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#/*##########################################################################
# Copyright (C) 2004-2019 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 can be used to replace the stack's X data with data from
a text file, or with the MCA curve's X or Y data.
When loading from a file, the data should be in a format that can be
loaded using `numpy.loadtxt
<https://docs.scipy.org/doc/numpy-1.14.0/reference/generated/numpy.loadtxt.html>`_,
i.e. must be a CSV file without a header line and with a single column.
"""
__author__ = "V.A. Sole - ESRF Data Analysis"
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
import numpy
import logging
from PyMca5 import StackPluginBase
from PyMca5.PyMcaGui.io import PyMcaFileDialogs
from PyMca5.PyMcaGui import PyMca_Icons
_logger = logging.getLogger(__name__)
class StackAxesPlugin(StackPluginBase.StackPluginBase):
def __init__(self, stackWindow, **kw):
if _logger.getEffectiveLevel() == logging.DEBUG:
StackPluginBase.pluginBaseLogger.setLevel(logging.DEBUG)
StackPluginBase.StackPluginBase.__init__(self, stackWindow, **kw)
text = "Replace current 1D axis by list of numbers found in ASCII file"
self.methodDict = {}
function = self.replace1DAxisWithASCII
info = text
icon = None
self.methodDict["1D axis from ASCII file"] = [function, info, icon]
self.__methodKeys = ["1D axis from ASCII file"]
function = self.replace1DAxisWithActiveCurveXValues
text = "Replace current 1D axis by X values in current MCA curve"
info = text
icon = None
self.methodDict["1D axis from MCA curve X values"] = [function, info, icon]
self.__methodKeys.append("1D axis from MCA curve X values")
function = self.replace1DAxisWithActiveCurveYValues
text = "Replace current 1D axis by Y values in current MCA curve"
info = text
icon = None
self.methodDict["1D axis from MCA curve Y values"] = [function, info, icon]
self.__methodKeys.append("1D axis from MCA curve Y values")
#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 replace1DAxisWithASCII(self):
stack = self.getStackDataObject()
mcaIndex = stack.info.get('McaIndex', -1)
nPoints = stack.data.shape[mcaIndex]
fileList = PyMcaFileDialogs.getFileList(None,
filetypelist=["ASCII files (*)"],
message="Select ASCII file",
mode="OPEN",
getfilter=False,
single=True)
if not len(fileList):
return
filename = fileList[0]
data = numpy.loadtxt(filename)
data.shape = -1
if data.size != nPoints:
raise ValueError("Number of read values not equal to %d" % nPoints)
else:
stack.x = [data]
self.setStack(stack, mcaindex=mcaIndex)
def replace1DAxisWithActiveCurveYValues(self):
stack = self.getStackDataObject()
mcaIndex = stack.info.get('McaIndex', -1)
nPoints = stack.data.shape[mcaIndex]
curve = self.getActiveCurve()
data = curve[1]
data.shape = -1
if data.size != nPoints:
raise ValueError("Number of read values not equal to %d" % nPoints)
else:
stack.x = [data]
self.setStack(stack, mcaindex=mcaIndex)
def replace1DAxisWithActiveCurveXValues(self):
stack = self.getStackDataObject()
mcaIndex = stack.info.get('McaIndex', -1)
nPoints = stack.data.shape[mcaIndex]
curve = self.getActiveCurve()
data = curve[0]
data.shape = -1
if data.size != nPoints:
raise ValueError("Number of read values not equal to %d" % nPoints)
else:
stack.x = [data]
self.setStack(stack, mcaindex=mcaIndex)
MENU_TEXT = "Stack Axes Options"
def getStackPluginInstance(stackWindow, **kw):
ob = StackAxesPlugin(stackWindow)
return ob
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