
|---|
| 1656 | rd.comments) |
|---|
| 1657 | self.PatternTree.SetItemPyData( |
|---|
| 1658 | self.PatternTree.AppendItem(Id,text='Limits'), |
|---|
| 1659 | [(Tmin,Tmax),[Tmin,Tmax]]) |
|---|
| 1660 | self.PatternId = G2gd.GetPatternTreeItemId(self,Id,'Limits') |
|---|
| 1661 | self.PatternTree.SetItemPyData( |
|---|
| 1662 | self.PatternTree.AppendItem(Id,text='Instrument Parameters'), |
|---|
| 1663 | [Iparm1,Iparm2]) |
|---|
| 1664 | self.PatternTree.SetItemPyData( |
|---|
| 1665 | self.PatternTree.AppendItem(Id,text='Substances'),G2pdG.SetDefaultSubstances()) |
|---|
| 1666 | self.PatternTree.SetItemPyData( |
|---|
| 1667 | self.PatternTree.AppendItem(Id,text='Sample Parameters'), |
|---|
| 1668 | rd.Sample) |
|---|
| 1669 | self.PatternTree.SetItemPyData( |
|---|
| 1670 | self.PatternTree.AppendItem(Id,text='Models'),G2pdG.SetDefaultSASDModel()) |
|---|
| 1671 | newHistList.append(HistName) |
|---|
| 1672 | else: |
|---|
| 1673 | self.EnablePlot = True |
|---|
| 1674 | self.PatternTree.Expand(Id) |
|---|
| 1675 | self.PatternTree.SelectItem(Id) |
|---|
| 1676 | |
|---|
| 1677 | if not newHistList: return # somehow, no new histograms |
|---|
| 1678 | return # success |
|---|
| 1679 | |
|---|
| 1680 | def OnMacroRecordStatus(self,event,setvalue=None): |
|---|
| 1681 | '''Called when the record macro menu item is used which toggles the |
|---|
| 1682 | value. Alternately a value to be set can be provided. Note that this |
|---|
| 1683 | routine is made more complex because on the Mac there are lots of menu |
|---|
| 1684 | items (listed in self.MacroStatusList) and this loops over all of them. |
|---|
| 1685 | ''' |
|---|
| 1686 | nextvalue = log.ShowLogStatus() != True |
|---|
| 1687 | if setvalue is not None: |
|---|
| 1688 | nextvalue = setvalue |
|---|
| 1689 | if nextvalue: |
|---|
| 1690 | log.LogOn() |
|---|
| 1691 | set2 = True |
|---|
| 1692 | else: |
|---|
| 1693 | log.LogOff() |
|---|
| 1694 | set2 = False |
|---|
| 1695 | for menuitem in self.MacroStatusList: |
|---|
| 1696 | menuitem.Check(set2) |
|---|
| 1697 | |
|---|
| 1698 | def _init_Macro(self): |
|---|
| 1699 | '''Define the items in the macro menu. |
|---|
| 1700 | ''' |
|---|
| 1701 | menu = self.MacroMenu |
|---|
| 1702 | item = menu.Append( |
|---|
| 1703 | help='Start or stop recording of menu actions, etc.', id=wx.ID_ANY, |
|---|
| 1704 | kind=wx.ITEM_CHECK,text='Record actions') |
|---|
| 1705 | self.MacroStatusList.append(item) |
|---|
| 1706 | item.Check(log.ShowLogStatus()) |
|---|
| 1707 | self.Bind(wx.EVT_MENU, self.OnMacroRecordStatus, item) |
|---|
| 1708 | |
|---|
| 1709 | # this may only be of value for development work |
|---|
| 1710 | item = menu.Append( |
|---|
| 1711 | help='Show logged commands', id=wx.ID_ANY, |
|---|
| 1712 | kind=wx.ITEM_NORMAL,text='Show log') |
|---|
| 1713 | def OnShowLog(event): |
|---|
| 1714 | print 70*'=' |
|---|
| 1715 | print 'List of logged actions' |
|---|
| 1716 | for i,line in enumerate(log.G2logList): |
|---|
| 1717 | if line: print i,line |
|---|
| 1718 | print 70*'=' |
|---|
| 1719 | self.Bind(wx.EVT_MENU, OnShowLog, item) |
|---|
| 1720 | |
|---|
| 1721 | item = menu.Append( |
|---|
| 1722 | help='Clear logged commands', id=wx.ID_ANY, |
|---|
| 1723 | kind=wx.ITEM_NORMAL,text='Clear log') |
|---|
| 1724 | def OnClearLog(event): log.G2logList=[None] |
|---|
| 1725 | self.Bind(wx.EVT_MENU, OnClearLog, item) |
|---|
| 1726 | |
|---|
| 1727 | item = menu.Append( |
|---|
| 1728 | help='Save logged commands to file', id=wx.ID_ANY, |
|---|
| 1729 | kind=wx.ITEM_NORMAL,text='Save log') |
|---|
| 1730 | def OnSaveLog(event): |
|---|
| 1731 | import cPickle |
|---|
| 1732 | defnam = os.path.splitext( |
|---|
| 1733 | os.path.split(self.GSASprojectfile)[1] |
|---|
| 1734 | )[0]+'.gcmd' |
|---|
| 1735 | dlg = wx.FileDialog(self, |
|---|
| 1736 | 'Choose an file to save past actions', '.', defnam, |
|---|
| 1737 | 'GSAS-II cmd output (*.gcmd)|*.gcmd', |
|---|
| 1738 | wx.FD_SAVE|wx.FD_OVERWRITE_PROMPT|wx.CHANGE_DIR) |
|---|
| 1739 | dlg.CenterOnParent() |
|---|
| 1740 | try: |
|---|
| 1741 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 1742 | filename = dlg.GetPath() |
|---|
| 1743 | # make sure extension is correct |
|---|
| 1744 | filename = os.path.splitext(filename)[0]+'.gcmd' |
|---|
| 1745 | else: |
|---|
| 1746 | filename = None |
|---|
| 1747 | finally: |
|---|
| 1748 | dlg.Destroy() |
|---|
| 1749 | if filename: |
|---|
| 1750 | fp = open(filename,'wb') |
|---|
| 1751 | fp.write(str(len(log.G2logList)-1)+'\n') |
|---|
| 1752 | for item in log.G2logList: |
|---|
| 1753 | if item: cPickle.dump(item,fp) |
|---|
| 1754 | fp.close() |
|---|
| 1755 | self.Bind(wx.EVT_MENU, OnSaveLog, item) |
|---|
| 1756 | |
|---|
| 1757 | item = menu.Append( |
|---|
| 1758 | help='Load logged commands from file', id=wx.ID_ANY, |
|---|
| 1759 | kind=wx.ITEM_NORMAL,text='Load log') |
|---|
| 1760 | def OnLoadLog(event): |
|---|
| 1761 | # this appends. Perhaps we should ask to clear? |
|---|
| 1762 | import cPickle |
|---|
| 1763 | defnam = os.path.splitext( |
|---|
| 1764 | os.path.split(self.GSASprojectfile)[1] |
|---|
| 1765 | )[0]+'.gcmd' |
|---|
| 1766 | dlg = wx.FileDialog(self, |
|---|
| 1767 | 'Choose an file to read saved actions', '.', defnam, |
|---|
| 1768 | 'GSAS-II cmd output (*.gcmd)|*.gcmd', |
|---|
| 1769 | wx.OPEN|wx.CHANGE_DIR) |
|---|
| 1770 | dlg.CenterOnParent() |
|---|
| 1771 | try: |
|---|
| 1772 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 1773 | filename = dlg.GetPath() |
|---|
| 1774 | # make sure extension is correct |
|---|
| 1775 | filename = os.path.splitext(filename)[0]+'.gcmd' |
|---|
| 1776 | else: |
|---|
| 1777 | filename = None |
|---|
| 1778 | finally: |
|---|
| 1779 | dlg.Destroy() |
|---|
| 1780 | if filename and os.path.exists(filename): |
|---|
| 1781 | fp = open(filename,'rb') |
|---|
| 1782 | lines = fp.readline() |
|---|
| 1783 | for i in range(int(lines)): |
|---|
| 1784 | log.G2logList.append(cPickle.load(fp)) |
|---|
| 1785 | fp.close() |
|---|
| 1786 | self.Bind(wx.EVT_MENU, OnLoadLog, item) |
|---|
| 1787 | |
|---|
| 1788 | item = menu.Append( |
|---|
| 1789 | help='Replay saved commands', id=wx.ID_ANY, |
|---|
| 1790 | kind=wx.ITEM_NORMAL,text='Replay log') |
|---|
| 1791 | self.Bind(wx.EVT_MENU, log.ReplayLog, item) |
|---|
| 1792 | |
|---|
| 1793 | def _init_Exports(self,menu): |
|---|
| 1794 | '''Find exporter routines and add them into menus |
|---|
| 1795 | ''' |
|---|
| 1796 | # set up the top-level menus |
|---|
| 1797 | projectmenu = wx.Menu() |
|---|
| 1798 | item = menu.AppendMenu( |
|---|
| 1799 | wx.ID_ANY, 'Entire project as', |
|---|
| 1800 | projectmenu, help='Export entire project') |
|---|
| 1801 | |
|---|
| 1802 | phasemenu = wx.Menu() |
|---|
| 1803 | item = menu.AppendMenu( |
|---|
| 1804 | wx.ID_ANY, 'Phase as', |
|---|
| 1805 | phasemenu, help='Export phase or sometimes phases') |
|---|
| 1806 | |
|---|
| 1807 | powdermenu = wx.Menu() |
|---|
| 1808 | item = menu.AppendMenu( |
|---|
| 1809 | wx.ID_ANY, 'Powder data as', |
|---|
| 1810 | powdermenu, help='Export powder diffraction histogram(s)') |
|---|
| 1811 | |
|---|
| 1812 | singlemenu = wx.Menu() |
|---|
| 1813 | item = menu.AppendMenu( |
|---|
| 1814 | wx.ID_ANY, 'Single crystal data as', |
|---|
| 1815 | singlemenu, help='Export single crystal histogram(s)') |
|---|
| 1816 | |
|---|
| 1817 | imagemenu = wx.Menu() |
|---|
| 1818 | item = menu.AppendMenu( |
|---|
| 1819 | wx.ID_ANY, 'Image data as', |
|---|
| 1820 | imagemenu, help='Export powder image(s) data') |
|---|
| 1821 | |
|---|
| 1822 | mapmenu = wx.Menu() |
|---|
| 1823 | item = menu.AppendMenu( |
|---|
| 1824 | wx.ID_ANY, 'Maps as', |
|---|
| 1825 | mapmenu, help='Export density map(s)') |
|---|
| 1826 | |
|---|
| 1827 | # pdfmenu = wx.Menu() |
|---|
| 1828 | # item = menu.AppendMenu( |
|---|
| 1829 | # wx.ID_ANY, 'PDFs as', |
|---|
| 1830 | # pdfmenu, help='Export pair distribution function(s)') |
|---|
| 1831 | |
|---|
| 1832 | # find all the exporter files |
|---|
| 1833 | pathlist = sys.path |
|---|
| 1834 | filelist = [] |
|---|
| 1835 | for path in pathlist: |
|---|
| 1836 | for filename in glob.iglob(os.path.join(path,"G2export*.py")): |
|---|
| 1837 | filelist.append(filename) |
|---|
| 1838 | filelist = sorted(list(set(filelist))) # remove duplicates |
|---|
| 1839 | exporterlist = [] |
|---|
| 1840 | # go through the routines and import them, saving objects that |
|---|
| 1841 | # have export routines (method Exporter) |
|---|
| 1842 | for filename in filelist: |
|---|
| 1843 | path,rootname = os.path.split(filename) |
|---|
| 1844 | pkg = os.path.splitext(rootname)[0] |
|---|
| 1845 | try: |
|---|
| 1846 | fp = None |
|---|
| 1847 | fp, fppath,desc = imp.find_module(pkg,[path,]) |
|---|
| 1848 | pkg = imp.load_module(pkg,fp,fppath,desc) |
|---|
| 1849 | for clss in inspect.getmembers(pkg): # find classes defined in package |
|---|
| 1850 | if clss[0].startswith('_'): continue |
|---|
| 1851 | if inspect.isclass(clss[1]): |
|---|
| 1852 | # check if we have the required methods |
|---|
| 1853 | for m in 'Exporter','loadParmDict': |
|---|
| 1854 | if not hasattr(clss[1],m): break |
|---|
| 1855 | if not callable(getattr(clss[1],m)): break |
|---|
| 1856 | else: |
|---|
| 1857 | exporter = clss[1](self) # create an export instance |
|---|
| 1858 | exporterlist.append(exporter) |
|---|
| 1859 | except AttributeError: |
|---|
| 1860 | print 'Import_'+errprefix+': Attribute Error'+str(filename) |
|---|
| 1861 | pass |
|---|
| 1862 | except ImportError: |
|---|
| 1863 | print 'Import_'+errprefix+': Error importing file'+str(filename) |
|---|
| 1864 | pass |
|---|
| 1865 | if fp: fp.close() |
|---|
| 1866 | # Add submenu item(s) for each Exporter by its self-declared type (can be more than one) |
|---|
| 1867 | for obj in exporterlist: |
|---|
| 1868 | #print 'exporter',obj |
|---|
| 1869 | for typ in obj.exporttype: |
|---|
| 1870 | if typ == "project": |
|---|
| 1871 | submenu = projectmenu |
|---|
| 1872 | elif typ == "phase": |
|---|
| 1873 | submenu = phasemenu |
|---|
| 1874 | elif typ == "powder": |
|---|
| 1875 | submenu = powdermenu |
|---|
| 1876 | elif typ == "single": |
|---|
| 1877 | submenu = singlemenu |
|---|
| 1878 | elif typ == "image": |
|---|
| 1879 | submenu = imagemenu |
|---|
| 1880 | elif typ == "map": |
|---|
| 1881 | submenu = mapmenu |
|---|
| 1882 | # elif typ == "pdf": |
|---|
| 1883 | # submenu = pdfmenu |
|---|
| 1884 | else: |
|---|
| 1885 | print("Error, unknown type in "+str(obj)) |
|---|
| 1886 | break |
|---|
| 1887 | item = submenu.Append( |
|---|
| 1888 | wx.ID_ANY, |
|---|
| 1889 | help=obj.longFormatName, |
|---|
| 1890 | kind=wx.ITEM_NORMAL, |
|---|
| 1891 | text=obj.formatName) |
|---|
| 1892 | self.Bind(wx.EVT_MENU, obj.Exporter, id=item.GetId()) |
|---|
| 1893 | self.ExportLookup[item.GetId()] = typ # lookup table for submenu item |
|---|
| 1894 | |
|---|
| 1895 | #code to debug an Exporter. hard-coded the routine below, to allow a reload before use |
|---|
| 1896 | # def DebugExport(event): |
|---|
| 1897 | # print 'start reload' |
|---|
| 1898 | # reload(G2IO) |
|---|
| 1899 | # import G2export_pwdr as dev |
|---|
| 1900 | # reload(dev) |
|---|
| 1901 | # dev.ExportPowderFXYE(self).Exporter(event) |
|---|
| 1902 | # item = menu.Append( |
|---|
| 1903 | # wx.ID_ANY,kind=wx.ITEM_NORMAL, |
|---|
| 1904 | # help="debug exporter",text="test Export FXYE") |
|---|
| 1905 | # self.Bind(wx.EVT_MENU, DebugExport, id=item.GetId()) |
|---|
| 1906 | # # #self.ExportLookup[item.GetId()] = 'image' |
|---|
| 1907 | # self.ExportLookup[item.GetId()] = 'powder' |
|---|
| 1908 | |
|---|
| 1909 | def _Add_ExportMenuItems(self,parent): |
|---|
| 1910 | # item = parent.Append( |
|---|
| 1911 | # help='Select PWDR item to enable',id=wx.ID_ANY, |
|---|
| 1912 | # kind=wx.ITEM_NORMAL, |
|---|
| 1913 | # text='Export Powder Patterns...') |
|---|
| 1914 | # self.ExportPattern.append(item) |
|---|
| 1915 | # item.Enable(False) |
|---|
| 1916 | # self.Bind(wx.EVT_MENU, self.OnExportPatterns, id=item.GetId()) |
|---|
| 1917 | |
|---|
| 1918 | item = parent.Append( |
|---|
| 1919 | help='',id=wx.ID_ANY, |
|---|
| 1920 | kind=wx.ITEM_NORMAL, |
|---|
| 1921 | text='Export All Peak Lists...') |
|---|
| 1922 | self.ExportPeakList.append(item) |
|---|
| 1923 | item.Enable(True) |
|---|
| 1924 | self.Bind(wx.EVT_MENU, self.OnExportPeakList, id=item.GetId()) |
|---|
| 1925 | |
|---|
| 1926 | item = parent.Append( |
|---|
| 1927 | help='',id=wx.ID_ANY, |
|---|
| 1928 | kind=wx.ITEM_NORMAL, |
|---|
| 1929 | text='Export HKLs...') |
