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#/*##########################################################################
#
# The fisx library for X-Ray Fluorescence
#
# Copyright (c) 2014-2016 European Synchrotron Radiation Facility
#
# This file is part of the fisx X-ray developed by V.A. Sole
#
# 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"
import unittest
import sys
import os
import gc
import tempfile
try:
from PyMca5.PyMca import specfile
PYMCA = True
except ImportError:
# do not compare with PyMca because it is not installed
PYMCA = False
class testSimpleSpecfile(unittest.TestCase):
def setUp(self):
"""
import the module
"""
try:
from fisx import SimpleSpecfile
self.specfileClass = SimpleSpecfile
except:
self.specfileClass = None
if self.specfileClass is not None:
text = "#F \n"
text += "\n"
text += "#S 10 Undefined command 0\n"
text += "#N 3\n"
text += "#L First label Second label Third label\n"
text += "10 100 1000\n"
text += "20 400 8000\n"
text += "30 900 270000\n"
text += "\n"
text += "#S 20 Undefined command 1\n"
text += "#N 3\n"
text += "#L First Second Third\n"
text += "1.3 1 1\n"
text += "2.5 4 8\n"
text += "3.7 9 27\n"
text += "\n"
tmpFile = tempfile.mkstemp(text=False)
if sys.version < '3.0':
os.write(tmpFile[0], text)
else:
os.write(tmpFile[0], bytes(text, 'utf-8'))
os.close(tmpFile[0])
self.fname = tmpFile[1]
# generate a badly formatted file using \r\n endings
text = text.replace("\n", "\r\n")
tmpFile = tempfile.mkstemp(text=False)
if sys.version < '3.0':
os.write(tmpFile[0], text)
else:
os.write(tmpFile[0], bytes(text, 'utf-8'))
os.close(tmpFile[0])
self.fnameCR = tmpFile[1]
def tearDown(self):
"""clean up any possible files"""
# make sure the file handle is free
self._sf = None
self._scan = None
# this should free the handle
gc.collect()
if self.specfileClass is not None:
if os.path.exists(self.fname):
os.remove(self.fname)
if os.path.exists(self.fnameCR):
os.remove(self.fnameCR)
def testSimpleSpecfileImport(self):
#"""Test successful import"""
self.assertTrue(self.specfileClass is not None,
'Unsuccessful fisx.SimpleSpecfile import')
def testSimpleSpecfileReading(self):
#"""Test specfile readout"""
self.testSimpleSpecfileImport()
self._sf = self.specfileClass(self.fname)
# test the number of found scans
nScans = self._sf.getNumberOfScans()
self.assertEqual(nScans, 2,
'Expected to read 2 scans, read %s' %\
nScans)
# test scan iteration selection method
labels = self._sf.getScanLabels(1)
expectedLabels = ['First', 'Second', 'Third']
self.assertEqual(len(labels), 3,
'Expected to read 3 labels, got %d' % len(labels))
for i in range(3):
self.assertEqual(labels[i], expectedLabels[i],
'Read "%s" instead of "%s"' %\
(labels[i], expectedLabels[i]))
gc.collect()
def testSimpleSpecfileReadingWithCRLF(self):
#"""Test specfile readout"""
self.testSimpleSpecfileImport()
self._sf = self.specfileClass(self.fnameCR)
# test the number of found scans
nScans = self._sf.getNumberOfScans()
self.assertEqual(nScans, 2,
'Expected to read 2 scans, read %s' %\
nScans)
# test scan iteration selection method
labels = self._sf.getScanLabels(1)
expectedLabels = ['First', 'Second', 'Third']
self.assertEqual(len(labels), 3,
'Expected to read 3 labels, got %d' % len(labels))
for i in range(3):
self.assertEqual(labels[i], expectedLabels[i],
'Read <"%s"> instead of "%s" with CRLF endings' %\
(labels[i], expectedLabels[i]))
gc.collect()
def testSimpleSpecfileReadingCompatibleWithUserLocale(self):
#"""Test specfile compatible with C locale"""
self.testSimpleSpecfileImport()
self._sf = self.specfileClass(self.fname)
data = self._sf.getScanData(1)
self._sf = None
self.assertEqual(data[0] [0], 1.3,
'Read %f instead of %f' %\
(data[0][0], 1.3))
self.assertEqual(data[1] [0], 2.5,
'Read %f instead of %f' %\
(data[1] [0], 2.5))
self.assertEqual(data[2] [0], 3.7,
'Read %f instead of %f' %\
(data[2] [0], 3.7))
gc.collect()
if PYMCA:
def testSimpleSpecfileVersusPyMca(self):
import glob
import PyMca5
from PyMca5 import PyMcaDataDir
from PyMca5.PyMcaIO import specfilewrapper as Specfile
fileList = glob.glob(os.path.join(PyMcaDataDir.PYMCA_DATA_DIR, '*.dat'))
self.testSimpleSpecfileImport()
for filename in fileList:
self._sf = self.specfileClass(filename)
a = self._sf
nScans = a.getNumberOfScans()
sf = Specfile.Specfile(filename)
for i in range(nScans):
scan = sf[i]
if PyMca5.version() > "5.1.1":
# previous versions of PyMca5 could segfault here
labels0 = a.getScanLabels(i)
labels1 = scan.alllabels()
for j in range(len(labels0)):
self.assertEqual(labels0[j], labels1[j],
"Read <%s> instead of <%s>" %\
(labels0[j], labels1[j]))
data0 = a.getScanData(i)
data1 = scan.data().T
M = abs(data0 - data1).max()
if M > 1.0e-8:
raise ValueError("Error reading data")
def getSuite(auto=True):
testSuite = unittest.TestSuite()
if auto:
testSuite.addTest(\
unittest.TestLoader().loadTestsFromTestCase(testSimpleSpecfile))
else:
# use a predefined order
testSuite.addTest(testSimpleSpecfile("testSimpleSpecfileImport"))
testSuite.addTest(testSimpleSpecfile("testSimpleSpecfileReading"))
testSuite.addTest(testSimpleSpecfile(\
"testSimpleSpecfileReadingWithCRLF"))
testSuite.addTest(\
testSimpleSpecfile("testSimpleSpecfileReadingCompatibleWithUserLocale"))
if PYMCA:
testSuite.addTest(\
testSimpleSpecfile("testSimpleSpecfileVersusPyMca"))
return testSuite
def test(auto=False):
unittest.TextTestRunner(verbosity=2).run(getSuite(auto=auto))
if __name__ == '__main__':
test()
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