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#!/usr/bin/env python
#/*##########################################################################
#
# The PyMca X-Ray Fluorescence Toolkit
#
# Copyright (c) 2004-2014 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.PyMcaIO import SpecFileAbstractClass
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 SPXFileParser(SpecFileAbstractClass.SpecFileAbstractClass):
def __init__(self, filename):
SpecFileAbstractClass.SpecFileAbstractClass.__init__(self, filename)
if not os.path.exists(filename):
raise IOError("File %s does not exists" % filename)
f = ElementTree.parse(filename)
root = f.getroot()
info = {}
#I do not use find all, providing support for only one spectrum
infoKeys = ['HighVoltage', 'TubeCurrent',
'RealTime', 'LifeTime', 'DeadTime',
'ZeroPeakPosition', 'ZeroPeakFrequency', 'PulseDensity',
'Amplification', 'ShapingTime',
'Date','Time',
'ChannelCount','CalibAbs', 'CalibLin']
for key in infoKeys:
keyToSearch = './/ClassInstance/%s' % key
content = root.find(keyToSearch)
if content is not None:
info[key] = content.text
axes = root.find('.//ClassInstance/AxesParameter')
data = numpy.array([float(x) for x in root.find('.//Channels').text.split(',')])
data.shape = len(data), 1
scanheader = ['#S 1 ' + info.get('name', "Unknown name")]
i = 0
if axes is not None:
for axis in axes:
scanheader.append("#U%d %s %f %s" % (i,
axis.attrib['AxisName'],
myFloat(axis.attrib['AxisPosition']),
axis.attrib['AxisUnit']))
i += 1
for key in infoKeys:
scanheader.append("#U%d %s %s" % (i, key, info.get(key, "Unknown")))
i += 1
liveTime = info.get('LifeTime', None)
realTime = info.get('RealTime', liveTime)
if liveTime is not None:
scanheader.append("#@CTIME %f %f %f" % (myFloat(realTime)/1000.,
myFloat(liveTime)/1000.,
myFloat(realTime)/1000.))
scanheader.append("#@CALIB %f %f 0" % (myFloat(info.get('CalibAbs', 0.0)),
myFloat(info.get('CalibLin', 1.0))))
self.scandata = [SpecFileAbstractClass.SpecFileAbstractScan(data,
scantype="MCA",
scanheader=scanheader)]
def test(filename):
SPXFileParser(filename)
if __name__ == "__main__":
test(sys.argv[1])
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