|---|
| 1930 | self.ExportHKL.append(item) |
|---|
| 1931 | self.Bind(wx.EVT_MENU, self.OnExportHKL, id=item.GetId()) |
|---|
| 1932 | |
|---|
| 1933 | item = parent.Append( |
|---|
| 1934 | help='Select PDF item to enable', |
|---|
| 1935 | id=wx.ID_ANY, |
|---|
| 1936 | kind=wx.ITEM_NORMAL, |
|---|
| 1937 | text='Export PDF...') |
|---|
| 1938 | self.ExportPDF.append(item) |
|---|
| 1939 | item.Enable(False) |
|---|
| 1940 | self.Bind(wx.EVT_MENU, self.OnExportPDF, id=item.GetId()) |
|---|
| 1941 | |
|---|
| 1942 | def FillMainMenu(self,menubar): |
|---|
| 1943 | '''Define contents of the main GSAS-II menu for the (main) data tree window. |
|---|
| 1944 | For the mac, this is also called for the data item windows as well so that |
|---|
| 1945 | the main menu items are data menu as well. |
|---|
| 1946 | ''' |
|---|
| 1947 | File = wx.Menu(title='') |
|---|
| 1948 | menubar.Append(menu=File, title='&File') |
|---|
| 1949 | self._Add_FileMenuItems(File) |
|---|
| 1950 | Data = wx.Menu(title='') |
|---|
| 1951 | menubar.Append(menu=Data, title='Data') |
|---|
| 1952 | self._Add_DataMenuItems(Data) |
|---|
| 1953 | Calculate = wx.Menu(title='') |
|---|
| 1954 | menubar.Append(menu=Calculate, title='&Calculate') |
|---|
| 1955 | self._Add_CalculateMenuItems(Calculate) |
|---|
| 1956 | Import = wx.Menu(title='') |
|---|
| 1957 | menubar.Append(menu=Import, title='Import') |
|---|
| 1958 | self._Add_ImportMenu_Phase(Import) |
|---|
| 1959 | self._Add_ImportMenu_powder(Import) |
|---|
| 1960 | self._Add_ImportMenu_Sfact(Import) |
|---|
| 1961 | self._Add_ImportMenu_smallangle(Import) |
|---|
| 1962 | #====================================================================== |
|---|
| 1963 | # Code to help develop/debug an importer, much is hard-coded below |
|---|
| 1964 | # but module is reloaded before each use, allowing faster testing |
|---|
| 1965 | # def DebugImport(event): |
|---|
| 1966 | # print 'start reload' |
|---|
| 1967 | # import G2phase_ISO as dev |
|---|
| 1968 | # reload(dev) |
|---|
| 1969 | # rd = dev.ISODISTORTPhaseReader() |
|---|
| 1970 | # self.ImportMenuId[event.GetId()] = rd |
|---|
| 1971 | # self.OnImportPhase(event) |
|---|
| 1972 | # or ---------------------------------------------------------------------- |
|---|
| 1973 | #self.OnImportGeneric(rd,[],'test of ISODISTORTPhaseReader') |
|---|
| 1974 | # special debug code |
|---|
| 1975 | # or ---------------------------------------------------------------------- |
|---|
| 1976 | # filename = '/Users/toby/projects/branton/subgroup_cif.txt' |
|---|
| 1977 | # fp = open(filename,'Ur') |
|---|
| 1978 | # if not rd.ContentsValidator(fp): |
|---|
| 1979 | # print 'not validated' |
|---|
| 1980 | # # make a list of used phase ranId's |
|---|
| 1981 | # phaseRIdList = [] |
|---|
| 1982 | # sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 1983 | # if sub: |
|---|
| 1984 | # item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 1985 | # while item: |
|---|
| 1986 | # phaseName = self.PatternTree.GetItemText(item) |
|---|
| 1987 | # ranId = self.PatternTree.GetItemPyData(item).get('ranId') |
|---|
| 1988 | # if ranId: phaseRIdList.append(ranId) |
|---|
| 1989 | # item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 1990 | # if rd.Reader(filename,fp,usedRanIdList=phaseRIdList): |
|---|
| 1991 | # print 'read OK' |
|---|
| 1992 | # item = Import.Append( |
|---|
| 1993 | # wx.ID_ANY,kind=wx.ITEM_NORMAL, |
|---|
| 1994 | # help="debug importer",text="test importer") |
|---|
| 1995 | # self.Bind(wx.EVT_MENU, DebugImport, id=item.GetId()) |
|---|
| 1996 | #====================================================================== |
|---|
| 1997 | self.ExportMenu = wx.Menu(title='') |
|---|
| 1998 | menubar.Append(menu=self.ExportMenu, title='Export') |
|---|
| 1999 | self._init_Exports(self.ExportMenu) |
|---|
| 2000 | self._Add_ExportMenuItems(self.ExportMenu) |
|---|
| 2001 | if GSASIIpath.GetConfigValue('Enable_logging'): |
|---|
| 2002 | self.MacroMenu = wx.Menu(title='') |
|---|
| 2003 | menubar.Append(menu=self.MacroMenu, title='Macro') |
|---|
| 2004 | self._init_Macro() |
|---|
| 2005 | HelpMenu=G2gd.MyHelp(self,helpType='Data tree', |
|---|
| 2006 | morehelpitems=[('&Tutorials','Tutorials')]) |
|---|
| 2007 | menubar.Append(menu=HelpMenu,title='&Help') |
|---|
| 2008 | |
|---|
| 2009 | def _init_ctrls(self, parent): |
|---|
| 2010 | wx.Frame.__init__(self, name='GSASII', parent=parent, |
|---|
| 2011 | size=wx.Size(400, 250),style=wx.DEFAULT_FRAME_STYLE, title='GSAS-II data tree') |
|---|
| 2012 | clientSize = wx.ClientDisplayRect() |
|---|
| 2013 | Size = self.GetSize() |
|---|
| 2014 | xPos = clientSize[2]-Size[0] |
|---|
| 2015 | self.SetPosition(wx.Point(xPos,clientSize[1])) |
|---|
| 2016 | self._init_Imports() |
|---|
| 2017 | #initialize Menu item objects (these contain lists of menu items that are enabled or disabled) |
|---|
| 2018 | self.MakePDF = [] |
|---|
| 2019 | self.Refine = [] |
|---|
| 2020 | self.SeqRefine = [] # pointer(s) to Sequential Refinement menu objects |
|---|
| 2021 | #self.ExportPattern = [] |
|---|
| 2022 | self.ExportPeakList = [] |
|---|
| 2023 | self.ExportHKL = [] |
|---|
| 2024 | self.ExportPDF = [] |
|---|
| 2025 | self.ExportPhase = [] |
|---|
| 2026 | self.ExportCIF = [] |
|---|
| 2027 | # |
|---|
| 2028 | self.GSASIIMenu = wx.MenuBar() |
|---|
| 2029 | # create a list of all dataframe menus (appended in PrefillDataMenu) |
|---|
| 2030 | self.dataMenuBars = [self.GSASIIMenu] |
|---|
| 2031 | self.MacroStatusList = [] |
|---|
| 2032 | self.FillMainMenu(self.GSASIIMenu) |
|---|
| 2033 | self.SetMenuBar(self.GSASIIMenu) |
|---|
| 2034 | self.Bind(wx.EVT_SIZE, self.OnSize) |
|---|
| 2035 | self.Status = self.CreateStatusBar() |
|---|
| 2036 | self.mainPanel = wx.Panel(self,-1) |
|---|
| 2037 | |
|---|
| 2038 | wxID_PATTERNTREE = wx.NewId() |
|---|
| 2039 | #self.PatternTree = wx.TreeCtrl(id=wxID_PATTERNTREE, # replaced for logging |
|---|
| 2040 | self.PatternTree = G2G.G2TreeCtrl(id=wxID_PATTERNTREE, |
|---|
| 2041 | parent=self.mainPanel, pos=wx.Point(0, 0),style=wx.TR_DEFAULT_STYLE ) |
|---|
| 2042 | self.PatternTree.Bind(wx.EVT_TREE_SEL_CHANGED, self.OnPatternTreeSelChanged) |
|---|
| 2043 | self.PatternTree.Bind(wx.EVT_TREE_ITEM_COLLAPSED, |
|---|
| 2044 | self.OnPatternTreeItemCollapsed, id=wxID_PATTERNTREE) |
|---|
| 2045 | self.PatternTree.Bind(wx.EVT_TREE_ITEM_EXPANDED, |
|---|
| 2046 | self.OnPatternTreeItemExpanded, id=wxID_PATTERNTREE) |
|---|
| 2047 | self.PatternTree.Bind(wx.EVT_TREE_DELETE_ITEM, |
|---|
| 2048 | self.OnPatternTreeItemDelete, id=wxID_PATTERNTREE) |
|---|
| 2049 | self.PatternTree.Bind(wx.EVT_TREE_KEY_DOWN, |
|---|
| 2050 | self.OnPatternTreeKeyDown, id=wxID_PATTERNTREE) |
|---|
| 2051 | self.PatternTree.Bind(wx.EVT_TREE_BEGIN_RDRAG, |
|---|
| 2052 | self.OnPatternTreeBeginRDrag, id=wxID_PATTERNTREE) |
|---|
| 2053 | self.PatternTree.Bind(wx.EVT_TREE_END_DRAG, |
|---|
| 2054 | self.OnPatternTreeEndDrag, id=wxID_PATTERNTREE) |
|---|
| 2055 | #self.root = self.PatternTree.AddRoot('Loaded Data: ') |
|---|
| 2056 | self.root = self.PatternTree.root |
|---|
| 2057 | plotFrame = wx.Frame(None,-1,'GSASII Plots',size=wx.Size(700,600), \ |
|---|
| 2058 | style=wx.DEFAULT_FRAME_STYLE ^ wx.CLOSE_BOX) |
|---|
| 2059 | self.G2plotNB = G2plt.G2PlotNoteBook(plotFrame) |
|---|
| 2060 | plotFrame.Show() |
|---|
| 2061 | |
|---|
| 2062 | self.dataDisplay = None |
|---|
| 2063 | |
|---|
| 2064 | def __init__(self, parent): |
|---|
| 2065 | self.ExportLookup = {} |
|---|
| 2066 | self._init_ctrls(parent) |
|---|
| 2067 | self.Image = wx.Image( |
|---|
| 2068 | os.path.join(GSASIIpath.path2GSAS2,'gsas2.ico'), |
|---|
| 2069 | wx.BITMAP_TYPE_ICO) |
|---|
| 2070 | if "wxMSW" in wx.PlatformInfo: |
|---|
| 2071 | img = self.Image.Scale(16, 16).ConvertToBitmap() |
|---|
| 2072 | elif "wxGTK" in wx.PlatformInfo: |
|---|
| 2073 | img = self.Image.Scale(22, 22).ConvertToBitmap() |
|---|
| 2074 | else: |
|---|
| 2075 | img = self.Image.ConvertToBitmap() |
|---|
| 2076 | self.SetIcon(wx.IconFromBitmap(img)) |
|---|
| 2077 | self.Bind(wx.EVT_CLOSE, self.ExitMain) |
|---|
| 2078 | # various defaults |
|---|
| 2079 | self.oldFocus = None |
|---|
| 2080 | self.GSASprojectfile = '' |
|---|
| 2081 | self.dirname = os.path.expanduser('~') #start in the users home directory by default; may be meaningless |
|---|
| 2082 | self.exportDir = None # the last directory used for exports, if any. |
|---|
| 2083 | self.undofile = '' |
|---|
| 2084 | self.TreeItemDelete = False |
|---|
| 2085 | self.Offset = [0.0,0.0] |
|---|
| 2086 | self.delOffset = .02 |
|---|
| 2087 | self.refOffset = -1.0 |
|---|
| 2088 | self.refDelt = .01 |
|---|
| 2089 | self.Weight = False |
|---|
| 2090 | self.IparmName = '' # to be removed when SelectPowderData & GetInstrumentFile is |
|---|
| 2091 | self.IfPlot = False |
|---|
| 2092 | self.PatternId = 0 |
|---|
| 2093 | self.PickId = 0 |
|---|
| 2094 | self.PeakTable = [] |
|---|
| 2095 | self.LimitsTable = [] |
|---|
| 2096 | self.ifX20 = True #use M20 /= (1+X20) |
|---|
| 2097 | self.HKL = [] |
|---|
| 2098 | self.Lines = [] |
|---|
| 2099 | self.itemPicked = None |
|---|
| 2100 | self.dataFrame = None |
|---|
| 2101 | self.Interpolate = 'nearest' |
|---|
| 2102 | self.ContourColor = 'Paired' |
|---|
| 2103 | self.VcovColor = 'RdYlGn' |
|---|
| 2104 | self.RamaColor = 'Blues' |
|---|
| 2105 | self.Projection = 'equal area' |
|---|
| 2106 | self.logPlot = False |
|---|
| 2107 | self.qPlot = False |
|---|
| 2108 | self.dPlot = False |
|---|
| 2109 | self.sqPlot = False |
|---|
| 2110 | self.SqrtPlot = False |
|---|
| 2111 | self.ErrorBars = False |
|---|
| 2112 | self.Contour = False |
|---|
| 2113 | self.Legend = False |
|---|
| 2114 | self.SinglePlot = True |
|---|
| 2115 | self.SubBack = False |
|---|
| 2116 | self.seqReverse = False |
|---|
| 2117 | self.plotView = 0 |
|---|
| 2118 | self.Image = 0 |
|---|
| 2119 | self.oldImagefile = '' |
|---|
| 2120 | self.ImageZ = [] |
|---|
| 2121 | self.Integrate = 0 |
|---|
| 2122 | self.imageDefault = {} |
|---|
| 2123 | self.Sngl = False |
|---|
| 2124 | self.ifGetRing = False |
|---|
| 2125 | self.MaskKey = '' #trigger for making image masks |
|---|
| 2126 | self.StrainKey = '' #ditto for new strain d-zeros |
|---|
| 2127 | self.EnablePlot = True |
|---|
| 2128 | self.Tutorials = False #used for changing default directory |
|---|
| 2129 | arg = sys.argv |
|---|
| 2130 | if len(arg) > 1 and arg[1]: |
|---|
| 2131 | self.GSASprojectfile = os.path.splitext(arg[1])[0]+'.gpx' |
|---|
| 2132 | self.dirname = os.path.dirname(arg[1]) |
|---|
| 2133 | if self.dirname: os.chdir(self.dirname) |
|---|
| 2134 | try: |
|---|
| 2135 | G2IO.ProjFileOpen(self) |
|---|
| 2136 | self.PatternTree.Expand(self.root) |
|---|
| 2137 | for item in self.Refine: item.Enable(True) |
|---|
| 2138 | self.EnableSeqRefineMenu() |
|---|
| 2139 | except: |
|---|
| 2140 | print 'Error opening file',arg[1] |
|---|
| 2141 | |
|---|
| 2142 | def OnSize(self,event): |
|---|
| 2143 | 'Called when the main window is resized. Not sure why' |
|---|
| 2144 | w,h = self.GetClientSizeTuple() |
|---|
| 2145 | self.mainPanel.SetSize(wx.Size(w,h)) |
|---|
| 2146 | self.PatternTree.SetSize(wx.Size(w,h)) |
|---|
| 2147 | |
|---|
| 2148 | def OnPatternTreeSelChanged(self, event): |
|---|
| 2149 | '''Called when a data tree item is selected''' |
|---|
| 2150 | if self.TreeItemDelete: |
|---|
| 2151 | self.TreeItemDelete = False |
|---|
| 2152 | else: |
|---|
| 2153 | pltNum = self.G2plotNB.nb.GetSelection() |
|---|
| 2154 | if pltNum >= 0: #to avoid the startup with no plot! |
|---|
| 2155 | pltPage = self.G2plotNB.nb.GetPage(pltNum) |
|---|
| 2156 | pltPlot = pltPage.figure |
|---|
| 2157 | item = event.GetItem() |
|---|
| 2158 | G2gd.MovePatternTreeToGrid(self,item) |
|---|
| 2159 | if self.oldFocus: |
|---|
| 2160 | self.oldFocus.SetFocus() |
|---|
| 2161 | |
|---|
| 2162 | def OnPatternTreeItemCollapsed(self, event): |
|---|
| 2163 | 'Called when a tree item is collapsed' |
|---|
| 2164 | event.Skip() |
|---|
| 2165 | |
|---|
| 2166 | def OnPatternTreeItemExpanded(self, event): |
|---|
| 2167 | 'Called when a tree item is expanded' |
|---|
| 2168 | event.Skip() |
|---|
| 2169 | |
|---|
| 2170 | def OnPatternTreeItemDelete(self, event): |
|---|
| 2171 | 'Called when a tree item is deleted -- not sure what this does' |
|---|
| 2172 | self.TreeItemDelete = True |
|---|
| 2173 | |
|---|
| 2174 | def OnPatternTreeItemActivated(self, event): |
|---|
| 2175 | 'Called when a tree item is activated' |
|---|
