/usr/share/pyshared/PyMca/NNMAWindow.py is in pymca 4.5.0-4.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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# Copyright (C) 2004-2010 European Synchrotron Radiation Facility
#
# This file is part of the PyMCA X-ray Fluorescence Toolkit developed at
# the ESRF by the Beamline Instrumentation Software Support (BLISS) group.
#
# This toolkit is free software; you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by the Free
# Software Foundation; either version 2 of the License, or (at your option)
# any later version.
#
# PyMCA is distributed in the hope that it will be useful, but WITHOUT ANY
# WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
#
# You should have received a copy of the GNU General Public License along with
# PyMCA; if not, write to the Free Software Foundation, Inc., 59 Temple Place,
# Suite 330, Boston, MA 02111-1307, USA.
#
# PyMCA follows the dual licensing model of Trolltech's Qt and Riverbank's PyQt
# and cannot be used as a free plugin for a non-free program.
#
# Please contact the ESRF industrial unit (industry@esrf.fr) if this license
# is a problem for you.
#############################################################################*/
__author__ = "V.A. Sole - ESRF"
import PCAWindow
qt = PCAWindow.qt
import NNMAModule
QTVERSION = qt.qVersion()
class HorizontalSpacer(qt.QWidget):
def __init__(self, *args):
qt.QWidget.__init__(self, *args)
self.setSizePolicy(qt.QSizePolicy(qt.QSizePolicy.Expanding,
qt.QSizePolicy.Fixed))
class NNMAParametersDialog(qt.QDialog):
def __init__(self, parent = None, options=[1, 2, 3, 4, 5, 10]):
qt.QDialog.__init__(self, parent)
if QTVERSION < '4.0.0':
self.setCaption("NNMA Configuration Dialog")
else:
self.setWindowTitle("NNMA Configuration Dialog")
self.mainLayout = qt.QVBoxLayout(self)
self.mainLayout.setMargin(11)
self.mainLayout.setSpacing(0)
self.infoButton = qt.QPushButton(self)
self.infoButton.setAutoDefault(False)
self.infoButton.setText('About NNMA')
self.mainLayout.addWidget(self.infoButton)
self.connect(self.infoButton,
qt.SIGNAL('clicked()'),
self._showInfo)
#
self.methodOptions = qt.QGroupBox(self)
self.methodOptions.setTitle('NNMA Method to use')
self.methods = ['RRI', 'NNSC', 'NMF', 'SNMF', 'NMFKL',
'FNMAI', 'ALS', 'FastHALS', 'GDCLS']
self.methodOptions.mainLayout = qt.QGridLayout(self.methodOptions)
self.methodOptions.mainLayout.setMargin(0)
self.methodOptions.mainLayout.setSpacing(2)
self.buttonGroup = qt.QButtonGroup(self.methodOptions)
i = 0
for item in self.methods:
rButton = qt.QRadioButton(self.methodOptions)
self.methodOptions.mainLayout.addWidget(rButton, 0, i)
#self.l.setAlignment(rButton, qt.Qt.AlignHCenter)
if i == 1:
rButton.setChecked(True)
rButton.setText(item)
self.buttonGroup.addButton(rButton)
self.buttonGroup.setId(rButton, i)
i += 1
self.connect(self.buttonGroup,
qt.SIGNAL('buttonPressed(QAbstractButton *)'),
self._slot)
self.mainLayout.addWidget(self.methodOptions)
# NNMA configuration parameters
self.nnmaConfiguration = qt.QGroupBox(self)
self.nnmaConfiguration.setTitle('NNMA Configuration')
self.nnmaConfiguration.mainLayout = qt.QGridLayout(self.nnmaConfiguration)
self.nnmaConfiguration.mainLayout.setMargin(0)
