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#/*##########################################################################
# Copyright (C) 2004-2016 M. Rovezzi, 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__ = "Mauro Rovezzi - ID26, V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
import sys
import os
import numpy
from matplotlib.mlab import griddata
from PyMca5 import Plugin1DBase
from PyMca5.PyMcaGui import MaskImageWidget
from PyMca5.PyMcaGui import PyMcaQt as qt
DEBUG = 0
class MultipleScanToMeshPlugin(Plugin1DBase.Plugin1DBase):
def __init__(self, plotWindow, **kw):
Plugin1DBase.Plugin1DBase.__init__(self, plotWindow, **kw)
self.methodDict = {}
self.methodDict['Show RIXS Image'] = [self._rixsID26,
"Show curves as RIXS image",
None]
self._rixsWidget = 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, ...
"""
names = list(self.methodDict.keys())
names.sort()
return names
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.
"""
if DEBUG:
self.methodDict[name][0]()
else:
try:
self.methodDict[name][0]()
except:
print(sys.exc_info())
raise
def _rixsID26(self):
allCurves = self.getAllCurves()
nCurves = len(allCurves)
if nCurves < 2:
msg = "ID26 RIXS scans are built combining several single scans"
raise ValueError(msg)
self._xLabel = self.getGraphXLabel()
self._yLabel = self.getGraphYLabel()
if self._xLabel not in ["energy", "Spec.Energy", "arr_hdh_ene", "Mono.Energy"]:
msg = "X axis does not correspond to a BM20 or ID26 RIXS scan"
raise ValueError(msg)
motorNames = allCurves[0][3]["MotorNames"]
if self._xLabel == "Spec.Energy":
# ID26
fixedMotorMne = "Mono.Energy"
elif (self._xLabel == "energy") and ("xes_en" in motorNames):
# BM20 case
fixedMotorMne = "xes_en"
elif "Spec.Energy" in motorNames:
# ID26
fixedMotorMne = "Spec.Energy"
else:
# TODO: Show a combobox to allow the selection of the "motor"
msg = "Cannot automatically recognize motor mnemomnic to be used"
raise ValueError(msg)
fixedMotorIndex = allCurves[0][3]["MotorNames"].index(fixedMotorMne)
#get the min and max values of the curves
if fixedMotorMne == "Mono.Energy":
info = allCurves[0][3]
xMin = info["MotorValues"][fixedMotorIndex]
xMax = xMin
nData = 0
i = 0
minValues = numpy.zeros((nCurves,), numpy.float64)
for curve in allCurves:
info = curve[3]
tmpMin = info['MotorValues'][fixedMotorIndex]
tmpMax = info['MotorValues'][fixedMotorIndex]
minValues[i] = tmpMin
if tmpMin < xMin:
xMin = tmpMin
if tmpMax > xMax:
xMax =tmpMax
nData += len(curve[0])
i += 1
else:
xMin = allCurves[0][0][0] # ID26 data are already ordered
xMax = allCurves[0][0][-1]
minValues = numpy.zeros((nCurves,), numpy.float64)
minValues[0] = xMin
nData = len(allCurves[0][0])
i = 0
for curve in allCurves[1:]:
i += 1
tmpMin = curve[0][0]
tmpMax = curve[0][-1]
minValues[i] = tmpMin
if tmpMin < xMin:
xMin = tmpMin
if tmpMax > xMax:
xMax =tmpMax
nData += len(curve[0])
#sort the curves
orderIndex = minValues.argsort()
#print "ORDER INDEX = ", orderIndex
# express data in eV
if (xMax - xMin) < 5.0 :
# it seems data need to be multiplied
factor = 1000.
else:
factor = 1.0
motor2Values = numpy.zeros((nCurves,), numpy.float64)
xData = numpy.zeros((nData,), numpy.float32)
yData = numpy.zeros((nData,), numpy.float32)
zData = numpy.zeros((nData,), numpy.float32)
start = 0
for i in range(nCurves):
idx = orderIndex[i]
curve = allCurves[idx]
info = curve[3]
nPoints = max(curve[0].shape)
end = start + nPoints
x = curve[0]
z = curve[1]
x.shape = -1
z.shape = -1
if fixedMotorMne == "Mono.Energy":
xData[start:end] = info["MotorValues"][fixedMotorIndex] * factor
yData[start:end] = x * factor
else:
xData[start:end] = x * factor
yData[start:end] = info["MotorValues"][fixedMotorIndex] * factor
zData[start:end] = z
start = end
# construct the grid in steps of eStep eV
eStep = 0.05
n = (xMax - xMin) * (factor / eStep)
grid0 = numpy.linspace(xMin * factor, xMax * factor, n)
grid1 = numpy.linspace(yData.min(), yData.max(), n)
# create the meshgrid
xx, yy = numpy.meshgrid(grid0, grid1)
if 0:
# get the interpolated values
try:
zz = griddata(xData, yData, zData, xx, yy)
except RuntimeError:
zz = griddata(xData, yData, zData, xx, yy, interp='linear')
# show them
if self._rixsWidget is None:
self._rixsWidget = MaskImageWidget.MaskImageWidget(\
imageicons=False,
selection=False,
profileselection=True,
scanwindow=self)
self._rixsWidget.setImageData(zz,
xScale=(xx.min(), xx.max()),
yScale=(yy.min(), yy.max()))
self._rixsWidget.show()
elif 1:
etData = xData - yData
grid3 = numpy.linspace(etData.min(), etData.max(), n)
# create the meshgrid
xx, yy = numpy.meshgrid(grid0, grid3)
# get the interpolated values
try:
zz = griddata(xData, etData, zData, xx, yy)
except RuntimeError:
# Natural neighbor interpolation not always possible
zz = griddata(xData, etData, zData, xx, yy, interp='linear')
if self._rixsWidget is None:
self._rixsWidget = MaskImageWidget.MaskImageWidget(\
imageicons=False,
selection=False,
aspect=True,
profileselection=True,
scanwindow=self)
self._rixsWidget.setLineProjectionMode('X')
#actualMax = zData.max()
#actualMin = zData.min()
#zz = numpy.where(numpy.isfinite(zz), zz, actualMax)
shape = zz.shape
xScale = (xx.min(), (xx.max() - xx.min())/float(zz.shape[1]))
yScale = (yy.min(), (yy.max() - yy.min())/float(zz.shape[0]))
self._rixsWidget.setImageData(zz,
xScale=xScale,
yScale=yScale)
self._rixsWidget.setXLabel("Incident Energy (eV)")
self._rixsWidget.setYLabel("Energy Transfer (eV)")
self._rixsWidget.show()
return
MENU_TEXT = "MultipleScanToMeshPlugin"
def getPlugin1DInstance(plotWindow, **kw):
ob = MultipleScanToMeshPlugin(plotWindow)
return ob
if __name__ == "__main__":
from PyMca5.PyMcaGraph import Plot
app = qt.QApplication([])
#w = ConfigurationWidget()
#w.exec_()
#sys.exit(0)
DEBUG = 1
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())
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