| 2176 | event.Skip() |
|---|
| 2177 | |
|---|
| 2178 | def OnPatternTreeBeginRDrag(self,event): |
|---|
| 2179 | # testing this - doesn't work! Binds commented out above |
|---|
| 2180 | event.Allow() |
|---|
| 2181 | self.BeginDragId = event.GetItem() |
|---|
| 2182 | self.ParentId = self.PatternTree.GetItemParent(self.BeginDragId) |
|---|
| 2183 | DragText = self.PatternTree.GetItemText(self.BeginDragId) |
|---|
| 2184 | self.DragData = [[DragText,self.PatternTree.GetItemPyData(self.BeginDragId)],] |
|---|
| 2185 | item, cookie = self.PatternTree.GetFirstChild(self.BeginDragId) |
|---|
| 2186 | while item: #G2 data tree has no sub children under a child of a tree item |
|---|
| 2187 | name = self.PatternTree.GetItemText(item) |
|---|
| 2188 | self.DragData.append([name,self.PatternTree.GetItemPyData(item)]) |
|---|
| 2189 | item, cookie = self.PatternTree.GetNextChild(self.BeginDragId, cookie) |
|---|
| 2190 | |
|---|
| 2191 | def OnPatternTreeEndDrag(self,event): |
|---|
| 2192 | # testing this - doesn't work! Binds commented out above |
|---|
| 2193 | event.Allow() |
|---|
| 2194 | self.EndDragId = event.GetItem() |
|---|
| 2195 | try: |
|---|
| 2196 | NewParent = self.PatternTree.GetItemParent(self.EndDragId) |
|---|
| 2197 | except: |
|---|
| 2198 | self.EndDragId = self.PatternTree.GetLastChild(self.root) |
|---|
| 2199 | NewParent = self.root |
|---|
| 2200 | if self.ParentId != NewParent: |
|---|
| 2201 | self.ErrorDialog('Drag not allowed','Wrong parent for item dragged') |
|---|
| 2202 | else: |
|---|
| 2203 | Name,Item = self.DragData[0] |
|---|
| 2204 | NewId = self.PatternTree.InsertItem(self.ParentId,self.EndDragId,Name,data=None) |
|---|
| 2205 | self.PatternTree.SetItemPyData(NewId,Item) |
|---|
| 2206 | for name,item in self.DragData[1:]: #loop over children |
|---|
| 2207 | Id = self.PatternTree.AppendItem(parent=NewId,text=name) |
|---|
| 2208 | self.PatternTree.SetItemPyData(Id,item) |
|---|
| 2209 | self.PatternTree.Delete(self.BeginDragId) |
|---|
| 2210 | G2gd.MovePatternTreeToGrid(self,NewId) |
|---|
| 2211 | |
|---|
| 2212 | def OnPatternTreeKeyDown(self,event): |
|---|
| 2213 | 'Allows stepping through the tree with the up/down arrow keys' |
|---|
| 2214 | key = event.GetKeyCode() |
|---|
| 2215 | item = self.PickId |
|---|
| 2216 | if type(item) is int: return # is this the toplevel in tree? |
|---|
| 2217 | if key == wx.WXK_UP: |
|---|
| 2218 | self.oldFocus = wx.Window.FindFocus() |
|---|
| 2219 | self.PatternTree.GetPrevSibling(item) |
|---|
| 2220 | elif key == wx.WXK_DOWN: |
|---|
| 2221 | self.oldFocus = wx.Window.FindFocus() |
|---|
| 2222 | self.PatternTree.GetNextSibling(item) |
|---|
| 2223 | |
|---|
| 2224 | def OnReadPowderPeaks(self,event): |
|---|
| 2225 | 'Bound to menu Data/Read Powder Peaks -- still needed?' |
|---|
| 2226 | Cuka = 1.54052 |
|---|
| 2227 | self.CheckNotebook() |
|---|
| 2228 | dlg = wx.FileDialog(self, 'Choose file with peak list', '.', '', |
|---|
| 2229 | 'peak files (*.txt)|*.txt|All files (*.*)|*.*',wx.OPEN|wx.CHANGE_DIR) |
|---|
| 2230 | try: |
|---|
| 2231 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2232 | self.HKL = [] |
|---|
| 2233 | self.powderfile = dlg.GetPath() |
|---|
| 2234 | comments,peaks = G2IO.GetPowderPeaks(self.powderfile) |
|---|
| 2235 | Id = self.PatternTree.AppendItem(parent=self.root,text='PKS '+os.path.basename(self.powderfile)) |
|---|
| 2236 | data = ['PKS',Cuka,0.0] |
|---|
| 2237 | names = ['Type','Lam','Zero'] |
|---|
| 2238 | codes = [0,0,0] |
|---|
| 2239 | inst = [G2IO.makeInstDict(names,data,codes),{}] |
|---|
| 2240 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Instrument Parameters'),inst) |
|---|
| 2241 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Comments'),comments) |
|---|
| 2242 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Index Peak List'),[peaks,[]]) |
|---|
| 2243 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Unit Cells List'),[]) |
|---|
| 2244 | self.PatternTree.Expand(Id) |
|---|
| 2245 | self.PatternTree.SelectItem(Id) |
|---|
| 2246 | os.chdir(dlg.GetDirectory()) # to get Mac/Linux to change directory! |
|---|
| 2247 | finally: |
|---|
| 2248 | dlg.Destroy() |
|---|
| 2249 | |
|---|
| 2250 | def OnImageRead(self,event): |
|---|
| 2251 | 'Called to read in an image in any known format' |
|---|
| 2252 | self.CheckNotebook() |
|---|
| 2253 | dlg = wx.FileDialog( |
|---|
| 2254 | self, 'Choose image files', '.', '', |
|---|
| 2255 | 'Any supported image file (*.edf;*.tif;*.tiff;*.mar*;*.ge*;*.avg;*.sum;*.img;*.G2img;*.png)|' |
|---|
| 2256 | '*.edf;*.tif;*.tiff;*.mar*;*.ge*;*.avg;*.sum;*.img;*.G2img;*.png;*.zip|' |
|---|
| 2257 | 'European detector file (*.edf)|*.edf|' |
|---|
| 2258 | 'Any detector tif (*.tif;*.tiff)|*.tif;*.tiff|' |
|---|
| 2259 | 'MAR file (*.mar*)|*.mar*|' |
|---|
| 2260 | 'GE Image (*.ge*;*.avg;*.sum)|*.ge*;*.avg;*.sum|' |
|---|
| 2261 | 'ADSC Image (*.img)|*.img|' |
|---|
| 2262 | 'GSAS-II Image (*.G2img)|*.G2img|' |
|---|
| 2263 | 'Portable Network Graphics image (*.png)|*.png|' |
|---|
| 2264 | 'Zip archive (*.zip)|*.zip|' |
|---|
| 2265 | 'All files (*.*)|*.*', |
|---|
| 2266 | wx.OPEN | wx.MULTIPLE|wx.CHANGE_DIR) |
|---|
| 2267 | try: |
|---|
| 2268 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2269 | imagefiles = dlg.GetPaths() |
|---|
| 2270 | imagefiles.sort() |
|---|
| 2271 | for imagefile in imagefiles: |
|---|
| 2272 | # if a zip file, open and extract |
|---|
| 2273 | if os.path.splitext(imagefile)[1].lower() == '.zip': |
|---|
| 2274 | extractedfile = G2IO.ExtractFileFromZip(imagefile,parent=self) |
|---|
| 2275 | if extractedfile is not None and extractedfile != imagefile: |
|---|
| 2276 | imagefile = extractedfile |
|---|
| 2277 | Comments,Data,Npix,Image = G2IO.GetImageData(self,imagefile) |
|---|
| 2278 | if Comments: |
|---|
| 2279 | Id = self.PatternTree.AppendItem(parent=self.root,text='IMG '+os.path.basename(imagefile)) |
|---|
| 2280 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Comments'),Comments) |
|---|
| 2281 | Imax = np.amax(Image) |
|---|
| 2282 | Imin = max(0.0,np.amin(Image)) #force positive |
|---|
| 2283 | if self.imageDefault: |
|---|
| 2284 | Data = copy.copy(self.imageDefault) |
|---|
| 2285 | Data['showLines'] = True |
|---|
| 2286 | Data['ring'] = [] |
|---|
| 2287 | Data['rings'] = [] |
|---|
| 2288 | Data['cutoff'] = 10 |
|---|
| 2289 | Data['pixLimit'] = 20 |
|---|
| 2290 | Data['edgemin'] = 100000000 |
|---|
| 2291 | Data['calibdmin'] = 0.5 |
|---|
| 2292 | Data['calibskip'] = 0 |
|---|
| 2293 | Data['ellipses'] = [] |
|---|
| 2294 | Data['calibrant'] = '' |
|---|
| 2295 | Data['GonioAngles'] = [0.,0.,0.] |
|---|
| 2296 | Data['DetDepthRef'] = False |
|---|
| 2297 | else: |
|---|
| 2298 | Data['type'] = 'PWDR' |
|---|
| 2299 | Data['color'] = 'Paired' |
|---|
| 2300 | Data['tilt'] = 0.0 |
|---|
| 2301 | Data['rotation'] = 0.0 |
|---|
| 2302 | Data['showLines'] = False |
|---|
| 2303 | Data['ring'] = [] |
|---|
| 2304 | Data['rings'] = [] |
|---|
| 2305 | Data['cutoff'] = 10 |
|---|
| 2306 | Data['pixLimit'] = 20 |
|---|
| 2307 | Data['calibdmin'] = 0.5 |
|---|
| 2308 | Data['calibskip'] = 0 |
|---|
| 2309 | Data['edgemin'] = 100000000 |
|---|
| 2310 | Data['ellipses'] = [] |
|---|
| 2311 | Data['GonioAngles'] = [0.,0.,0.] |
|---|
| 2312 | Data['DetDepth'] = 0. |
|---|
| 2313 | Data['DetDepthRef'] = False |
|---|
| 2314 | Data['calibrant'] = '' |
|---|
| 2315 | Data['IOtth'] = [2.0,5.0] |
|---|
| 2316 | Data['LRazimuth'] = [135,225] |
|---|
| 2317 | Data['azmthOff'] = 0.0 |
|---|
| 2318 | Data['outChannels'] = 2500 |
|---|
| 2319 | Data['outAzimuths'] = 1 |
|---|
| 2320 | Data['centerAzm'] = False |
|---|
| 2321 | Data['fullIntegrate'] = False |
|---|
| 2322 | Data['setRings'] = False |
|---|
| 2323 | Data['background image'] = ['',-1.0] |
|---|
| 2324 | Data['dark image'] = ['',-1.0] |
|---|
| 2325 | Data['setDefault'] = False |
|---|
| 2326 | Data['range'] = [(Imin,Imax),[Imin,Imax]] |
|---|
| 2327 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Image Controls'),Data) |
|---|
| 2328 | Masks = {'Points':[],'Rings':[],'Arcs':[],'Polygons':[],'Frames':[],'Thresholds':[(Imin,Imax),[Imin,Imax]]} |
|---|
| 2329 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Masks'),Masks) |
|---|
| 2330 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Stress/Strain'), |
|---|
| 2331 | {'Type':'True','d-zero':[],'Sample phi':0.0,'Sample z':0.0,'Sample load':0.0}) |
|---|
| 2332 | self.PatternTree.SetItemPyData(Id,[Npix,imagefile]) |
|---|
| 2333 | self.PickId = Id |
|---|
| 2334 | self.Image = Id |
|---|
| 2335 | os.chdir(dlg.GetDirectory()) # to get Mac/Linux to change directory! |
|---|
| 2336 | self.PatternTree.SelectItem(G2gd.GetPatternTreeItemId(self,Id,'Image Controls')) #show last one |
|---|
| 2337 | finally: |
|---|
| 2338 | path = dlg.GetDirectory() # to get Mac/Linux to change directory! |
|---|
| 2339 | os.chdir(path) |
|---|
| 2340 | dlg.Destroy() |
|---|
| 2341 | |
|---|
| 2342 | def CheckNotebook(self): |
|---|
| 2343 | '''Make sure the data tree has the minimally expected controls. |
|---|
| 2344 | (BHT) correct? |
|---|
| 2345 | ''' |
|---|
| 2346 | if not G2gd.GetPatternTreeItemId(self,self.root,'Notebook'): |
|---|
| 2347 | sub = self.PatternTree.AppendItem(parent=self.root,text='Notebook') |
|---|
| 2348 | self.PatternTree.SetItemPyData(sub,['']) |
|---|
| 2349 | if not G2gd.GetPatternTreeItemId(self,self.root,'Controls'): |
|---|
| 2350 | sub = self.PatternTree.AppendItem(parent=self.root,text='Controls') |
|---|
| 2351 | self.PatternTree.SetItemPyData(sub,copy.copy(G2obj.DefaultControls)) |
|---|
| 2352 | if not G2gd.GetPatternTreeItemId(self,self.root,'Covariance'): |
|---|
| 2353 | sub = self.PatternTree.AppendItem(parent=self.root,text='Covariance') |
|---|
| 2354 | self.PatternTree.SetItemPyData(sub,{}) |
|---|
| 2355 | if not G2gd.GetPatternTreeItemId(self,self.root,'Constraints'): |
|---|
| 2356 | sub = self.PatternTree.AppendItem(parent=self.root,text='Constraints') |
|---|
| 2357 | self.PatternTree.SetItemPyData(sub,{'Hist':[],'HAP':[],'Phase':[]}) |
|---|
| 2358 | if not G2gd.GetPatternTreeItemId(self,self.root,'Restraints'): |
|---|
| 2359 | sub = self.PatternTree.AppendItem(parent=self.root,text='Restraints') |
|---|
| 2360 | self.PatternTree.SetItemPyData(sub,{}) |
|---|
| 2361 | if not G2gd.GetPatternTreeItemId(self,self.root,'Rigid bodies'): |
|---|
| 2362 | sub = self.PatternTree.AppendItem(parent=self.root,text='Rigid bodies') |
|---|
| 2363 | self.PatternTree.SetItemPyData(sub,{'Vector':{'AtInfo':{}}, |
|---|
| 2364 | 'Residue':{'AtInfo':{}},'RBIds':{'Vector':[],'Residue':[]}}) |
|---|
| 2365 | |
|---|
| 2366 | class CopyDialog(wx.Dialog): |
|---|
| 2367 | '''Creates a dialog for copying control settings between |
|---|
| 2368 | data tree items''' |
|---|
| 2369 | def __init__(self,parent,title,text,data): |
|---|
| 2370 | wx.Dialog.__init__(self,parent,-1,title, |
|---|
| 2371 | pos=wx.DefaultPosition,style=wx.DEFAULT_DIALOG_STYLE) |
|---|
| 2372 | self.data = data |
|---|
| 2373 | panel = wx.Panel(self) |
|---|
| 2374 | mainSizer = wx.BoxSizer(wx.VERTICAL) |
|---|
| 2375 | topLabl = wx.StaticText(panel,-1,text) |
|---|
| 2376 | mainSizer.Add((10,10),1) |
|---|
| 2377 | mainSizer.Add(topLabl,0,wx.ALIGN_CENTER_VERTICAL|wx.LEFT,10) |
|---|
| 2378 | mainSizer.Add((10,10),1) |
|---|
| 2379 | ncols = len(data)/40+1 |
|---|
| 2380 | dataGridSizer = wx.FlexGridSizer(cols=ncols,hgap=2,vgap=2) |
|---|
| 2381 | for id,item in enumerate(self.data): |
|---|
| 2382 | ckbox = wx.CheckBox(panel,id,item[1]) |
|---|
| 2383 | ckbox.Bind(wx.EVT_CHECKBOX,self.OnCopyChange) |
|---|
| 2384 | dataGridSizer.Add(ckbox,0,wx.LEFT,10) |
|---|
| 2385 | mainSizer.Add(dataGridSizer,0,wx.EXPAND) |
|---|
| 2386 | OkBtn = wx.Button(panel,-1,"Ok") |
|---|
| 2387 | OkBtn.Bind(wx.EVT_BUTTON, self.OnOk) |
|---|
| 2388 | cancelBtn = wx.Button(panel,-1,"Cancel") |
|---|
| 2389 | cancelBtn.Bind(wx.EVT_BUTTON, self.OnCancel) |
|---|
| 2390 | btnSizer = wx.BoxSizer(wx.HORIZONTAL) |
|---|
| 2391 | btnSizer.Add((20,20),1) |
|---|
| 2392 | btnSizer.Add(OkBtn) |
|---|
| 2393 | btnSizer.Add((20,20),1) |
|---|
| 2394 | btnSizer.Add(cancelBtn) |
|---|
| 2395 | btnSizer.Add((20,20),1) |
|---|
| 2396 | |
|---|
| 2397 | mainSizer.Add(btnSizer,0,wx.EXPAND|wx.BOTTOM|wx.TOP, 10) |
|---|
| 2398 | panel.SetSizer(mainSizer) |
|---|
| 2399 | panel.Fit() |
|---|
| 2400 | self.Fit() |
|---|
| 2401 | |
|---|
| 2402 | def OnCopyChange(self,event): |
|---|
| 2403 | id = event.GetId() |
|---|
| 2404 | self.data[id][0] = self.FindWindowById(id).GetValue() |