self.nnmaConfiguration.mainLayout.setSpacing(2)
label = qt.QLabel(self.nnmaConfiguration)
label.setText('Tolerance (0<eps<1000:')
self._tolerance = qt.QLineEdit(self.nnmaConfiguration)
validator = qt.QDoubleValidator(self._tolerance)
self._tolerance.setValidator(validator)
self._tolerance._validator = validator
self._tolerance.setText("0.001")
self.nnmaConfiguration.mainLayout.addWidget(label, 0, 0)
self.nnmaConfiguration.mainLayout.addWidget(self._tolerance, 0, 1)
label = qt.QLabel(self.nnmaConfiguration)
label.setText('Maximum iterations:')
self._maxIterations = qt.QSpinBox(self.nnmaConfiguration)
self._maxIterations.setMinimum(1)
self._maxIterations.setMaximum(1000)
self._maxIterations.setValue(100)
self.nnmaConfiguration.mainLayout.addWidget(label, 1, 0)
self.nnmaConfiguration.mainLayout.addWidget(self._maxIterations, 1, 1)
self.mainLayout.addWidget(self.nnmaConfiguration)
#built in speed options
self.speedOptions = qt.QGroupBox(self)
self.speedOptions.setTitle("Speed Options")
self.speedOptions.mainLayout = qt.QGridLayout(self.speedOptions)
self.speedOptions.mainLayout.setMargin(0)
self.speedOptions.mainLayout.setSpacing(2)
labelPC = qt.QLabel(self)
labelPC.setText("Number of PC:")
self.nPC = qt.QSpinBox(self.speedOptions)
self.nPC.setMinimum(0)
self.nPC.setValue(10)
self.nPC.setMaximum(40)
self.binningLabel = qt.QLabel(self.speedOptions)
self.binningLabel.setText("Spectral Binning:")
self.binningCombo = qt.QComboBox(self.speedOptions)
for option in options:
self.binningCombo.addItem("%d" % option)
self.speedOptions.mainLayout.addWidget(labelPC, 0, 0)
self.speedOptions.mainLayout.addWidget(self.nPC, 0, 1)
#self.speedOptions.mainLayout.addWidget(HorizontalSpacer(self), 0, 2)
self.speedOptions.mainLayout.addWidget(self.binningLabel, 1, 0)
self.speedOptions.mainLayout.addWidget(self.binningCombo, 1, 1)
self.binningCombo.setEnabled(True)
#the OK button
hbox = qt.QWidget(self)
hboxLayout = qt.QHBoxLayout(hbox)
hboxLayout.setMargin(0)
hboxLayout.setSpacing(0)
self.okButton = qt.QPushButton(hbox)
self.okButton.setAutoDefault(False)
self.okButton.setText("Accept")
hboxLayout.addWidget(HorizontalSpacer(hbox))
hboxLayout.addWidget(self.okButton)
self.dismissButton = qt.QPushButton(hbox)
self.dismissButton.setAutoDefault(False)
self.dismissButton.setText("Dismiss")
hboxLayout.addWidget(HorizontalSpacer(hbox))
hboxLayout.addWidget(self.dismissButton)
hboxLayout.addWidget(HorizontalSpacer(hbox))
self.mainLayout.addWidget(self.speedOptions)
self.mainLayout.addWidget(hbox)
self.connect(self.okButton,
qt.SIGNAL("clicked()"),
self.accept)
self.connect(self.dismissButton,
qt.SIGNAL("clicked()"),
self.reject)
self._infoDocument = qt.QTextEdit()
self._infoDocument.setReadOnly(True)
self._infoDocument.setText(NNMAModule.__doc__)
self._infoDocument.hide()
self.mainLayout.addWidget(self._infoDocument)
def _showInfo(self):
self._infoDocument.show()
def _slot(self, button):
button.setChecked(True)
index = self.buttonGroup.checkedId()
self.binningLabel.setText("Spectral Binning:")
if 1 or index != 2:
self.binningCombo.setEnabled(True)
else:
self.binningCombo.setEnabled(False)
return
def setParameters(self, ddict):
if 'options' in ddict:
self.binningCombo.clear()
