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#/*##########################################################################
#
# 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"
__doc__= "Generate specfile from XCOM generated files"
import sys
import os
import numpy
from PyMca5.PyMcaPhysics import Elements
def getHeader(filename):
text = '#F %s\n' % filename
text += '#U00 This file is a direct conversion to specfile format of \n'
text += '#U01 the XCOM selected-arrays output.\n'
text += '#U02 \n'
text += '#U03 XCOM itself can be found at:\n'
text += '#U04 http://www.nist.gov/pml/data/xcom/index.cfm\n'
text += '\n'
return text
if __name__ == "__main__":
if len(sys.argv) < 3:
print("Usage:")
print("python GenerateXCOMTotalCrossSections SPEC_output_filename Barns_flag")
sys.exit(0)
fname = sys.argv[1]
if os.path.exists(fname):
os.remove(fname)
if int(sys.argv[2]):
BARNS = True
else:
BARNS = False
print("BARNS = %s" % BARNS)
outfile = open(fname, 'wb')
outfile.write(getHeader(fname))
for i in range(1, 101):
ele = Elements.getsymbol(i)
print("i = %d element = %s" % (i, ele))
# force data readout
dataDict = Elements.getelementmassattcoef(ele)
# pure XCOM data
dataDict = Elements.Element[ele]['xcom']
# energy (keV)
energy = dataDict['energy']
# coherent (cm2/g)
cohe = dataDict['coherent']
# incoherent
incohe = dataDict['compton']
# photoelectric
photo = dataDict['photo']
# photoelectric
pair = dataDict['pair']
# total
total = dataDict['total']
# convert to keV and cut at 500 keV not done for XCOM
# indices = numpy.nonzero(energy<=500.)
# energy = energy[indices]
# photo = photo[indices]
# cohe = cohe[indices]
# incohe = incohe[indices]
# I do not cut at 500 keV. I need to take the pair production
total = photo + cohe + incohe + pair
#now I am ready to write a Specfile
text = '#S %d %s\n' % (i, ele)
text += '#N 5\n'
labels = '#L PhotonEnergy[keV]'
labels += ' Rayleigh(coherent)[barn/atom]'
labels += ' Compton(incoherent)[barn/atom]'
labels += ' CoherentPlusIncoherent[barn/atom]'
labels += ' Photoelectric[barn/atom]'
labels += ' PairProduction[barn/atom]'
labels += ' TotalCrossSection[barn/atom]\n'
if not BARNS:
labels = labels.replace("barn/atom", "cm2/g")
factor = 1.0
else:
factor = Elements.Element[ele]['mass'] /(1.0E-24*AVOGADRO_NUMBER)
text += labels
if 0:
fformat = "%g %g %g %g %g %g %g\n"
else:
fformat = "%.6E %.6E %.6E %.6E %.6E %.6E %.6E\n"
outfile.write(text)
for n in range(len(energy)):
line = fformat % (energy[n],
cohe[n] * factor,
incohe[n] * factor,
(cohe[n] + incohe[n]) * factor,
photo[n] * factor,
pair[n] * factor,
total[n] * factor)
outfile.write(line)
outfile.write('\n')
outfile.close()
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