|---|
| 2405 | |
|---|
| 2406 | def OnOk(self,event): |
|---|
| 2407 | parent = self.GetParent() |
|---|
| 2408 | parent.Raise() |
|---|
| 2409 | self.EndModal(wx.ID_OK) |
|---|
| 2410 | |
|---|
| 2411 | def OnCancel(self,event): |
|---|
| 2412 | parent = self.GetParent() |
|---|
| 2413 | parent.Raise() |
|---|
| 2414 | self.EndModal(wx.ID_CANCEL) |
|---|
| 2415 | |
|---|
| 2416 | def GetData(self): |
|---|
| 2417 | return self.data |
|---|
| 2418 | |
|---|
| 2419 | class SumDialog(wx.Dialog): |
|---|
| 2420 | 'Allows user to supply scale factor(s) when summing data' |
|---|
| 2421 | def __init__(self,parent,title,text,dataType,data): |
|---|
| 2422 | wx.Dialog.__init__(self,parent,-1,title, |
|---|
| 2423 | pos=wx.DefaultPosition,style=wx.DEFAULT_DIALOG_STYLE) |
|---|
| 2424 | self.data = data |
|---|
| 2425 | panel = wx.Panel(self) |
|---|
| 2426 | mainSizer = wx.BoxSizer(wx.VERTICAL) |
|---|
| 2427 | topLabl = wx.StaticText(panel,-1,text) |
|---|
| 2428 | mainSizer.Add((10,10),1) |
|---|
| 2429 | mainSizer.Add(topLabl,0,wx.ALIGN_CENTER_VERTICAL|wx.LEFT,10) |
|---|
| 2430 | mainSizer.Add((10,10),1) |
|---|
| 2431 | dataGridSizer = wx.FlexGridSizer(cols=2,hgap=2,vgap=2) |
|---|
| 2432 | for id,item in enumerate(self.data[:-1]): |
|---|
| 2433 | name = wx.TextCtrl(panel,-1,item[1],size=wx.Size(200,20)) |
|---|
| 2434 | name.SetEditable(False) |
|---|
| 2435 | scale = wx.TextCtrl(panel,id,'%.3f'%(item[0]),style=wx.TE_PROCESS_ENTER) |
|---|
| 2436 | scale.Bind(wx.EVT_TEXT_ENTER,self.OnScaleChange) |
|---|
| 2437 | scale.Bind(wx.EVT_KILL_FOCUS,self.OnScaleChange) |
|---|
| 2438 | dataGridSizer.Add(scale,0,wx.LEFT,10) |
|---|
| 2439 | dataGridSizer.Add(name,0,wx.RIGHT,10) |
|---|
| 2440 | if dataType: |
|---|
| 2441 | dataGridSizer.Add(wx.StaticText(panel,-1,'Sum result name: '+dataType),0, \ |
|---|
| 2442 | wx.LEFT|wx.TOP|wx.ALIGN_CENTER_VERTICAL,10) |
|---|
| 2443 | self.name = wx.TextCtrl(panel,-1,self.data[-1],size=wx.Size(200,20),style=wx.TE_PROCESS_ENTER) |
|---|
| 2444 | self.name.Bind(wx.EVT_TEXT_ENTER,self.OnNameChange) |
|---|
| 2445 | self.name.Bind(wx.EVT_KILL_FOCUS,self.OnNameChange) |
|---|
| 2446 | dataGridSizer.Add(self.name,0,wx.RIGHT|wx.TOP,10) |
|---|
| 2447 | mainSizer.Add(dataGridSizer,0,wx.EXPAND) |
|---|
| 2448 | OkBtn = wx.Button(panel,-1,"Ok") |
|---|
| 2449 | OkBtn.Bind(wx.EVT_BUTTON, self.OnOk) |
|---|
| 2450 | cancelBtn = wx.Button(panel,-1,"Cancel") |
|---|
| 2451 | cancelBtn.Bind(wx.EVT_BUTTON, self.OnCancel) |
|---|
| 2452 | btnSizer = wx.BoxSizer(wx.HORIZONTAL) |
|---|
| 2453 | btnSizer.Add((20,20),1) |
|---|
| 2454 | btnSizer.Add(OkBtn) |
|---|
| 2455 | btnSizer.Add((20,20),1) |
|---|
| 2456 | btnSizer.Add(cancelBtn) |
|---|
| 2457 | btnSizer.Add((20,20),1) |
|---|
| 2458 | |
|---|
| 2459 | mainSizer.Add(btnSizer,0,wx.EXPAND|wx.BOTTOM|wx.TOP, 10) |
|---|
| 2460 | panel.SetSizer(mainSizer) |
|---|
| 2461 | panel.Fit() |
|---|
| 2462 | self.Fit() |
|---|
| 2463 | |
|---|
| 2464 | def OnScaleChange(self,event): |
|---|
| 2465 | id = event.GetId() |
|---|
| 2466 | value = self.FindWindowById(id).GetValue() |
|---|
| 2467 | try: |
|---|
| 2468 | self.data[id][0] = float(value) |
|---|
| 2469 | self.FindWindowById(id).SetValue('%.3f'%(self.data[id][0])) |
|---|
| 2470 | except ValueError: |
|---|
| 2471 | if value and '-' not in value[0]: |
|---|
| 2472 | print 'bad input - numbers only' |
|---|
| 2473 | self.FindWindowById(id).SetValue('0.000') |
|---|
| 2474 | |
|---|
| 2475 | def OnNameChange(self,event): |
|---|
| 2476 | self.data[-1] = self.name.GetValue() |
|---|
| 2477 | |
|---|
| 2478 | def OnOk(self,event): |
|---|
| 2479 | parent = self.GetParent() |
|---|
| 2480 | parent.Raise() |
|---|
| 2481 | self.EndModal(wx.ID_OK) |
|---|
| 2482 | |
|---|
| 2483 | def OnCancel(self,event): |
|---|
| 2484 | parent = self.GetParent() |
|---|
| 2485 | parent.Raise() |
|---|
| 2486 | self.EndModal(wx.ID_CANCEL) |
|---|
| 2487 | |
|---|
| 2488 | def GetData(self): |
|---|
| 2489 | return self.data |
|---|
| 2490 | |
|---|
| 2491 | def OnPwdrSum(self,event): |
|---|
| 2492 | 'Sum together powder data(?)' |
|---|
| 2493 | TextList = [] |
|---|
| 2494 | DataList = [] |
|---|
| 2495 | SumList = [] |
|---|
| 2496 | Names = [] |
|---|
| 2497 | Inst = None |
|---|
| 2498 | SumItemList = [] |
|---|
| 2499 | Comments = ['Sum equals: \n'] |
|---|
| 2500 | if self.PatternTree.GetCount(): |
|---|
| 2501 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2502 | while item: |
|---|
| 2503 | name = self.PatternTree.GetItemText(item) |
|---|
| 2504 | Names.append(name) |
|---|
| 2505 | if 'PWDR' in name: |
|---|
| 2506 | TextList.append([0.0,name]) |
|---|
| 2507 | DataList.append(self.PatternTree.GetItemPyData(item)[1]) # (x,y,w,yc,yb,yd) |
|---|
| 2508 | if not Inst: |
|---|
| 2509 | Inst = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,item, 'Instrument Parameters')) |
|---|
| 2510 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2511 | if len(TextList) < 2: |
|---|
| 2512 | self.ErrorDialog('Not enough data to sum','There must be more than one "PWDR" pattern') |
|---|
| 2513 | return |
|---|
| 2514 | TextList.append('default_sum_name') |
|---|
| 2515 | dlg = self.SumDialog(self,'Sum data','Enter scale for each pattern in summation','PWDR',TextList) |
|---|
| 2516 | try: |
|---|
| 2517 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2518 | lenX = 0 |
|---|
| 2519 | Xminmax = [0,0] |
|---|
| 2520 | Xsum = [] |
|---|
| 2521 | Ysum = [] |
|---|
| 2522 | Vsum = [] |
|---|
| 2523 | result = dlg.GetData() |
|---|
| 2524 | for i,item in enumerate(result[:-1]): |
|---|
| 2525 | scale,name = item |
|---|
| 2526 | data = DataList[i] |
|---|
| 2527 | if scale: |
|---|
| 2528 | Comments.append("%10.3f %s" % (scale,' * '+name)) |
|---|
| 2529 | x,y,w,yc,yb,yd = data #numpy arrays! |
|---|
| 2530 | v = 1./w |
|---|
| 2531 | if lenX: |
|---|
| 2532 | if lenX != len(x): |
|---|
| 2533 | self.ErrorDialog('Data length error','Data to be summed must have same number of points'+ \ |
|---|
| 2534 | '\nExpected:'+str(lenX)+ \ |
|---|
| 2535 | '\nFound: '+str(len(x))+'\nfor '+name) |
|---|
| 2536 | return |
|---|
| 2537 | else: |
|---|
| 2538 | lenX = len(x) |
|---|
| 2539 | if Xminmax[1]: |
|---|
| 2540 | if Xminmax != [x[0],x[-1]]: |
|---|
| 2541 | self.ErrorDialog('Data range error','Data to be summed must span same range'+ \ |
|---|
| 2542 | '\nExpected:'+str(Xminmax[0])+' '+str(Xminmax[1])+ \ |
|---|
| 2543 | '\nFound: '+str(x[0])+' '+str(x[-1])+'\nfor '+name) |
|---|
| 2544 | return |
|---|
| 2545 | else: |
|---|
| 2546 | for j,yi in enumerate(y): |
|---|
| 2547 | Ysum[j] += scale*yi |
|---|
| 2548 | Vsum[j] += abs(scale)*v[j] |
|---|
| 2549 | else: |
|---|
| 2550 | Xminmax = [x[0],x[-1]] |
|---|
| 2551 | YCsum = YBsum = YDsum = [0.0 for i in range(lenX)] |
|---|
| 2552 | for j,yi in enumerate(y): |
|---|
| 2553 | Xsum.append(x[j]) |
|---|
| 2554 | Ysum.append(scale*yi) |
|---|
| 2555 | Vsum.append(abs(scale*v[j])) |
|---|
| 2556 | Wsum = 1./np.array(Vsum) |
|---|
| 2557 | outname = 'PWDR '+result[-1] |
|---|
| 2558 | Id = 0 |
|---|
| 2559 | if outname in Names: |
|---|
| 2560 | dlg2 = wx.MessageDialog(self,'Overwrite data?','Duplicate data name',wx.OK|wx.CANCEL) |
|---|
| 2561 | try: |
|---|
| 2562 | if dlg2.ShowModal() == wx.ID_OK: |
|---|
| 2563 | Id = G2gd.GetPatternTreeItemId(self,self.root,name) |
|---|
| 2564 | self.PatternTree.Delete(Id) |
|---|
| 2565 | finally: |
|---|
| 2566 | dlg2.Destroy() |
|---|
| 2567 | Id = self.PatternTree.AppendItem(parent=self.root,text=outname) |
|---|
| 2568 | if Id: |
|---|
| 2569 | Sample = G2pdG.SetDefaultSample() |
|---|
| 2570 | valuesdict = { |
|---|
| 2571 | 'wtFactor':1.0, |
|---|
| 2572 | 'Dummy':False, |
|---|
| 2573 | 'ranId':ran.randint(0,sys.maxint), |
|---|
| 2574 | } |
|---|
| 2575 | self.PatternTree.SetItemPyData(Id,[valuesdict,[np.array(Xsum),np.array(Ysum),np.array(Wsum), |
|---|
| 2576 | np.array(YCsum),np.array(YBsum),np.array(YDsum)]]) |
|---|
| 2577 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Comments'),Comments) |
|---|
| 2578 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Limits'),[tuple(Xminmax),Xminmax]) |
|---|
| 2579 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Background'),[['chebyschev',True,3,1.0,0.0,0.0], |
|---|
| 2580 | {'nDebye':0,'debyeTerms':[],'nPeaks':0,'peaksList':[]}]) |
|---|
| 2581 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Instrument Parameters'),Inst) |
|---|
| 2582 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Sample Parameters'),Sample) |
|---|
| 2583 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Peak List'),{'peaks':[],'sigDict':{}}) |
|---|
| 2584 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Index Peak List'),[[],[]]) |
|---|
| 2585 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Unit Cells List'),[]) |
|---|
| 2586 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Reflection Lists'),{}) |
|---|
| 2587 | self.PatternTree.SelectItem(Id) |
|---|
| 2588 | self.PatternTree.Expand(Id) |
|---|
| 2589 | finally: |
|---|
| 2590 | dlg.Destroy() |
|---|
| 2591 | |
|---|
| 2592 | def OnImageSum(self,event): |
|---|
| 2593 | 'Sum together image data(?)' |
|---|
| 2594 | TextList = [] |
|---|
| 2595 | DataList = [] |
|---|
| 2596 | SumList = [] |
|---|
| 2597 | Names = [] |
|---|
| 2598 | Inst = [] |
|---|
| 2599 | SumItemList = [] |
|---|
| 2600 | Comments = ['Sum equals: \n'] |
|---|
| 2601 | if self.PatternTree.GetCount(): |
|---|
| 2602 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2603 | while item: |
|---|
| 2604 | name = self.PatternTree.GetItemText(item) |
|---|
| 2605 | Names.append(name) |
|---|
| 2606 | if 'IMG' in name: |
|---|
| 2607 | TextList.append([0.0,name]) |
|---|
| 2608 | DataList.append(self.PatternTree.GetItemPyData(item)) #Size,Image |
|---|
| 2609 | Data = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,item,'Image Controls')) |
|---|
| 2610 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2611 | if len(TextList) < 2: |
|---|
| 2612 | self.ErrorDialog('Not enough data to sum','There must be more than one "IMG" pattern') |
|---|
| 2613 | return |
|---|
| 2614 | TextList.append('default_sum_name') |
|---|
| 2615 | dlg = self.SumDialog(self,'Sum data','Enter scale for each image in summation','IMG',TextList) |
|---|
| 2616 | try: |
|---|
| 2617 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2618 | imSize = 0 |
|---|
| 2619 | result = dlg.GetData() |
|---|
| 2620 | First = True |
|---|
| 2621 | Found = False |
|---|
| 2622 | for i,item in enumerate(result[:-1]): |
|---|
| 2623 | scale,name = item |
|---|
| 2624 | data = DataList[i] |
|---|
| 2625 | if scale: |
|---|
| 2626 | Found = True |
|---|
| 2627 | Comments.append("%10.3f %s" % (scale,' * '+name)) |
|---|
| 2628 | Npix,imagefile = data |
|---|
| 2629 | image = G2IO.GetImageData(self,imagefile,imageOnly=True) |
|---|
| 2630 | if First: |
|---|
| 2631 | newImage = np.zeros_like(image) |
|---|
| 2632 | First = False |
|---|
| 2633 | if imSize: |
|---|
| 2634 | if imSize != Npix: |
|---|
| 2635 | self.ErrorDialog('Image size error','Images to be summed must be same size'+ \ |
|---|
| 2636 | '\nExpected:'+str(imSize)+ \ |
|---|
| 2637 | '\nFound: '+str(Npix)+'\nfor '+name) |
|---|
| 2638 | return |
|---|
| 2639 | newImage = newImage+scale*image |
|---|
| 2640 | else: |
|---|
| 2641 | imSize = Npix |
|---|
| 2642 | newImage = newImage+scale*image |
|---|
| 2643 | del(image) |
|---|
| 2644 | if not Found: |
|---|
| 2645 | self.ErrorDialog('Image sum error','No nonzero image multipliers found') |
|---|
| 2646 | return |
|---|
| 2647 | |
|---|
| 2648 | newImage = np.asfarray(newImage,dtype=np.float32) |
|---|
| 2649 | outname = 'IMG '+result[-1] |
|---|
| 2650 | Id = 0 |
|---|
| 2651 | if outname in Names: |
|---|
| 2652 | dlg2 = wx.MessageDialog(self,'Overwrite data?','Duplicate data name',wx.OK|wx.CANCEL) |
|---|
| 2653 | try: |
|---|
| 2654 | if dlg2.ShowModal() == wx.ID_OK: |
|---|
| 2655 | Id = G2gd.GetPatternTreeItemId(self,self.root,name) |
|---|
| 2656 | finally: |
|---|
| 2657 | dlg2.Destroy() |
|---|
| 2658 | else: |
|---|
| 2659 | Id = self.PatternTree.AppendItem(parent=self.root,text=outname) |
|---|
| 2660 | if Id: |
|---|
| 2661 | dlg = wx.FileDialog(self, 'Choose sum image filename', '.', '', |
|---|
| 2662 | 'G2img files (*.G2img)|*.G2img', |
|---|
| 2663 | wx.SAVE|wx.FD_OVERWRITE_PROMPT|wx.CHANGE_DIR) |
|---|
| 2664 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2665 | newimagefile = dlg.GetPath() |
|---|
| 2666 | newimagefile = G2IO.FileDlgFixExt(dlg,newimagefile) |
|---|