for option in ddict['options']:
self.binningCombo.addItem("%d" % option)
if 'binning' in ddict:
option = "%d" % ddict['binning']
for i in range(self.binningCombo.count()):
if str(self.binningCombo.itemText(i)) == option:
self.binningCombo.setCurrentIndex(i)
if 'npc' in ddict:
self.nPC.setValue(ddict['npc'])
if 'method' in ddict:
self.buttonGroup.buttons()[ddict['method']].setChecked(True)
return
def getParameters(self):
ddict = {}
i = self.buttonGroup.checkedId()
ddict['methodlabel'] = self.methods[i]
ddict['function'] = NNMAModule.nnma
eps = float(self._tolerance.text())
maxcount = self._maxIterations.value()
ddict['binning'] = int(self.binningCombo.currentText())
ddict['npc'] = self.nPC.value()
ddict['kw'] = {'eps':eps,
'maxcount':maxcount}
return ddict
class NNMAWindow(PCAWindow.PCAWindow):
def setPCAData(self, images, eigenvalues=None, eigenvectors=None,
imagenames = None, vectornames = None):
self.eigenValues = eigenvalues
self.eigenVectors = eigenvectors
if type(images) == type([]):
self.imageList = images
elif len(images.shape) == 3:
nimages = images.shape[0]
self.imageList = [0] * nimages
for i in range(nimages):
self.imageList[i] = images[i,:]
if self.imageList[i].max() < 0:
self.imageList[i] *= -1
if self.eigenVectors is not None:
self.eigenVectors [i] *= -1
if imagenames is None:
self.imageNames = []
for i in range(nimages):
self.imageNames.append("NNMA Image %02d" % i)
else:
self.imageNames = imagenames
if self.imageList is not None:
self.slider.setMaximum(len(self.imageList)-1)
self.showImage(0)
else:
self.slider.setMaximum(0)
if self.eigenVectors is not None:
if vectornames is None:
self.vectorNames = []
for i in range(nimages):
self.vectorNames.append("NNMA Component %02d" % i)
else:
self.vectorNames = vectornames
legend = self.vectorNames[0]
y = self.eigenVectors[0]
self.vectorGraph.newCurve(range(len(y)), y, legend, replace=True)
if self.eigenValues is not None:
self.vectorGraphTitles = []
for i in range(nimages):
self.vectorGraphTitles.append("%g %% explained intensity" %\
self.eigenValues[i])
self.vectorGraph.graph.setTitle(self.vectorGraphTitles[0])
self.slider.setValue(0)
def test2():
app = qt.QApplication([])
qt.QObject.connect(app,
qt.SIGNAL("lastWindowClosed()"),
app,
qt.SLOT('quit()'))
dialog = NNMAParametersDialog()
#dialog.setParameters({'options':[1,3,5,7,9],'method':1, 'npc':8,'binning':3})
dialog.setModal(True)
ret = dialog.exec_()
if ret:
dialog.close()
print(dialog.getParameters())
#app.exec_()
def test():
app = qt.QApplication([])
qt.QObject.connect(app,
qt.SIGNAL("lastWindowClosed()"),
app,
qt.SLOT('quit()'))
container = NNMAWindow()
data = numpy.arange(20000)
data.shape = 2, 100, 100
data[1, 0:100,0:50] = 100
container.setPCAData(data, eigenvectors=[numpy.arange(100.), numpy.arange(100.)+10],
imagenames=["I1", "I2"], vectornames=["V1", "V2"])
container.show()
def theSlot(ddict):
print(ddict['event'])
if QTVERSION < '4.0.0':
qt.QObject.connect(container,
qt.PYSIGNAL("MaskImageWidgetSignal"),
updateMask)
app.setMainWidget(container)
app.exec_loop()
else:
qt.QObject.connect(container,
qt.SIGNAL("MaskImageWidgetSignal"),
theSlot)
app.exec_()
if __name__ == "__main__":
import numpy
test2()
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