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#/*##########################################################################
# Copyright (C) 2004-2012 European Synchrotron Radiation Facility
#
# This file is part of the PyMca X-ray Fluorescence Toolkit developed at
# the ESRF by the Software 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.,
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
#
# PyMca follows the dual licensing model of 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 Data Analysis"
import numpy
try:
from PyMca import Plugin1DBase
from PyMca import SGWindow
from PyMca import SNIPWindow
import PyMca.PyMca_Icons as PyMca_Icons
except ImportError:
print("Plugin importing from somewhere else")
import Plugin1DBase
import SGWindow
import SNIPWindow
import PyMca_Icons
class BackgroundScanPlugin(Plugin1DBase.Plugin1DBase):
def __init__(self, plotWindow, **kw):
Plugin1DBase.Plugin1DBase.__init__(self, plotWindow, **kw)
SGtext = "Replace active curve by a\n"
SGtext += "Savitsky-Golay treated one."
SNIP1Dtext = "Replace active curve by a\n"
SNIP1Dtext += "SNIP1D treated one."
self.methodDict = {}
function = self.replaceActiveCurveWithSavitzkyGolayFiltering
info = SGtext
icon = PyMca_Icons.substract
self.methodDict["Savitzky-Golay Filtering"] =[function,
info,
icon]
function = self.subtract1DSnipBackgroundFromActiveCurve
info = SNIP1Dtext
self.methodDict["Subtract SNIP 1D Background"] =[function,
info,
icon]
function = self.deglitchActiveCurveWith1DSnipBackground
info = "Smooth and replace current curve\n"
info += "by its SNIP1D background."
self.methodDict["Deglitch with SNIP 1D Background"] =[function,
info,
PyMca_Icons.smooth]
self.__methodKeys = ["Subtract SNIP 1D Background",
"Savitzky-Golay Filtering",
"Deglitch with SNIP 1D Background"]
self.subtract1DSnipParameters = None
self.deglitch1DSnipParameters = None
#Methods to be implemented by the plugin
def getMethods(self, plottype=None):
"""
A list with the NAMES associated to the callable methods
that are applicable to the specified plot.
Plot type can be "SCAN", "MCA", None, ...
"""
if 0:
names = self.methodDict.keys()
names.sort()
return names
else:
return self.__methodKeys
def getMethodToolTip(self, name):
"""
Returns the help associated to the particular method name or None.
"""
return self.methodDict[name][1]
def getMethodPixmap(self, name):
"""
Returns the pixmap associated to the particular method name or None.
"""
return self.methodDict[name][2]
def applyMethod(self, name):
"""
The plugin is asked to apply the method associated to name.
"""
self.methodDict[name][0]()
return
def replaceActiveCurveWithSavitzkyGolayFiltering(self):
activeCurve = self.getActiveCurve()
if activeCurve is None:
return
x, spectrum, legend, info = activeCurve
snipWindow = SGWindow.SGDialog(None,
spectrum, x=x)
snipWindow.graph.setGraphXTitle(info['xlabel'])
snipWindow.graph.setGraphYTitle(info['ylabel'])
#snipWindow.setModal(True)
snipWindow.show()
ret = snipWindow.exec_()
if ret:
ydata = snipWindow.parametersWidget.background
xdata = snipWindow.parametersWidget.xValues
operations = info.get("operations", [])
operations.append("SG Filtered")
info['operations'] = operations
self.removeCurve(legend, replot=False)
self.addCurve(xdata, ydata, legend=legend, info=info, replot=True)
def subtract1DSnipBackgroundFromActiveCurve(self, smooth=False):
activeCurve = self.getActiveCurve()
if activeCurve is None:
return
x, spectrum, legend, info = activeCurve
snipWindow = SNIPWindow.SNIPDialog(None,
spectrum, x=x, smooth=False)
if self.subtract1DSnipParameters is not None:
snipWindow.setParameters(self.subtract1DSnipParameters)
snipWindow.graph.setGraphXTitle(info['xlabel'])
snipWindow.graph.setGraphYTitle(info['ylabel'])
snipWindow.show()
ret = snipWindow.exec_()
if ret:
ydata = snipWindow.parametersWidget.spectrum -\
snipWindow.parametersWidget.background
xdata = snipWindow.parametersWidget.xValues
operations = info.get("operations", [])
operations.append("SNIP Background Removal")
info['operations'] = operations
self.removeCurve(legend, replot=False)
self.addCurve(xdata, ydata, legend=legend +" Net", info=info, replot=True)
self.subtract1DSnipParameters = snipWindow.getParameters()
def deglitchActiveCurveWith1DSnipBackground(self):
activeCurve = self.getActiveCurve()
if activeCurve is None:
return
x, spectrum, legend, info = activeCurve
snipWindow = SNIPWindow.SNIPDialog(None,
spectrum, x=x, smooth=True)
if self.deglitch1DSnipParameters is not None:
snipWindow.setParameters(self.deglitch1DSnipParameters)
snipWindow.graph.setGraphXTitle(info['xlabel'])
snipWindow.graph.setGraphYTitle(info['ylabel'])
snipWindow.show()
ret = snipWindow.exec_()
if ret:
ydata = snipWindow.parametersWidget.background
xdata = snipWindow.parametersWidget.xValues
operations = info.get("operations", [])
operations.append("SNIP Deglith")
info['operations'] = operations
self.removeCurve(legend, replot=False)
self.addCurve(xdata, ydata, legend=legend, info=info, replot=True)
self.deglitch1DSnipParameters = snipWindow.getParameters()
MENU_TEXT = "Background subtraction tools"
def getPlugin1DInstance(plotWindow, **kw):
ob = BackgroundScanPlugin(plotWindow)
return ob
if __name__ == "__main__":
from PyMca import PyMcaQt as qt
app = qt.QApplication([])
from PyMca import Plot1D
x = numpy.arange(100.)
y = x * x
plot = Plot1D.Plot1D()
plot.addCurve(x, y, "dummy")
plot.addCurve(x+100, -x*x)
plugin = getPlugin1DInstance(plot)
for method in plugin.getMethods():
print(method, ":", plugin.getMethodToolTip(method))
plugin.applyMethod(plugin.getMethods()[0])
curves = plugin.getAllCurves()
for curve in curves:
print(curve[2])
print("LIMITS = ", plugin.getGraphYLimits())
#app = qt.QApplication()
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