| 2667 | G2IO.PutG2Image(newimagefile,Comments,Data,Npix,newImage) |
|---|
| 2668 | Imax = np.amax(newImage) |
|---|
| 2669 | Imin = np.amin(newImage) |
|---|
| 2670 | newImage = [] |
|---|
| 2671 | self.PatternTree.SetItemPyData(Id,[imSize,newimagefile]) |
|---|
| 2672 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Comments'),Comments) |
|---|
| 2673 | del(newImage) |
|---|
| 2674 | if self.imageDefault: |
|---|
| 2675 | Data = copy.copy(self.imageDefault) |
|---|
| 2676 | Data['showLines'] = True |
|---|
| 2677 | Data['ring'] = [] |
|---|
| 2678 | Data['rings'] = [] |
|---|
| 2679 | Data['cutoff'] = 10 |
|---|
| 2680 | Data['pixLimit'] = 20 |
|---|
| 2681 | Data['ellipses'] = [] |
|---|
| 2682 | Data['calibrant'] = '' |
|---|
| 2683 | Data['range'] = [(Imin,Imax),[Imin,Imax]] |
|---|
| 2684 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Image Controls'),Data) |
|---|
| 2685 | Masks = {'Points':[],'Rings':[],'Arcs':[],'Polygons':[],'Frames':[],'Thresholds':[(Imin,Imax),[Imin,Imax]]} |
|---|
| 2686 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Masks'),Masks) |
|---|
| 2687 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='Stress/Strain'), |
|---|
| 2688 | {'Type':'True','d-zero':[],'Sample phi':0.0,'Sample z':0.0,'Sample load':0.0}) |
|---|
| 2689 | self.PatternTree.SelectItem(Id) |
|---|
| 2690 | self.PatternTree.Expand(Id) |
|---|
| 2691 | self.PickId = G2gd.GetPatternTreeItemId(self,self.root,outname) |
|---|
| 2692 | self.Image = self.PickId |
|---|
| 2693 | finally: |
|---|
| 2694 | dlg.Destroy() |
|---|
| 2695 | |
|---|
| 2696 | def OnAddPhase(self,event): |
|---|
| 2697 | 'Add a new, empty phase to the tree. Called by Data/Add Phase menu' |
|---|
| 2698 | if not G2gd.GetPatternTreeItemId(self,self.root,'Phases'): |
|---|
| 2699 | sub = self.PatternTree.AppendItem(parent=self.root,text='Phases') |
|---|
| 2700 | else: |
|---|
| 2701 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 2702 | PhaseName = '' |
|---|
| 2703 | dlg = wx.TextEntryDialog(None,'Enter a name for this phase','Phase Name Entry','New phase', |
|---|
| 2704 | style=wx.OK) |
|---|
| 2705 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2706 | PhaseName = dlg.GetValue() |
|---|
| 2707 | dlg.Destroy() |
|---|
| 2708 | sub = self.PatternTree.AppendItem(parent=sub,text=PhaseName) |
|---|
| 2709 | E,SGData = G2spc.SpcGroup('P 1') |
|---|
| 2710 | self.PatternTree.SetItemPyData(sub,G2IO.SetNewPhase(Name=PhaseName,SGData=SGData)) |
|---|
| 2711 | |
|---|
| 2712 | def OnDeletePhase(self,event): |
|---|
| 2713 | 'Delete a phase from the tree. Called by Data/Delete Phase menu' |
|---|
| 2714 | #Hmm, also need to delete this phase from Reflection Lists for each PWDR histogram |
|---|
| 2715 | if self.dataFrame: |
|---|
| 2716 | self.dataFrame.Clear() |
|---|
| 2717 | TextList = [] |
|---|
| 2718 | DelList = [] |
|---|
| 2719 | DelItemList = [] |
|---|
| 2720 | if G2gd.GetPatternTreeItemId(self,self.root,'Phases'): |
|---|
| 2721 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 2722 | else: |
|---|
| 2723 | return |
|---|
| 2724 | if sub: |
|---|
| 2725 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 2726 | while item: |
|---|
| 2727 | TextList.append(self.PatternTree.GetItemText(item)) |
|---|
| 2728 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 2729 | dlg = wx.MultiChoiceDialog(self, 'Which phase to delete?', 'Delete phase', TextList, wx.CHOICEDLG_STYLE) |
|---|
| 2730 | try: |
|---|
| 2731 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2732 | result = dlg.GetSelections() |
|---|
| 2733 | for i in result: DelList.append([i,TextList[i]]) |
|---|
| 2734 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 2735 | i = 0 |
|---|
| 2736 | while item: |
|---|
| 2737 | if [i,self.PatternTree.GetItemText(item)] in DelList: DelItemList.append(item) |
|---|
| 2738 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 2739 | i += 1 |
|---|
| 2740 | for item in DelItemList: |
|---|
| 2741 | name = self.PatternTree.GetItemText(item) |
|---|
| 2742 | self.PatternTree.Delete(item) |
|---|
| 2743 | self.G2plotNB.Delete(name) |
|---|
| 2744 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2745 | while item: |
|---|
| 2746 | name = self.PatternTree.GetItemText(item) |
|---|
| 2747 | if 'PWDR' in name: |
|---|
| 2748 | Id = G2gd.GetPatternTreeItemId(self,item, 'Reflection Lists') |
|---|
| 2749 | refList = self.PatternTree.GetItemPyData(Id) |
|---|
| 2750 | if len(refList): |
|---|
| 2751 | for i,item in DelList: |
|---|
| 2752 | if item in refList: |
|---|
| 2753 | del(refList[item]) |
|---|
| 2754 | self.PatternTree.SetItemPyData(Id,refList) |
|---|
| 2755 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2756 | finally: |
|---|
| 2757 | dlg.Destroy() |
|---|
| 2758 | |
|---|
| 2759 | def OnRenameData(self,event): |
|---|
| 2760 | 'Renames an existing phase. Called by Data/Rename Phase menu' |
|---|
| 2761 | name = self.PatternTree.GetItemText(self.PickId) |
|---|
| 2762 | if 'PWDR' in name or 'HKLF' in name or 'IMG' in name: |
|---|
| 2763 | dataType = name[:name.index(' ')+1] #includes the ' ' |
|---|
| 2764 | dlg = wx.TextEntryDialog(self,'Data name: '+dataType,'Change data name', |
|---|
| 2765 | defaultValue=name[name.index(' ')+1:]) |
|---|
| 2766 | try: |
|---|
| 2767 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2768 | self.PatternTree.SetItemText(self.PickId,dataType+dlg.GetValue()) |
|---|
| 2769 | finally: |
|---|
| 2770 | dlg.Destroy() |
|---|
| 2771 | |
|---|
| 2772 | def GetFileList(self,fileType,skip=None): #potentially useful? |
|---|
| 2773 | 'Appears unused. Note routine of same name in GSASIIpwdGUI' |
|---|
| 2774 | fileList = [] |
|---|
| 2775 | Source = '' |
|---|
| 2776 | id, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2777 | while id: |
|---|
| 2778 | name = self.PatternTree.GetItemText(id) |
|---|
| 2779 | if fileType in name: |
|---|
| 2780 | if id == skip: |
|---|
| 2781 | Source = name |
|---|
| 2782 | else: |
|---|
| 2783 | fileList.append([False,name,id]) |
|---|
| 2784 | id, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2785 | if skip: |
|---|
| 2786 | return fileList,Source |
|---|
| 2787 | else: |
|---|
| 2788 | return fileList |
|---|
| 2789 | |
|---|
| 2790 | def OnDataDelete(self, event): |
|---|
| 2791 | '''Delete one or more histograms from data tree. Called by the |
|---|
| 2792 | Data/DeleteData menu |
|---|
| 2793 | ''' |
|---|
| 2794 | TextList = ['All Data'] |
|---|
| 2795 | DelList = [] |
|---|
| 2796 | DelItemList = [] |
|---|
| 2797 | nItems = {'PWDR':0,'SASD':0,'IMG':0,'HKLF':0,'PDF':0} |
|---|
| 2798 | ifPWDR = False |
|---|
| 2799 | ifSASD = False |
|---|
| 2800 | ifIMG = False |
|---|
| 2801 | ifHKLF = False |
|---|
| 2802 | ifPDF = False |
|---|
| 2803 | if self.PatternTree.GetCount(): |
|---|
| 2804 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2805 | while item: |
|---|
| 2806 | name = self.PatternTree.GetItemText(item) |
|---|
| 2807 | if name not in ['Notebook','Controls','Covariance','Constraints', |
|---|
| 2808 | 'Restraints','Phases','Rigid bodies']: |
|---|
| 2809 | if 'PWDR' in name: ifPWDR = True; nItems['PWDR'] += 1 |
|---|
| 2810 | if 'SASD' in name: ifSASD = True; nItems['SASD'] += 1 |
|---|
| 2811 | if 'IMG' in name: ifIMG = True; nItems['IMG'] += 1 |
|---|
| 2812 | if 'HKLF' in name: ifHKLF = True; nItems['HKLF'] += 1 |
|---|
| 2813 | if 'PDF' in name: ifPDF = True; nItems['PDF'] += 1 |
|---|
| 2814 | TextList.append(name) |
|---|
| 2815 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2816 | if ifPWDR: TextList.insert(1,'All PWDR') |
|---|
| 2817 | if ifSASD: TextList.insert(1,'All SASD') |
|---|
| 2818 | if ifIMG: TextList.insert(1,'All IMG') |
|---|
| 2819 | if ifHKLF: TextList.insert(1,'All HKLF') |
|---|
| 2820 | if ifPDF: TextList.insert(1,'All PDF') |
|---|
| 2821 | dlg = wx.MultiChoiceDialog(self, 'Which data to delete?', 'Delete data', TextList, wx.CHOICEDLG_STYLE) |
|---|
| 2822 | try: |
|---|
| 2823 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2824 | result = dlg.GetSelections() |
|---|
| 2825 | for i in result: DelList.append(TextList[i]) |
|---|
| 2826 | if 'All Data' in DelList: |
|---|
| 2827 | DelList = [item for item in TextList if item[:3] != 'All'] |
|---|
| 2828 | elif 'All PWDR' in DelList: |
|---|
| 2829 | DelList = [item for item in TextList if item[:4] == 'PWDR'] |
|---|
| 2830 | elif 'All SASD' in DelList: |
|---|
| 2831 | DelList = [item for item in TextList if item[:4] == 'SASD'] |
|---|
| 2832 | elif 'All IMG' in DelList: |
|---|
| 2833 | DelList = [item for item in TextList if item[:3] == 'IMG'] |
|---|
| 2834 | elif 'All HKLF' in DelList: |
|---|
| 2835 | DelList = [item for item in TextList if item[:4] == 'HKLF'] |
|---|
| 2836 | elif 'All PDF' in DelList: |
|---|
| 2837 | DelList = [item for item in TextList if item[:3] == 'PDF'] |
|---|
| 2838 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2839 | while item: |
|---|
| 2840 | itemName = self.PatternTree.GetItemText(item) |
|---|
| 2841 | if itemName in DelList: |
|---|
| 2842 | if 'PWDR' in itemName: nItems['PWDR'] -= 1 |
|---|
| 2843 | elif 'SASD' in itemName: nItems['SASD'] -= 1 |
|---|
| 2844 | elif 'IMG' in itemName: nItems['IMG'] -= 1 |
|---|
| 2845 | elif 'HKLF' in itemName: nItems['HKLF'] -= 1 |
|---|
| 2846 | elif 'PDF' in itemName: nItems['PDF'] -= 1 |
|---|
| 2847 | DelItemList.append(item) |
|---|
| 2848 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2849 | for item in DelItemList: |
|---|
| 2850 | self.PatternTree.Delete(item) |
|---|
| 2851 | self.PickId = 0 |
|---|
| 2852 | if nItems['PWDR']: |
|---|
| 2853 | wx.CallAfter(G2plt.PlotPatterns,self,True) |
|---|
| 2854 | else: |
|---|
| 2855 | self.G2plotNB.Delete('Powder Patterns') |
|---|
| 2856 | if not nItems['IMG']: |
|---|
| 2857 | self.G2plotNB.Delete('2D Powder Image') |
|---|
| 2858 | if not nItems['HKLF']: |
|---|
| 2859 | self.G2plotNB.Delete('Structure Factors') |
|---|
| 2860 | if '3D Structure Factors' in self.G2plotNB.plotList: |
|---|
| 2861 | self.G2plotNB.Delete('3D Structure Factors') |
|---|
| 2862 | finally: |
|---|
| 2863 | dlg.Destroy() |
|---|
| 2864 | |
|---|
| 2865 | def OnFileOpen(self, event, filename=None): |
|---|
| 2866 | '''Reads in a GSAS-II .gpx project file in response to the |
|---|
| 2867 | File/Open Project menu button |
|---|
| 2868 | ''' |
|---|
| 2869 | result = wx.ID_OK |
|---|
| 2870 | Id = 0 |
|---|
| 2871 | self.EnablePlot = False |
|---|
| 2872 | if self.PatternTree.GetChildrenCount(self.root,False): |
|---|
| 2873 | if self.dataFrame: |
|---|
| 2874 | self.dataFrame.Clear() |
|---|
| 2875 | dlg = wx.MessageDialog( |
|---|
| 2876 | self, |
|---|
| 2877 | 'Do you want to overwrite the current project? ' |
|---|
| 2878 | 'Any unsaved changes will be lost. Press OK to continue.', |
|---|
| 2879 | 'Overwrite?', wx.OK | wx.CANCEL) |
|---|
| 2880 | try: |
|---|
| 2881 | result = dlg.ShowModal() |
|---|
| 2882 | if result == wx.ID_OK: |
|---|
| 2883 | self.PatternTree.DeleteChildren(self.root) |
|---|
| 2884 | self.GSASprojectfile = '' |
|---|
| 2885 | if self.HKL: self.HKL = [] |
|---|
| 2886 | if self.G2plotNB.plotList: |
|---|
| 2887 | self.G2plotNB.clear() |
|---|
| 2888 | finally: |
|---|
| 2889 | dlg.Destroy() |
|---|
| 2890 | if result != wx.ID_OK: return |
|---|
| 2891 | |
|---|
| 2892 | if not filename: |
|---|
| 2893 | if self.dataDisplay: self.dataDisplay.Destroy() |
|---|
| 2894 | dlg = wx.FileDialog(self, 'Choose GSAS-II project file', '.', '', |
|---|
| 2895 | 'GSAS-II project file (*.gpx)|*.gpx',wx.OPEN|wx.CHANGE_DIR) |
|---|
| 2896 | try: |
|---|
| 2897 | if dlg.ShowModal() != wx.ID_OK: return |
|---|
| 2898 | self.GSASprojectfile = dlg.GetPath() |
|---|
| 2899 | self.GSASprojectfile = G2IO.FileDlgFixExt(dlg,self.GSASprojectfile) |
|---|
| 2900 | self.dirname = dlg.GetDirectory() |
|---|
| 2901 | finally: |
|---|
| 2902 | dlg.Destroy() |
|---|
| 2903 | else: |
|---|
| 2904 | self.GSASprojectfile = os.path.splitext(filename)[0]+'.gpx' |
|---|
| 2905 | self.dirname = os.path.split(filename)[0] |
|---|
| 2906 | |
|---|
| 2907 | G2IO.ProjFileOpen(self) |
|---|
| 2908 | self.PatternTree.SetItemText(self.root,'Loaded Data: '+self.GSASprojectfile) |
|---|
| 2909 | self.PatternTree.Expand(self.root) |
|---|
| 2910 | self.HKL = [] |
|---|
| 2911 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2912 | while item and not Id: |
|---|
| 2913 | name = self.PatternTree.GetItemText(item) |
|---|
| 2914 | if name[:4] in ['PWDR','HKLF','IMG ','PDF ','SASD',]: |
|---|
| 2915 | Id = item |
|---|
| 2916 | elif name == 'Controls': |
|---|
