1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
|
#!/usr/bin/env python
#/*##########################################################################
# Copyright (C) 2004-2014 V.A. Sole, European Synchrotron Radiation Facility
#
# This file is part of the PyMca X-ray Fluorescence Toolkit developed at
# the ESRF by the Software group.
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
#
#############################################################################*/
__author__ = "V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
import sys
import numpy
import time
from PyMca5.PyMcaGui import PyMcaQt as qt
from . import NNMAWindow
NNMA = True
DEBUG = 0
class SimpleThread(qt.QThread):
def __init__(self, function, *var, **kw):
if kw is None:kw={}
qt.QThread.__init__(self)
self._function = function
self._var = var
self._kw = kw
self._result = None
def run(self):
if DEBUG:
self._result = self._function(*self._var, **self._kw )
else:
try:
self._result = self._function(*self._var, **self._kw )
except:
self._result = ("Exception",) + sys.exc_info()
class NNMADialog(qt.QDialog):
def __init__(self, parent=None, rgbwidget=None, selection=False):
qt.QDialog.__init__(self, parent)
self.setWindowTitle("NNMA calculation dialog")
self.mainLayout = qt.QVBoxLayout(self)
self.calculateButton = qt.QPushButton(self)
self.calculateButton.setAutoDefault(False)
self.calculateButton.setText("Perform NNMA")
self.showLastButton = qt.QPushButton(self)
self.showLastButton.setAutoDefault(False)
self.showLastButton.setText("Last Results")
self.mainLayout.addWidget(self.calculateButton)
self.mainLayout.addWidget(self.showLastButton)
self._data = None
self.nnmaWindow = NNMAWindow.NNMAWindow(parent = None,
rgbwidget=rgbwidget,
#selection=True,
selection=selection,
colormap=True,
#imageicons=True,
imageicons=selection,
standalonesave=True)
self.nnmaWindow.setDefaultColormap(0, logflag=False)
self.nnmaParametersDialog = None
self.nnmaWindow.hide()
#connections
self.calculateButton.clicked.connect(self._calculateSlot)
self.showLastButton.clicked.connect(self._showLastSlot)
def sizeHint(self):
return qt.QSize(int(4*qt.QDialog.sizeHint(self).width()),
qt.QDialog.sizeHint(self).height())
def _calculateSlot(self):
if self._data is None:
msg = qt.QMessageBox(self)
msg.setWindowTitle("No data")
msg.setIcon(qt.QMessageBox.Information)
msg.setText("No data to perform calculation")
msg.exec_()
return
if self.nnmaParametersDialog is None:
self.nnmaParametersDialog = NNMAWindow.NNMAParametersDialog(self)
self.nnmaParametersDialog.nPC.setMaximum(self._spectrumLength)
self.nnmaParametersDialog.nPC.setValue(min(10, self._spectrumLength))
ddict = {'options':self._binningOptions, 'binning': 1, 'method': 0}
self.nnmaParametersDialog.setParameters(ddict)
ret = self.nnmaParametersDialog.exec_()
if ret:
if DEBUG:
t0 = time.time()
nnmaParameters = self.nnmaParametersDialog.getParameters()
self.nnmaParametersDialog.close()
function = nnmaParameters['function']
binning = nnmaParameters['binning']
npc = nnmaParameters['npc']
kw = nnmaParameters['kw']
data = self._data
old_shape = self._data.shape
if DEBUG:
images, eigenvalues, eigenvectors = function(data,
npc,
binning=binning,
**kw)
else:
try:
threadResult = self._submitThread(function,
data,
npc,
binning=binning,
**kw)
if type(threadResult) == type((1,)):
if len(threadResult):
