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#!/usr/bin/env python
#/*##########################################################################
#
# The PyMca X-Ray Fluorescence Toolkit
#
# Copyright (c) 2004-2015 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__ = "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
import types
#spx file format is based on XML
import xml.etree.ElementTree as ElementTree
from PyMca5.PyMcaCore import DataObject
SOURCE_TYPE = "EdfFileStack"
def myFloat(x):
try:
return float(x)
except ValueError:
if ',' in x:
try:
return float(x.replace(',','.'))
except:
return float(x)
elif '.' in x:
try:
return float(x.replace('.',','))
except:
return float(x)
else:
raise
class RTXMap(DataObject.DataObject):
'''
Class to read ARTAX .rtx files
'''
def __init__(self, filename):
'''
Parameters:
-----------
filename : str
Name of the .rtx file.
'''
DataObject.DataObject.__init__(self)
if not os.path.exists(filename):
raise IOError("File %s does not exists" % filename)
f = ElementTree.parse(filename)
root = f.getroot()
#print("Tag = ", root.tag)
#print("Tag = ", root.attrib)
info = {}
if 1:
# this works
for key in ["XFirst", "YFirst", "ZFirst", "XLast", "YLast", "ZLast", "MeasNo"]:
element = root.find(".//ClassInstance/%s" % key)
if element is not None:
info[key] = myFloat(element.text)
if "MeasNo" in info:
nSpectra = int(info["MeasNo"])
else:
nSpectra = None
if 1:
# This works
i = 0
axesList = root.findall('.//ClassInstance/AxesParameter')
nRows = None
nColumns = 0
y = None
done = False
for axes in axesList:
if not done:
for axis in axes:
if axis.attrib['AxisName'] == 'y':
if i == 0:
y = myFloat(axis.attrib['AxisPosition'])
if y == myFloat(axis.attrib['AxisPosition']):
nColumns += 1
else:
done = True
#print("#U%d %s %f %s" % (i,
# axis.attrib['AxisName'],
# myFloat(axis.attrib['AxisPosition']),
# axis.attrib['AxisUnit']))
i += 1
#print("Found %d positions" % i)
#print("nColumns = %d" % nColumns)
if nColumns == 0:
nColumns = 1
nRows = i //nColumns
#print("nRows = %d" % nRows)
if nSpectra is None:
nSpectra = nRows * nColumns
else:
if nSpectra != nRows * nColumns:
print("WARNING Header info does not match")
data = None
if 1:
# This works
for key in ["Channels"]:
keyToSearch = './/ClassInstance/%s' % key
i = 0
for content in root.findall(keyToSearch):
if content is not None:
spectrum = numpy.array([myFloat(x) for x in content.text.split(',')])
nChannels = len(spectrum)
if data is None:
data = numpy.zeros((nSpectra, nChannels))
if i < nSpectra:
data[i] = spectrum
i += 1
print("Found %d spectra" % i)
#print nSpectra
#print nRows * nColumns
data.shape = nRows, nColumns, nChannels
self.data = data
self.info = info
def test(filename):
a = RTXMap(filename)
print("info = ", a.info)
print("Data shape = ", a.data.shape)
if __name__ == "__main__":
test(sys.argv[1])
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