| 2917 | data = self.PatternTree.GetItemPyData(item) |
|---|
| 2918 | if data: |
|---|
| 2919 | for item in self.Refine: item.Enable(True) |
|---|
| 2920 | self.EnableSeqRefineMenu() |
|---|
| 2921 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 2922 | if Id: |
|---|
| 2923 | self.EnablePlot = True |
|---|
| 2924 | self.PatternTree.SelectItem(Id) |
|---|
| 2925 | self.CheckNotebook() |
|---|
| 2926 | os.chdir(self.dirname) # to get Mac/Linux to change directory! |
|---|
| 2927 | |
|---|
| 2928 | def OnFileClose(self, event): |
|---|
| 2929 | '''Clears the data tree in response to the |
|---|
| 2930 | File/New Project menu button. User is given option to save |
|---|
| 2931 | the project. |
|---|
| 2932 | ''' |
|---|
| 2933 | if self.dataFrame: |
|---|
| 2934 | self.dataFrame.Clear() |
|---|
| 2935 | self.dataFrame.SetLabel('GSAS-II data display') |
|---|
| 2936 | dlg = wx.MessageDialog(self, 'Save current project?', ' ', wx.YES | wx.NO | wx.CANCEL) |
|---|
| 2937 | try: |
|---|
| 2938 | result = dlg.ShowModal() |
|---|
| 2939 | if result == wx.ID_OK: |
|---|
| 2940 | self.OnFileSaveMenu(event) |
|---|
| 2941 | if result != wx.ID_CANCEL: |
|---|
| 2942 | self.GSASprojectfile = '' |
|---|
| 2943 | self.PatternTree.SetItemText(self.root,'Loaded Data: ') |
|---|
| 2944 | self.PatternTree.DeleteChildren(self.root) |
|---|
| 2945 | if self.HKL: self.HKL = [] |
|---|
| 2946 | if self.G2plotNB.plotList: |
|---|
| 2947 | self.G2plotNB.clear() |
|---|
| 2948 | finally: |
|---|
| 2949 | dlg.Destroy() |
|---|
| 2950 | |
|---|
| 2951 | def OnFileSave(self, event): |
|---|
| 2952 | '''Save the current project in response to the |
|---|
| 2953 | File/Save Project menu button |
|---|
| 2954 | ''' |
|---|
| 2955 | |
|---|
| 2956 | if self.GSASprojectfile: |
|---|
| 2957 | self.PatternTree.SetItemText(self.root,'Loaded Data: '+self.GSASprojectfile) |
|---|
| 2958 | G2IO.ProjFileSave(self) |
|---|
| 2959 | else: |
|---|
| 2960 | self.OnFileSaveas(event) |
|---|
| 2961 | |
|---|
| 2962 | def OnFileSaveas(self, event): |
|---|
| 2963 | '''Save the current project in response to the |
|---|
| 2964 | File/Save as menu button |
|---|
| 2965 | ''' |
|---|
| 2966 | dlg = wx.FileDialog(self, 'Choose GSAS-II project file name', '.', '', |
|---|
| 2967 | 'GSAS-II project file (*.gpx)|*.gpx',wx.FD_SAVE|wx.FD_OVERWRITE_PROMPT|wx.CHANGE_DIR) |
|---|
| 2968 | try: |
|---|
| 2969 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 2970 | self.GSASprojectfile = dlg.GetPath() |
|---|
| 2971 | self.GSASprojectfile = G2IO.FileDlgFixExt(dlg,self.GSASprojectfile) |
|---|
| 2972 | self.PatternTree.SetItemText(self.root,'Saving project as'+self.GSASprojectfile) |
|---|
| 2973 | self.SetTitle("GSAS-II data tree: "+os.path.split(self.GSASprojectfile)[1]) |
|---|
| 2974 | G2IO.ProjFileSave(self) |
|---|
| 2975 | os.chdir(dlg.GetDirectory()) # to get Mac/Linux to change directory! |
|---|
| 2976 | finally: |
|---|
| 2977 | dlg.Destroy() |
|---|
| 2978 | |
|---|
| 2979 | def ExitMain(self, event): |
|---|
| 2980 | '''Called if the main window is closed''' |
|---|
| 2981 | if self.undofile: |
|---|
| 2982 | os.remove(self.undofile) |
|---|
| 2983 | sys.exit() |
|---|
| 2984 | |
|---|
| 2985 | def OnFileExit(self, event): |
|---|
| 2986 | '''Called in response to the File/Quit menu button''' |
|---|
| 2987 | if self.dataFrame: |
|---|
| 2988 | self.dataFrame.Clear() |
|---|
| 2989 | self.dataFrame.Destroy() |
|---|
| 2990 | self.Close() |
|---|
| 2991 | |
|---|
| 2992 | # def OnExportPatterns(self,event): |
|---|
| 2993 | # names = ['All'] |
|---|
| 2994 | # exports = [] |
|---|
| 2995 | # item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 2996 | # while item: |
|---|
| 2997 | # name = self.PatternTree.GetItemText(item) |
|---|
| 2998 | # if 'PWDR' in name: |
|---|
| 2999 | # names.append(name) |
|---|
| 3000 | # item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3001 | # if names: |
|---|
| 3002 | # dlg = wx.MultiChoiceDialog(self,'Select','Powder patterns to export',names) |
|---|
| 3003 | # if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3004 | # sel = dlg.GetSelections() |
|---|
| 3005 | # if sel[0] == 0: |
|---|
| 3006 | # exports = names[1:] |
|---|
| 3007 | # else: |
|---|
| 3008 | # for x in sel: |
|---|
| 3009 | # exports.append(names[x]) |
|---|
| 3010 | # dlg.Destroy() |
|---|
| 3011 | # if exports: |
|---|
| 3012 | # dlg = wx.FileDialog(self, 'Choose output powder file name', '.', '', |
|---|
| 3013 | # 'GSAS fxye file (*.fxye)|*.fxye|xye file (*.xye)|*.xye', |
|---|
| 3014 | # wx.FD_SAVE|wx.FD_OVERWRITE_PROMPT|wx.CHANGE_DIR) |
|---|
| 3015 | # try: |
|---|
| 3016 | # if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3017 | # powderfile = dlg.GetPath() |
|---|
| 3018 | # powderfile = G2IO.FileDlgFixExt(dlg,powderfile) |
|---|
| 3019 | # if 'fxye' in powderfile: |
|---|
| 3020 | # G2IO.powderFxyeSave(self,exports,powderfile) |
|---|
| 3021 | # else: #just xye |
|---|
| 3022 | # G2IO.powderXyeSave(self,exports,powderfile) |
|---|
| 3023 | # finally: |
|---|
| 3024 | # dlg.Destroy() |
|---|
| 3025 | |
|---|
| 3026 | def OnExportPeakList(self,event): |
|---|
| 3027 | dlg = wx.FileDialog(self, 'Choose output peak list file name', '.', '', |
|---|
| 3028 | '(*.*)|*.*',wx.FD_SAVE|wx.FD_OVERWRITE_PROMPT|wx.CHANGE_DIR) |
|---|
| 3029 | try: |
|---|
| 3030 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3031 | self.peaklistfile = dlg.GetPath() |
|---|
| 3032 | self.peaklistfile = G2IO.FileDlgFixExt(dlg,self.peaklistfile) |
|---|
| 3033 | file = open(self.peaklistfile,'w') |
|---|
| 3034 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 3035 | while item: |
|---|
| 3036 | name = self.PatternTree.GetItemText(item) |
|---|
| 3037 | if 'PWDR' in name: |
|---|
| 3038 | item2, cookie2 = self.PatternTree.GetFirstChild(item) |
|---|
| 3039 | while item2: |
|---|
| 3040 | name2 = self.PatternTree.GetItemText(item2) |
|---|
| 3041 | if name2 == 'Peak List': |
|---|
| 3042 | peaks = self.PatternTree.GetItemPyData(item2)['peaks'] |
|---|
| 3043 | file.write("%s \n" % (name+' Peak List')) |
|---|
| 3044 | if len(peaks[0]) == 8: |
|---|
| 3045 | file.write('%10s %12s %10s %10s\n'%('pos','int','sig','gam')) |
|---|
| 3046 | else: |
|---|
| 3047 | file.write('%10s %12s %10s %10s %10s %10s\n'%('pos','int','alp','bet','sig','gam')) |
|---|
| 3048 | for peak in peaks: |
|---|
| 3049 | if len(peak) == 8: #CW |
|---|
| 3050 | file.write("%10.5f %12.2f %10.3f %10.3f \n" % \ |
|---|
| 3051 | (peak[0],peak[2],peak[4],peak[6])) |
|---|
| 3052 | else: #TOF - more cols |
|---|
| 3053 | file.write("%10.5f %12.2f %10.3f %10.3f %10.3f %10.3f\n" % \ |
|---|
| 3054 | (peak[0],peak[2],peak[4],peak[6],peak[8],peak[10])) |
|---|
| 3055 | item2, cookie2 = self.PatternTree.GetNextChild(item, cookie2) |
|---|
| 3056 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3057 | file.close() |
|---|
| 3058 | finally: |
|---|
| 3059 | dlg.Destroy() |
|---|
| 3060 | |
|---|
| 3061 | def OnExportHKL(self,event): |
|---|
| 3062 | dlg = wx.FileDialog(self, 'Choose output reflection list file name', '.', '', |
|---|
| 3063 | '(*.*)|*.*',wx.FD_SAVE|wx.FD_OVERWRITE_PROMPT|wx.CHANGE_DIR) |
|---|
| 3064 | try: |
|---|
| 3065 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3066 | self.peaklistfile = dlg.GetPath() |
|---|
| 3067 | self.peaklistfile = G2IO.FileDlgFixExt(dlg,self.peaklistfile) |
|---|
| 3068 | file = open(self.peaklistfile,'w') |
|---|
| 3069 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 3070 | while item: |
|---|
| 3071 | name = self.PatternTree.GetItemText(item) |
|---|
| 3072 | if 'PWDR' in name: |
|---|
| 3073 | item2, cookie2 = self.PatternTree.GetFirstChild(item) |
|---|
| 3074 | while item2: |
|---|
| 3075 | name2 = self.PatternTree.GetItemText(item2) |
|---|
| 3076 | if name2 == 'Reflection Lists': |
|---|
| 3077 | data = self.PatternTree.GetItemPyData(item2) |
|---|
| 3078 | phases = data.keys() |
|---|
| 3079 | for phase in phases: |
|---|
| 3080 | peaks = data[phase] |
|---|
| 3081 | file.write("%s %s %s \n" % (name,phase,' Reflection List')) |
|---|
| 3082 | if 'T' in peaks.get('Type','PXC'): |
|---|
| 3083 | file.write('%s \n'%(' h k l m d-space TOF wid F**2')) |
|---|
| 3084 | else: |
|---|
| 3085 | file.write('%s \n'%(' h k l m d-space 2-theta wid F**2')) |
|---|
| 3086 | for peak in peaks['RefList']: |
|---|
| 3087 | FWHM = G2pwd.getgamFW(peak[7],peak[6])/50. #to get delta-2-theta in deg. |
|---|
| 3088 | if 'T' in peaks.get('Type','PXC'): |
|---|
| 3089 | file.write(" %3d %3d %3d %3d %10.5f %10.2f %10.5f %10.3f \n" % \ |
|---|
| 3090 | (int(peak[0]),int(peak[1]),int(peak[2]),int(peak[3]),peak[4],peak[5],FWHM,peak[8])) |
|---|
| 3091 | else: |
|---|
| 3092 | file.write(" %3d %3d %3d %3d %10.5f %10.5f %10.5f %10.3f \n" % \ |
|---|
| 3093 | (int(peak[0]),int(peak[1]),int(peak[2]),int(peak[3]),peak[4],peak[5],FWHM,peak[8])) |
|---|
| 3094 | item2, cookie2 = self.PatternTree.GetNextChild(item, cookie2) |
|---|
| 3095 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3096 | file.close() |
|---|
| 3097 | finally: |
|---|
| 3098 | dlg.Destroy() |
|---|
| 3099 | |
|---|
| 3100 | def OnExportPDF(self,event): |
|---|
| 3101 | #need S(Q) and G(R) to be saved here - probably best from selection? |
|---|
| 3102 | names = ['All'] |
|---|
| 3103 | exports = [] |
|---|
| 3104 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 3105 | while item: |
|---|
| 3106 | name = self.PatternTree.GetItemText(item) |
|---|
| 3107 | if 'PDF' in name: |
|---|
| 3108 | names.append(name) |
|---|
| 3109 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3110 | if names: |
|---|
| 3111 | dlg = wx.MultiChoiceDialog(self,'Select','PDF patterns to export',names) |
|---|
| 3112 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3113 | sel = dlg.GetSelections() |
|---|
| 3114 | if sel[0] == 0: |
|---|
| 3115 | exports = names[1:] |
|---|
| 3116 | else: |
|---|
| 3117 | for x in sel: |
|---|
| 3118 | exports.append(names[x]) |
|---|
| 3119 | dlg.Destroy() |
|---|
| 3120 | if exports: |
|---|
| 3121 | G2IO.PDFSave(self,exports) |
|---|
| 3122 | |
|---|
| 3123 | def OnMakePDFs(self,event): |
|---|
| 3124 | '''Calculates PDFs |
|---|
| 3125 | ''' |
|---|
| 3126 | sind = lambda x: math.sin(x*math.pi/180.) |
|---|
| 3127 | tth2q = lambda t,w:4.0*math.pi*sind(t/2.0)/w |
|---|
| 3128 | TextList = ['All PWDR'] |
|---|
| 3129 | PDFlist = [] |
|---|
| 3130 | Names = [] |
|---|
| 3131 | if self.PatternTree.GetCount(): |
|---|
| 3132 | id, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 3133 | while id: |
|---|
| 3134 | name = self.PatternTree.GetItemText(id) |
|---|
| 3135 | Names.append(name) |
|---|
| 3136 | if 'PWDR' in name: |
|---|
| 3137 | TextList.append(name) |
|---|
| 3138 | id, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3139 | if len(TextList) == 1: |
|---|
| 3140 | self.ErrorDialog('Nothing to make PDFs for','There must be at least one "PWDR" pattern') |
|---|
| 3141 | return |
|---|
| 3142 | dlg = wx.MultiChoiceDialog(self,'Make PDF controls','Make PDF controls for:',TextList, wx.CHOICEDLG_STYLE) |
|---|
| 3143 | try: |
|---|
| 3144 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3145 | result = dlg.GetSelections() |
|---|
| 3146 | for i in result: PDFlist.append(TextList[i]) |
|---|
| 3147 | if 0 in result: |
|---|
| 3148 | PDFlist = [item for item in TextList if item[:4] == 'PWDR'] |
|---|
| 3149 | for item in PDFlist: |
|---|
| 3150 | PWDRname = item[4:] |
|---|
| 3151 | Id = self.PatternTree.AppendItem(parent=self.root,text='PDF '+PWDRname) |
|---|
| 3152 | Data = { |
|---|
| 3153 | 'Sample':{'Name':item,'Mult':1.0,'Add':0.0}, |
|---|
| 3154 | 'Sample Bkg.':{'Name':'','Mult':-1.0,'Add':0.0}, |
|---|
| 3155 | 'Container':{'Name':'','Mult':-1.0,'Add':0.0}, |
|---|
| 3156 | 'Container Bkg.':{'Name':'','Mult':-1.0,'Add':0.0},'ElList':{}, |
|---|
| 3157 | 'Geometry':'Cylinder','Diam':1.0,'Pack':0.50,'Form Vol':10.0, |
|---|
| 3158 | 'DetType':'Image plate','ObliqCoeff':0.2,'Ruland':0.025,'QScaleLim':[0,100], |
|---|
| 3159 | 'Lorch':True,} |
|---|
| 3160 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='PDF Controls'),Data) |
|---|
| 3161 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='I(Q)'+PWDRname),[]) |
|---|
| 3162 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='S(Q)'+PWDRname),[]) |
|---|
| 3163 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='F(Q)'+PWDRname),[]) |
|---|
| 3164 | self.PatternTree.SetItemPyData(self.PatternTree.AppendItem(Id,text='G(R)'+PWDRname),[]) |
|---|
| 3165 | for item in self.ExportPDF: item.Enable(True) |
|---|