if threadResult[0] == "Exception":
raise Exception(threadResult[1],threadResult[2])
images, eigenvalues, eigenvectors = threadResult
except:
if isinstance(data, numpy.ndarray):
self._data.shape = old_shape
msg = qt.QMessageBox(self)
msg.setIcon(qt.QMessageBox.Critical)
msg.setText("%s" % sys.exc_info()[1])
msg.exec_()
return
if isinstance(self._data, numpy.ndarray):
self._data.shape = old_shape
if DEBUG:
print("NNMA Elapsed = ", time.time() - t0)
self.nnmaWindow.setPCAData(images,
eigenvalues,
eigenvectors)
self.nnmaWindow.show()
self.nnmaWindow.raise_()
def _showLastSlot(self):
self.nnmaWindow.show()
self.nnmaWindow.raise_()
def setData(self, data=None, spectrumindex=-1):
if type(data) == type([]):
#assume is an image list
if data[0].dtype not in [numpy.float32, numpy.float64]:
dtype = numpy.float64
else:
dtype = data[0].dtype
self._spectrumLength = len(data)
self._shape = data[0].shape
n = 1
for shape in self._shape:
n *= shape
self._binningOptions = [1]
if len(self._shape) == 1:
self._data = numpy.zeros((self._shape[0],
self._spectrumLength), dtype)
for i in range(self._spectrumLength):
self._data[:, i] = data[i][:]
elif len(self._shape) == 2:
self._data = numpy.zeros((self._shape[0],
self._shape[1],
self._spectrumLength), dtype)
for i in range(self._spectrumLength):
self._data[:, :, i] = data[i][:,:]
else:
self._shape = data.shape
self._data = data
self._spectrumLength = self._shape[spectrumindex]
self._binningOptions=[1]
for number in [2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 13, 15, 17, 19]:
if (self._spectrumLength % number) == 0:
self._binningOptions.append(number)
if self.nnmaParametersDialog is not None:
self.nnmaParametersDialog.nPC.setMaximum(self._spectrumLength)
self.nnmaParametersDialog.nPC.setValue(min(10, self._spectrumLength))
def _submitThread(self, function, *var, **kw):
message = "Please Wait: NNMA Going On"
sthread = SimpleThread(function, *var, **kw)
return self._startThread(sthread, message)
def _startThread(self, sthread, message):
sthread.start()
if 0:
msg = qt.QDialog(self, qt.Qt.FramelessWindowHint)
msg.setModal(0)
else:
msg = qt.QDialog(self, qt.Qt.FramelessWindowHint)
msg.setModal(1)
msg.setWindowTitle("Please Wait")
layout = qt.QHBoxLayout(msg)
layout.setContentsMargins(0, 0, 0, 0)
layout.setSpacing(0)
l1 = qt.QLabel(msg)
l1.setFixedWidth(l1.fontMetrics().width('##'))
l2 = qt.QLabel(msg)
l2.setText("%s" % message)
l3 = qt.QLabel(msg)
l3.setFixedWidth(l3.fontMetrics().width('##'))
layout.addWidget(l1)
layout.addWidget(l2)
layout.addWidget(l3)
msg.show()
qApp = qt.QApplication.instance()
qApp.processEvents()
i = 0
ticks = ['-','\\', "|", "/","-","\\",'|','/']
while (sthread.isRunning()):
i = (i+1) % 8
l1.setText(ticks[i])
l3.setText(" "+ticks[i])
qApp = qt.QApplication.instance()
qApp.processEvents()
time.sleep(2)
msg.close()
result = sthread._result
del sthread
self.raise_()
return result
if __name__ == "__main__":
import os
from PyMca5.PyMcaIO import EdfFile
app = qt.QApplication([])
app.lastWindowClosed.connect(app.quit)
d = NNMADialog()
imageList = []
for t in ["mix1.edf", "mix2.edf", "mix3.edf"]:
fname = os.path.join(os.path.dirname(__file__), "tests", t)
if not os.path.exists(fname):
break
edf = EdfFile.EdfFile(fname)
data = edf.GetData(0)
edf = None
imageList.append(data)
if len(imageList):
d.setData(imageList)
d.show()
app.exec_()
|
