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#/*##########################################################################
# 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.
#
#############################################################################*/
"""This plugin allows to configure and execute a batch fitting for all
spectra in the stack.
The user can select the fit function and a background function from a
selection of functions, and must provide the initial estimation for
the iterative fit.
The fit result is saved to file, at the end. A 2D map is created for each
fitted parameter, and saved in EDF and ASCII formats."""
__author__ = "V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
import logging
_logger = logging.getLogger(__name__)
try:
from PyMca5 import StackPluginBase
from PyMca5.PyMcaGui import StackSimpleFitWindow
from PyMca5.PyMcaGui import PyMca_Icons
except ImportError:
_logger.warning("FitStackPlugin importing from somewhere else")
class FitStackPlugin(StackPluginBase.StackPluginBase):
def __init__(self, stackWindow, **kw):
if _logger.getEffectiveLevel() == logging.DEBUG:
StackPluginBase.pluginBaseLogger.setLevel(logging.DEBUG)
StackPluginBase.StackPluginBase.__init__(self, stackWindow, **kw)
self.methodDict = {}
function = self.fitStack
info = "Fit stack with user defined functions"
icon = PyMca_Icons.fit
self.methodDict["Fit Stack"] =[function,
info,
icon]
self.__methodKeys = ["Fit Stack"]
self.simpleFitWindow = None
def stackUpdated(self):
if self.simpleFitWindow is None:
return
self.__updateOwnData()
def selectionMaskUpdated(self):
if self.simpleFitWindow is None:
return
self.simpleFitWindow.setMask(self.getStackSelectionMask())
def stackClosed(self):
if self.simpleFitWindow is not None:
self.simpleFitWindow.close()
#Methods implemented by the plugin
def getMethods(self):
return self.__methodKeys
def getMethodToolTip(self, name):
return self.methodDict[name][1]
def getMethodPixmap(self, name):
return self.methodDict[name][2]
def applyMethod(self, name):
return self.methodDict[name][0]()
def __updateOwnData(self):
activeCurve = self.getActiveCurve()
if activeCurve is None:
return
#this can be problematic if a fit is going on...
x, spectrum, legend, info = activeCurve
xlabel = info['xlabel']
ylabel = info['ylabel']
xmin, xmax = self.getGraphXLimits()
ymin, ymax = self.getGraphYLimits()
mcaIndex = self.getStackInfo()['McaIndex']
self.simpleFitWindow.setSpectrum(x,
spectrum,
xmin=xmin,
xmax=xmax)
self.simpleFitWindow.setData(x,
self.getStackData(),
data_index=mcaIndex,
mask=self.getStackSelectionMask())
def fitStack(self):
if self.simpleFitWindow is None:
self.simpleFitWindow = StackSimpleFitWindow.StackSimpleFitWindow()
self.__updateOwnData()
self.simpleFitWindow.show()
MENU_TEXT = "Stack Simple Fitting"
def getStackPluginInstance(stackWindow, **kw):
ob = FitStackPlugin(stackWindow)
return ob
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