| 3166 | finally: |
|---|
| 3167 | dlg.Destroy() |
|---|
| 3168 | |
|---|
| 3169 | def GetPWDRdatafromTree(self,PWDRname): |
|---|
| 3170 | ''' Returns powder data from GSASII tree |
|---|
| 3171 | |
|---|
| 3172 | :param str PWDRname: a powder histogram name as obtained from |
|---|
| 3173 | :meth:`GSASIIstruct.GetHistogramNames` |
|---|
| 3174 | |
|---|
| 3175 | :returns: PWDRdata = powder data dictionary with |
|---|
| 3176 | Powder data arrays, Limits, Instrument Parameters, |
|---|
| 3177 | Sample Parameters |
|---|
| 3178 | ''' |
|---|
| 3179 | PWDRdata = {} |
|---|
| 3180 | try: |
|---|
| 3181 | PWDRdata.update(self.PatternTree.GetItemPyData(PWDRname)[0]) #wtFactor + ? |
|---|
| 3182 | except ValueError: |
|---|
| 3183 | PWDRdata['wtFactor'] = 1.0 |
|---|
| 3184 | PWDRdata['Data'] = self.PatternTree.GetItemPyData(PWDRname)[1] #powder data arrays |
|---|
| 3185 | PWDRdata['Limits'] = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,PWDRname,'Limits')) |
|---|
| 3186 | PWDRdata['Background'] = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,PWDRname,'Background')) |
|---|
| 3187 | PWDRdata['Instrument Parameters'] = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,PWDRname,'Instrument Parameters')) |
|---|
| 3188 | PWDRdata['Sample Parameters'] = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,PWDRname,'Sample Parameters')) |
|---|
| 3189 | PWDRdata['Reflection Lists'] = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,PWDRname,'Reflection Lists')) |
|---|
| 3190 | if 'ranId' not in PWDRdata: # patch, add a random Id |
|---|
| 3191 | PWDRdata['ranId'] = ran.randint(0,sys.maxint) |
|---|
| 3192 | if 'ranId' not in PWDRdata['Sample Parameters']: # I hope this becomes obsolete at some point |
|---|
| 3193 | PWDRdata['Sample Parameters']['ranId'] = PWDRdata['ranId'] |
|---|
| 3194 | return PWDRdata |
|---|
| 3195 | |
|---|
| 3196 | def GetHKLFdatafromTree(self,HKLFname): |
|---|
| 3197 | ''' Returns single crystal data from GSASII tree |
|---|
| 3198 | |
|---|
| 3199 | :param str HKLFname: a single crystal histogram name as obtained |
|---|
| 3200 | from |
|---|
| 3201 | :meth:`GSASIIstruct.GetHistogramNames` |
|---|
| 3202 | |
|---|
| 3203 | :returns: HKLFdata = single crystal data list of reflections |
|---|
| 3204 | |
|---|
| 3205 | ''' |
|---|
| 3206 | HKLFdata = {} |
|---|
| 3207 | HKLFdata.update(self.PatternTree.GetItemPyData(HKLFname)[0]) #wtFactor + ? |
|---|
| 3208 | # try: |
|---|
| 3209 | # HKLFdata.update(self.PatternTree.GetItemPyData(HKLFname)[0]) #wtFactor + ? |
|---|
| 3210 | # except ValueError: |
|---|
| 3211 | # HKLFdata['wtFactor'] = 1.0 |
|---|
| 3212 | HKLFdata['Data'] = self.PatternTree.GetItemPyData(HKLFname)[1] |
|---|
| 3213 | HKLFdata['Instrument Parameters'] = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,HKLFname,'Instrument Parameters')) |
|---|
| 3214 | return HKLFdata |
|---|
| 3215 | |
|---|
| 3216 | def GetPhaseData(self): |
|---|
| 3217 | '''Returns a dict with defined phases. |
|---|
| 3218 | Note routine :func:`GSASIIstrIO.GetPhaseData` also exists to |
|---|
| 3219 | get same info from GPX file. |
|---|
| 3220 | ''' |
|---|
| 3221 | phaseData = {} |
|---|
| 3222 | if G2gd.GetPatternTreeItemId(self,self.root,'Phases'): |
|---|
| 3223 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 3224 | else: |
|---|
| 3225 | print 'no phases found in GetPhaseData' |
|---|
| 3226 | sub = None |
|---|
| 3227 | if sub: |
|---|
| 3228 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 3229 | while item: |
|---|
| 3230 | phaseName = self.PatternTree.GetItemText(item) |
|---|
| 3231 | phaseData[phaseName] = self.PatternTree.GetItemPyData(item) |
|---|
| 3232 | if 'ranId' not in phaseData[phaseName]: |
|---|
| 3233 | phaseData[phaseName]['ranId'] = ran.randint(0,sys.maxint) |
|---|
| 3234 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 3235 | return phaseData |
|---|
| 3236 | |
|---|
| 3237 | def GetPhaseInfofromTree(self): |
|---|
| 3238 | '''Get the phase names and their rId values, |
|---|
| 3239 | also the histograms used in each phase. |
|---|
| 3240 | |
|---|
| 3241 | :returns: (phaseRIdList, usedHistograms) where |
|---|
| 3242 | |
|---|
| 3243 | * phaseRIdList is a list of random Id values for each phase |
|---|
| 3244 | * usedHistograms is a dict where the keys are the phase names |
|---|
| 3245 | and the values for each key are a list of the histogram names |
|---|
| 3246 | used in each phase. |
|---|
| 3247 | ''' |
|---|
| 3248 | phaseRIdList = [] |
|---|
| 3249 | usedHistograms = {} |
|---|
| 3250 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 3251 | if sub: |
|---|
| 3252 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 3253 | while item: |
|---|
| 3254 | phaseName = self.PatternTree.GetItemText(item) |
|---|
| 3255 | ranId = self.PatternTree.GetItemPyData(item).get('ranId') |
|---|
| 3256 | if ranId: phaseRIdList.append(ranId) |
|---|
| 3257 | data = self.PatternTree.GetItemPyData(item) |
|---|
| 3258 | UseList = data['Histograms'] |
|---|
| 3259 | usedHistograms[phaseName] = UseList.keys() |
|---|
| 3260 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 3261 | return phaseRIdList,usedHistograms |
|---|
| 3262 | |
|---|
| 3263 | def GetPhaseNames(self): |
|---|
| 3264 | '''Returns a list of defined phases. |
|---|
| 3265 | Note routine :func:`GSASIIstrIO.GetPhaseNames` also exists to |
|---|
| 3266 | get same info from GPX file. |
|---|
| 3267 | ''' |
|---|
| 3268 | phaseNames = [] |
|---|
| 3269 | if G2gd.GetPatternTreeItemId(self,self.root,'Phases'): |
|---|
| 3270 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Phases') |
|---|
| 3271 | else: |
|---|
| 3272 | print 'no phases found in GetPhaseNames' |
|---|
| 3273 | sub = None |
|---|
| 3274 | if sub: |
|---|
| 3275 | item, cookie = self.PatternTree.GetFirstChild(sub) |
|---|
| 3276 | while item: |
|---|
| 3277 | phase = self.PatternTree.GetItemText(item) |
|---|
| 3278 | phaseNames.append(phase) |
|---|
| 3279 | item, cookie = self.PatternTree.GetNextChild(sub, cookie) |
|---|
| 3280 | return phaseNames |
|---|
| 3281 | |
|---|
| 3282 | def GetHistogramNames(self,hType): |
|---|
| 3283 | """ Returns a list of histogram names found in the GSASII data tree |
|---|
| 3284 | Note routine :func:`GSASIIstrIO.GetHistogramNames` also exists to |
|---|
| 3285 | get same info from GPX file. |
|---|
| 3286 | |
|---|
| 3287 | :param str hType: list of histogram types |
|---|
| 3288 | :return: list of histogram names |
|---|
| 3289 | |
|---|
| 3290 | """ |
|---|
| 3291 | HistogramNames = [] |
|---|
| 3292 | if self.PatternTree.GetCount(): |
|---|
| 3293 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 3294 | while item: |
|---|
| 3295 | name = self.PatternTree.GetItemText(item) |
|---|
| 3296 | if name[:4] in hType: |
|---|
| 3297 | HistogramNames.append(name) |
|---|
| 3298 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3299 | |
|---|
| 3300 | return HistogramNames |
|---|
| 3301 | |
|---|
| 3302 | def GetUsedHistogramsAndPhasesfromTree(self): |
|---|
| 3303 | ''' Returns all histograms that are found in any phase |
|---|
| 3304 | and any phase that uses a histogram. |
|---|
| 3305 | This also assigns numbers to used phases and histograms by the |
|---|
| 3306 | order they appear in the file. |
|---|
| 3307 | Note routine :func:`GSASIIstrIO.GetUsedHistogramsAndPhasesfromTree` also exists to |
|---|
| 3308 | get same info from GPX file. |
|---|
| 3309 | |
|---|
| 3310 | :returns: (Histograms,Phases) |
|---|
| 3311 | |
|---|
| 3312 | * Histograms = dictionary of histograms as {name:data,...} |
|---|
| 3313 | * Phases = dictionary of phases that use histograms |
|---|
| 3314 | ''' |
|---|
| 3315 | Histograms = {} |
|---|
| 3316 | Phases = {} |
|---|
| 3317 | phaseNames = self.GetPhaseNames() |
|---|
| 3318 | phaseData = self.GetPhaseData() |
|---|
| 3319 | histoList = self.GetHistogramNames(['PWDR','HKLF']) |
|---|
| 3320 | |
|---|
| 3321 | for phase in phaseData: |
|---|
| 3322 | Phase = phaseData[phase] |
|---|
| 3323 | pId = phaseNames.index(phase) |
|---|
| 3324 | Phase['pId'] = pId |
|---|
| 3325 | if Phase['Histograms']: |
|---|
| 3326 | if phase not in Phases: |
|---|
| 3327 | Phases[phase] = Phase |
|---|
| 3328 | for hist in Phase['Histograms']: |
|---|
| 3329 | if 'Use' not in Phase['Histograms'][hist]: #patch: add Use flag as True |
|---|
| 3330 | Phase['Histograms'][hist]['Use'] = True |
|---|
| 3331 | if hist not in Histograms and Phase['Histograms'][hist]['Use']: |
|---|
| 3332 | item = G2gd.GetPatternTreeItemId(self,self.root,hist) |
|---|
| 3333 | if item: |
|---|
| 3334 | if 'PWDR' in hist[:4]: |
|---|
| 3335 | Histograms[hist] = self.GetPWDRdatafromTree(item) |
|---|
| 3336 | elif 'HKLF' in hist[:4]: |
|---|
| 3337 | Histograms[hist] = self.GetHKLFdatafromTree(item) |
|---|
| 3338 | hId = histoList.index(hist) |
|---|
| 3339 | Histograms[hist]['hId'] = hId |
|---|
| 3340 | else: # would happen if a referenced histogram were renamed or deleted |
|---|
| 3341 | print('For phase "'+str(phase)+ |
|---|
| 3342 | '" unresolved reference to histogram "'+str(hist)+'"') |
|---|
| 3343 | #G2obj.IndexAllIds(Histograms=Histograms,Phases=Phases) |
|---|
| 3344 | G2obj.IndexAllIds(Histograms=Histograms,Phases=phaseData) |
|---|
| 3345 | return Histograms,Phases |
|---|
| 3346 | |
|---|
| 3347 | def MakeLSParmDict(self): |
|---|
| 3348 | '''Load all parameters used for computation from the tree into a |
|---|
| 3349 | dict of paired values [value, refine flag]. Note that this is |
|---|
| 3350 | different than the parmDict used in the refinement, which only has |
|---|
| 3351 | values. |
|---|
| 3352 | |
|---|
| 3353 | Note that similar things are done in |
|---|
| 3354 | :meth:`GSASIIIO.ExportBaseclass.loadParmDict` (from the tree) and |
|---|
| 3355 | :func:`GSASIIstrMain.Refine` and :func:`GSASIIstrMain.SeqRefine` (from |
|---|
| 3356 | a GPX file). |
|---|
| 3357 | |
|---|
| 3358 | :returns: (parmDict,varyList) where: |
|---|
| 3359 | |
|---|
| 3360 | * parmDict is a dict with values and refinement flags |
|---|
| 3361 | for each parameter and |
|---|
| 3362 | * varyList is a list of variables (refined parameters). |
|---|
| 3363 | ''' |
|---|
| 3364 | parmDict = {} |
|---|
| 3365 | Histograms,Phases = self.GetUsedHistogramsAndPhasesfromTree() |
|---|
| 3366 | for phase in Phases: |
|---|
| 3367 | if 'pId' not in Phases[phase]: |
|---|
| 3368 | self.ErrorDialog('View parameter error','You must run least squares at least once') |
|---|
| 3369 | raise Exception,'No pId for phase '+str(phase) |
|---|
| 3370 | rigidbodyDict = self.PatternTree.GetItemPyData( |
|---|
| 3371 | G2gd.GetPatternTreeItemId(self,self.root,'Rigid bodies')) |
|---|
| 3372 | rbVary,rbDict = G2stIO.GetRigidBodyModels(rigidbodyDict,Print=False) |
|---|
| 3373 | rbIds = rigidbodyDict.get('RBIds',{'Vector':[],'Residue':[]}) |
|---|
| 3374 | Natoms,atomIndx,phaseVary,phaseDict,pawleyLookup,FFtable,BLtable = G2stIO.GetPhaseData(Phases,RestraintDict=None,rbIds=rbIds,Print=False) |
|---|
| 3375 | hapVary,hapDict,controlDict = G2stIO.GetHistogramPhaseData(Phases,Histograms,Print=False) |
|---|
| 3376 | histVary,histDict,controlDict = G2stIO.GetHistogramData(Histograms,Print=False) |
|---|
| 3377 | varyList = rbVary+phaseVary+hapVary+histVary |
|---|
| 3378 | parmDict.update(rbDict) |
|---|
| 3379 | parmDict.update(phaseDict) |
|---|
| 3380 | parmDict.update(hapDict) |
|---|
| 3381 | parmDict.update(histDict) |
|---|
| 3382 | for parm in parmDict: |
|---|
| 3383 | if parm.split(':')[-1] in ['Azimuth','Gonio. radius','Lam1','Lam2', |
|---|
| 3384 | 'Omega','Chi','Phi','nDebye','nPeaks']: |
|---|
| 3385 | parmDict[parm] = [parmDict[parm],'-'] |
|---|
| 3386 | elif parm.split(':')[-2] in ['Ax','Ay','Az','SHmodel','SHord']: |
|---|
| 3387 | parmDict[parm] = [parmDict[parm],'-'] |
|---|
| 3388 | elif parm in varyList: |
|---|
| 3389 | parmDict[parm] = [parmDict[parm],'T'] |
|---|
| 3390 | else: |
|---|
| 3391 | parmDict[parm] = [parmDict[parm],'F'] |
|---|
| 3392 | # for i in parmDict: print i,'\t',parmDict[i] |
|---|
| 3393 | # fl = open('parmDict.dat','wb') |
|---|
| 3394 | # import cPickle |
|---|
| 3395 | # cPickle.dump(parmDict,fl,1) |
|---|
| 3396 | # fl.close() |
|---|
| 3397 | return parmDict,varyList |
|---|
| 3398 | |
|---|
| 3399 | def ShowLSParms(self,event): |
|---|
| 3400 | '''Displays a window showing all parameters in the refinement. |
|---|
| 3401 | Called from the Calculate/View LS Parms menu. |
|---|
| 3402 | ''' |
|---|
| 3403 | parmDict,varyList = self.MakeLSParmDict() |
|---|
| 3404 | parmValDict = {} |
|---|
