#/*##########################################################################
# 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 provides methods to replace curves by their median filter average.
3-, 5-, 7- or 9-points filters are provided. The filter can be applied on the
data in its original order, or in a randomized order.

"""

__author__ = "V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
import numpy

from PyMca5 import Plugin1DBase
from PyMca5.PyMcaMath.fitting import SpecfitFuns
from PyMca5.PyMcaMath.PyMcaSciPy.signal.median import medfilt1d

class MedianFilterScanPlugin(Plugin1DBase.Plugin1DBase):
    def __init__(self, plotWindow, **kw):
        Plugin1DBase.Plugin1DBase.__init__(self, plotWindow, **kw)
        self.__randomization = True
        self.__methodKeys = []
        self.methodDict = {}
        text = "Use a random order instead\n"
        text += "of the plotting order."
        info = text
        icon = None
        function = self.toggleRandomization
        method = "Toggle Randomization OFF"
        self.methodDict[method] = [function,
                                   info,
                                   icon]
        self.__methodKeys.append(method)
        method = "Toggle Randomization ON"
        text = "Use plotting order instead\n"
        text += "of a random order."
        self.methodDict[method] = [function,
                                   info,
                                   icon]
        self.__methodKeys.append(method)
        function = self.applyMedianFilter
        for i in [3, 5, 7, 9]:
            info = "Replace curves by their %d-point median filter average" % i
            method = "Replace by %d-point median filter" % i
            self.methodDict[method] = [function,
                                       info,
                                       icon]
            self.__methodKeys.append(method)

    #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 self.__randomization:
            return self.__methodKeys[0:1] +  self.__methodKeys[2:]
        else:
            return self.__methodKeys[1:]

    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 None

    def applyMethod(self, name):
        """
        The plugin is asked to apply the method associated to name.
        """
        if name.startswith('Toggle'):
            return self.methodDict[name][0]()
        n = int(name.split('-')[0].split()[-1])
        return self.applyMedianFilter(width=n)

    def toggleRandomization(self):
        if self.__randomization:
            self.__randomization = False
        else:
            self.__randomization = True

    def applyMedianFilter(self, width=3):
        curves = self.getAllCurves()
        nCurves = len(curves)
        if nCurves < width:
            raise ValueError("At least %d curves needed" % width)
            return

        if self.__randomization:
            indices = numpy.random.permutation(nCurves)
        else:
            indices = range(nCurves)

        # get active curve
        activeCurve = self.getActiveCurve()
        if activeCurve is None:
            activeCurve = curves[0]

        # apply between graph limits
        x0 = activeCurve[0][:]
        y0 = activeCurve[1][:]
        xmin, xmax =self.getGraphXLimits()
        idx = numpy.nonzero((x0 >= xmin) & (x0 <= xmax))[0]
        x0 = numpy.take(x0, idx)
        y0 = numpy.take(y0, idx)

        #sort the values
        idx = numpy.argsort(x0, kind='mergesort')
        x0 = numpy.take(x0, idx)
        y0 = numpy.take(y0, idx)

        #remove duplicates
        x0 = x0.ravel()
        idx = numpy.nonzero((x0[1:] > x0[:-1]))[0]
        x0 = numpy.take(x0, idx)
        y0 = numpy.take(y0, idx)

        x0.shape = -1, 1
        nChannels = x0.shape[0]

        # built a couple of temporary array of spectra for handy access
        tmpArray = numpy.zeros((nChannels, nCurves), numpy.float)
        medianSpectra = numpy.zeros((nChannels, nCurves), numpy.float)
        i = 0
        for idx in indices:
            x, y, legend, info = curves[idx][0:4]
            #sort the values
            x = x[:]
            idx = numpy.argsort(x, kind='mergesort')
            x = numpy.take(x, idx)
            y = numpy.take(y, idx)

            #take the portion of x between limits
            idx = numpy.nonzero((x>=xmin) & (x<=xmax))[0]
            if not len(idx):
                # no overlap
                continue
            x = numpy.take(x, idx)
            y = numpy.take(y, idx)

            #remove duplicates
            x = x.ravel()
            idx = numpy.nonzero((x[1:] > x[:-1]))[0]
            x = numpy.take(x, idx)
            y = numpy.take(y, idx)
            x.shape = -1, 1
            if numpy.allclose(x, x0):
                # no need for interpolation
                pass
            else:
                # we have to interpolate
                x.shape = -1
                y.shape = -1
                xi = x0[:]
                y = SpecfitFuns.interpol([x], y, xi, y0.min())
            y.shape = -1
            tmpArray[:, i] = y
            i += 1

        # now perform the median filter
        for i in range(nChannels):
            medianSpectra[i, :] = medfilt1d(tmpArray[i,:],
                                            kernel_size=width)
        tmpArray = None
        # now get the final spectrum
        y = medianSpectra.sum(axis=1) / nCurves
        x0.shape = -1
        y.shape = x0.shape
        legend = "%d Median from %s to %s" % (width,
                                              curves[0][2],
                                              curves[-1][2])
        self.addCurve(x0,
                      y,
                      legend=legend,
                      info=None,
                      replot=True,
                      replace=True)

MENU_TEXT = "Median Filter Average"
def getPlugin1DInstance(plotWindow, **kw):
    ob = MedianFilterScanPlugin(plotWindow)
    return ob

if __name__ == "__main__":
    from PyMca5.PyMcaGui import PyMcaQt as qt
    app = qt.QApplication([])
    from PyMca5.PyMcaGraph import Plot
    x = numpy.arange(100.)
    y = x * x
    plot = Plot.Plot()
    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()