| 3405 | for i in parmDict: |
|---|
| 3406 | parmValDict[i] = parmDict[i][0] |
|---|
| 3407 | |
|---|
| 3408 | reqVaryList = tuple(varyList) # save requested variables |
|---|
| 3409 | try: |
|---|
| 3410 | # process constraints |
|---|
| 3411 | sub = G2gd.GetPatternTreeItemId(self,self.root,'Constraints') |
|---|
| 3412 | Constraints = self.PatternTree.GetItemPyData(sub) |
|---|
| 3413 | constList = [] |
|---|
| 3414 | for item in Constraints: |
|---|
| 3415 | if item.startswith('_'): continue |
|---|
| 3416 | constList += Constraints[item] |
|---|
| 3417 | G2mv.InitVars() |
|---|
| 3418 | constrDict,fixedList,ignored = G2stIO.ProcessConstraints(constList) |
|---|
| 3419 | groups,parmlist = G2mv.GroupConstraints(constrDict) |
|---|
| 3420 | G2mv.GenerateConstraints(groups,parmlist,varyList,constrDict,fixedList,parmValDict) |
|---|
| 3421 | G2mv.Map2Dict(parmValDict,varyList) |
|---|
| 3422 | except: |
|---|
| 3423 | pass |
|---|
| 3424 | dlg = G2gd.ShowLSParms(self,'Least Squares Parameters',parmValDict,varyList,reqVaryList) |
|---|
| 3425 | dlg.ShowModal() |
|---|
| 3426 | dlg.Destroy() |
|---|
| 3427 | |
|---|
| 3428 | def OnRefine(self,event): |
|---|
| 3429 | '''Perform a refinement. |
|---|
| 3430 | Called from the Calculate/Refine menu. |
|---|
| 3431 | ''' |
|---|
| 3432 | Id = G2gd.GetPatternTreeItemId(self,self.root,'Sequential results') |
|---|
| 3433 | if Id: |
|---|
| 3434 | dlg = wx.MessageDialog( |
|---|
| 3435 | self, |
|---|
| 3436 | 'Your last refinement was sequential. Continue with "Refine", removing previous sequential results?', |
|---|
| 3437 | 'Remove sequential results?',wx.OK|wx.CANCEL) |
|---|
| 3438 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3439 | self.PatternTree.Delete(Id) |
|---|
| 3440 | dlg.Destroy() |
|---|
| 3441 | else: |
|---|
| 3442 | dlg.Destroy() |
|---|
| 3443 | return |
|---|
| 3444 | |
|---|
| 3445 | self.OnFileSave(event) |
|---|
| 3446 | # check that constraints are OK here |
|---|
| 3447 | errmsg, warnmsg = G2stIO.CheckConstraints(self.GSASprojectfile) |
|---|
| 3448 | if errmsg: |
|---|
| 3449 | print('Error in constraints:\n'+errmsg+ |
|---|
| 3450 | '\nRefinement not possible') |
|---|
| 3451 | self.ErrorDialog('Constraint Error', |
|---|
| 3452 | 'Error in constraints:\n'+errmsg+ |
|---|
| 3453 | '\nRefinement not possible') |
|---|
| 3454 | return |
|---|
| 3455 | if warnmsg: |
|---|
| 3456 | print('Conflict between refinment flag settings and constraints:\n'+ |
|---|
| 3457 | warnmsg+'\nRefinement not possible') |
|---|
| 3458 | self.ErrorDialog('Refinement Flag Error', |
|---|
| 3459 | 'Conflict between refinment flag settings and constraints:\n'+ |
|---|
| 3460 | warnmsg+ |
|---|
| 3461 | '\nRefinement not possible') |
|---|
| 3462 | return |
|---|
| 3463 | #works - but it'd be better if it could restore plots |
|---|
| 3464 | dlg = wx.ProgressDialog('Residual','All data Rw =',101.0, |
|---|
| 3465 | style = wx.PD_ELAPSED_TIME|wx.PD_AUTO_HIDE|wx.PD_CAN_ABORT, |
|---|
| 3466 | parent=self) |
|---|
| 3467 | Size = dlg.GetSize() |
|---|
| 3468 | if 50 < Size[0] < 500: # sanity check on size, since this fails w/Win & wx3.0 |
|---|
| 3469 | dlg.SetSize((int(Size[0]*1.2),Size[1])) # increase size a bit along x |
|---|
| 3470 | dlg.CenterOnParent() |
|---|
| 3471 | Rw = 100.00 |
|---|
| 3472 | try: |
|---|
| 3473 | Rw = G2stMn.Refine(self.GSASprojectfile,dlg) |
|---|
| 3474 | finally: |
|---|
| 3475 | dlg.Update(101.) # forces the Auto_Hide; needed after move w/Win & wx3.0 |
|---|
| 3476 | dlg.Destroy() |
|---|
| 3477 | wx.Yield() |
|---|
| 3478 | oldId = self.PatternTree.GetSelection() #retain current selection |
|---|
| 3479 | oldName = self.PatternTree.GetItemText(oldId) |
|---|
| 3480 | parentId = self.PatternTree.GetItemParent(oldId) |
|---|
| 3481 | parentName = '' |
|---|
| 3482 | if parentId: |
|---|
| 3483 | parentName = self.PatternTree.GetItemText(parentId) #find the current data tree name |
|---|
| 3484 | dlg2 = wx.MessageDialog(self,'Load new result?','Refinement results, Rw =%.3f'%(Rw),wx.OK|wx.CANCEL) |
|---|
| 3485 | try: |
|---|
| 3486 | if dlg2.ShowModal() == wx.ID_OK: |
|---|
| 3487 | Id = 0 |
|---|
| 3488 | self.PatternTree.DeleteChildren(self.root) |
|---|
| 3489 | if self.HKL: self.HKL = [] |
|---|
| 3490 | if self.G2plotNB.plotList: |
|---|
| 3491 | self.G2plotNB.clear() |
|---|
| 3492 | G2IO.ProjFileOpen(self) |
|---|
| 3493 | item, cookie = self.PatternTree.GetFirstChild(self.root) |
|---|
| 3494 | while item and not Id: |
|---|
| 3495 | name = self.PatternTree.GetItemText(item) |
|---|
| 3496 | if name[:4] in ['PWDR','HKLF']: |
|---|
| 3497 | Id = item |
|---|
| 3498 | item, cookie = self.PatternTree.GetNextChild(self.root, cookie) |
|---|
| 3499 | if Id: |
|---|
| 3500 | self.PatternTree.SelectItem(Id) |
|---|
| 3501 | if parentName: |
|---|
| 3502 | parentId = G2gd.GetPatternTreeItemId(self, self.root, parentName) |
|---|
| 3503 | if parentId: |
|---|
| 3504 | itemId = G2gd.GetPatternTreeItemId(self, parentId, oldName) |
|---|
| 3505 | else: |
|---|
| 3506 | itemId = G2gd.GetPatternTreeItemId(self, self.root, oldName) |
|---|
| 3507 | self.PatternTree.SelectItem(itemId) |
|---|
| 3508 | finally: |
|---|
| 3509 | dlg2.Destroy() |
|---|
| 3510 | |
|---|
| 3511 | def OnSeqRefine(self,event): |
|---|
| 3512 | '''Perform a sequential refinement. |
|---|
| 3513 | Called from the Calculate/Sequential refine menu. |
|---|
| 3514 | ''' |
|---|
| 3515 | Id = G2gd.GetPatternTreeItemId(self,self.root,'Sequential results') |
|---|
| 3516 | if not Id: |
|---|
| 3517 | Id = self.PatternTree.AppendItem(self.root,text='Sequential results') |
|---|
| 3518 | self.PatternTree.SetItemPyData(Id,{}) |
|---|
| 3519 | Controls = self.PatternTree.GetItemPyData(G2gd.GetPatternTreeItemId(self,self.root, 'Controls')) |
|---|
| 3520 | Controls['ShowCell'] = True |
|---|
| 3521 | self.OnFileSave(event) |
|---|
| 3522 | # check that constraints are OK here |
|---|
| 3523 | errmsg, warnmsg = G2stIO.CheckConstraints(self.GSASprojectfile) |
|---|
| 3524 | if errmsg: |
|---|
| 3525 | print('Error in constraints:\n'+errmsg+ |
|---|
| 3526 | '\nRefinement not possible') |
|---|
| 3527 | self.ErrorDialog('Constraint Error', |
|---|
| 3528 | 'Error in constraints:\n'+errmsg+ |
|---|
| 3529 | '\nRefinement not possible') |
|---|
| 3530 | return |
|---|
| 3531 | if warnmsg: |
|---|
| 3532 | print('Conflict between refinment flag settings and constraints:\n'+ |
|---|
| 3533 | warnmsg+'\nRefinement not possible') |
|---|
| 3534 | self.ErrorDialog('Refinement Flag Error', |
|---|
| 3535 | 'Conflict between refinment flag settings and constraints:\n'+ |
|---|
| 3536 | warnmsg+'\nRefinement not possible') |
|---|
| 3537 | return |
|---|
| 3538 | dlg = wx.ProgressDialog('Residual for histogram 0','Powder profile Rwp =',101.0, |
|---|
| 3539 | style = wx.PD_ELAPSED_TIME|wx.PD_AUTO_HIDE|wx.PD_CAN_ABORT, |
|---|
| 3540 | parent=self) |
|---|
| 3541 | Size = dlg.GetSize() |
|---|
| 3542 | if 50 < Size[0] < 500: # sanity check on size, since this fails w/Win & wx3.0 |
|---|
| 3543 | dlg.SetSize((int(Size[0]*1.2),Size[1])) # increase size a bit along x |
|---|
| 3544 | dlg.CenterOnParent() |
|---|
| 3545 | try: |
|---|
| 3546 | G2stMn.SeqRefine(self.GSASprojectfile,dlg) |
|---|
| 3547 | finally: |
|---|
| 3548 | dlg.Update(101.) # forces the Auto_Hide; needed after move w/Win & wx3.0 |
|---|
| 3549 | dlg.Destroy() |
|---|
| 3550 | wx.Yield() |
|---|
| 3551 | dlg = wx.MessageDialog(self,'Load new result?','Refinement results',wx.OK|wx.CANCEL) |
|---|
| 3552 | try: |
|---|
| 3553 | if dlg.ShowModal() == wx.ID_OK: |
|---|
| 3554 | Id = 0 |
|---|
| 3555 | self.PatternTree.DeleteChildren(self.root) |
|---|
| 3556 | if self.HKL: self.HKL = [] |
|---|
| 3557 | if self.G2plotNB.plotList: |
|---|
| 3558 | self.G2plotNB.clear() |
|---|
| 3559 | G2IO.ProjFileOpen(self) |
|---|
| 3560 | Id = G2gd.GetPatternTreeItemId(self,self.root,'Sequential results') |
|---|
| 3561 | self.PatternTree.SelectItem(Id) |
|---|
| 3562 | |
|---|
| 3563 | finally: |
|---|
| 3564 | dlg.Destroy() |
|---|
| 3565 | |
|---|
| 3566 | def ErrorDialog(self,title,message,parent=None, wtype=wx.OK): |
|---|
| 3567 | 'Display an error message' |
|---|
| 3568 | result = None |
|---|
| 3569 | if parent is None: |
|---|
| 3570 | dlg = wx.MessageDialog(self, message, title, wtype) |
|---|
| 3571 | else: |
|---|
| 3572 | dlg = wx.MessageDialog(parent, message, title, wtype) |
|---|
| 3573 | dlg.CenterOnParent() # not working on Mac |
|---|
| 3574 | try: |
|---|
| 3575 | result = dlg.ShowModal() |
|---|
| 3576 | finally: |
|---|
| 3577 | dlg.Destroy() |
|---|
| 3578 | return result |
|---|
| 3579 | |
|---|
| 3580 | class GSASIImain(wx.App): |
|---|
| 3581 | '''Defines a wxApp for GSAS-II |
|---|
| 3582 | |
|---|
| 3583 | Creates a wx frame (self.main) which contains the display of the |
|---|
| 3584 | data tree. |
|---|
| 3585 | ''' |
|---|
| 3586 | def OnInit(self): |
|---|
| 3587 | '''Called automatically when the app is created.''' |
|---|
| 3588 | if '2.7' not in sys.version[:5]: |
|---|
| 3589 | dlg = wx.MessageDialog(None, |
|---|
| 3590 | 'GSAS-II requires Python 2.7.x\n Yours is '+sys.version[:5], |
|---|
| 3591 | 'Python version error', wx.OK) |
|---|
| 3592 | try: |
|---|
| 3593 | result = dlg.ShowModal() |
|---|
| 3594 | finally: |
|---|
| 3595 | dlg.Destroy() |
|---|
| 3596 | sys.exit() |
|---|
| 3597 | self.main = GSASII(None) |
|---|
| 3598 | self.main.Show() |
|---|
| 3599 | self.SetTopWindow(self.main) |
|---|
| 3600 | # DEBUG: jump to sequential results |
|---|
| 3601 | #Id = G2gd.GetPatternTreeItemId(self.main,self.main.root,'Sequential results') |
|---|
| 3602 | #self.main.PatternTree.SelectItem(Id) |
|---|
| 3603 | # end DEBUG |
|---|
| 3604 | return True |
|---|
| 3605 | # def MacOpenFile(self, filename): |
|---|
| 3606 | # '''Called on Mac every time a file is dropped on the app when it is running, |
|---|
| 3607 | # treat this like a File/Open project menu action. |
|---|
| 3608 | # Should be ignored on other platforms |
|---|
| 3609 | # ''' |
|---|
| 3610 | # # PATCH: Canopy 1.4 script main seems dropped on app; ignore .py files |
|---|
| 3611 | # print 'MacOpen',filename |
|---|
| 3612 | # if os.path.splitext(filename)[1] == '.py': return |
|---|
| 3613 | # # end PATCH |
|---|
| 3614 | # self.main.OnFileOpen(None,filename) |
|---|
| 3615 | # removed because this gets triggered when a file is on the command line in canopy 1.4 -- not likely used anyway |
|---|
| 3616 | |
|---|
| 3617 | def main(): |
|---|
| 3618 | '''Start up the GSAS-II application''' |
|---|
| 3619 | #application = GSASIImain() # don't redirect output, someday we |
|---|
| 3620 | # may want to do this if we can |
|---|
| 3621 | application = GSASIImain(0) |
|---|
| 3622 | if wxInspector: |
|---|
| 3623 | import wx.lib.inspection as wxeye |
|---|
| 3624 | wxeye.InspectionTool().Show() |
|---|
| 3625 | |
|---|
| 3626 | #application.main.OnRefine(None) |
|---|
| 3627 | application.MainLoop() |
|---|
| 3628 | |
|---|
| 3629 | if __name__ == '__main__': |
|---|
| 3630 | # print versions |
|---|
| 3631 | print "Python module versions loaded:" |
|---|
| 3632 | print "python: ",sys.version[:5] |
|---|
| 3633 | print "wxpython: ",wx.__version__ |
|---|
| 3634 | print "matplotlib: ",mpl.__version__ |
|---|
| 3635 | print "numpy: ",np.__version__ |
|---|
| 3636 | print "scipy: ",sp.__version__ |
|---|
| 3637 | print "OpenGL: ",ogl.__version__ |
|---|
| 3638 | try: |
|---|
| 3639 | from PIL import Image |
|---|
| 3640 | try: |
|---|
| 3641 | from PIL import PILLOW_VERSION |
|---|
| 3642 | version = PILLOW_VERSION |
|---|
| 3643 | except: |
|---|
| 3644 | version = Image.VERSION |
|---|
| 3645 | print "pillow: ",version |
|---|
| 3646 | except ImportError: |
|---|
| 3647 | try: |
|---|
| 3648 | import Image |
|---|
| 3649 | print "Image (PIL):",Image.VERSION |
|---|
| 3650 | except ImportError: |
|---|
| 3651 | print "Image module not present; Note that PIL (Python Imaging Library) or pillow is needed for some image operations" |
|---|
| 3652 | try: |
|---|
| 3653 | import mkl |
|---|
| 3654 | print "Max threads ",mkl.get_max_threads() |
|---|
| 3655 | except: |
|---|
| 3656 | pass |
|---|
| 3657 | import platform |
|---|
| 3658 | print "Platform info:",sys.platform,platform.architecture()[0],platform.machine() |
|---|
| 3659 | #print "wxPython description",wx.PlatformInfo |
|---|
| 3660 | print "This is GSAS-II version: ",__version__,' revision '+str(GSASIIpath.GetVersionNumber()) |
|---|
| 3661 | GSASIIpath.InvokeDebugOpts() |
|---|
| 3662 | main() # start the GUI |
|---|
