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#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Project: Fable Input Output
# https://github.com/silx-kit/fabio
#
# Copyright (C) European Synchrotron Radiation Facility, Grenoble, France
#
# Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu)
#
# 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.
#
"""
#bruker Unit tests
#built on testbrukerimage
19/01/2015
"""
import unittest
import os
import numpy
import logging
logger = logging.getLogger(__name__)
from ...brukerimage import brukerimage
from ... import fabioutils
from ..utilstest import UtilsTest
# this is actually a violation of the bruker format since the order of
# the header items is specified
# in the standard, whereas the order of a python dictionary is not
MYHEADER = {"FORMAT": '86',
'NPIXELB': '2',
'VERSION': '9',
'HDRBLKS': '5',
'NOVERFL': '4',
'NCOLS': '256',
'NROWS': '256',
'WORDORD': '0'}
MYIMAGE = numpy.ones((256, 256), numpy.uint16) * 16
MYIMAGE[0, 0] = 0
MYIMAGE[1, 1] = 32
MYIMAGE[127:129, 127:129] = 65535
if not numpy.little_endian:
MYIMAGE.byteswap(True)
OVERFLOWS = [
["%09d" % 4194304, ("%07d" % (127 * 256 + 127))],
["%09d" % 4194304, ("%07d" % (127 * 256 + 128))],
["%09d" % 4194304, ("%07d" % (128 * 256 + 127))],
["%09d" % 4194304, ("%07d" % (128 * 256 + 128))]
]
class TestBruker(unittest.TestCase):
"""basic test"""
def setUp(self):
""" Generate a test bruker image """
self.filename = os.path.join(UtilsTest.tempdir, "image.0000")
with open(self.filename, 'wb') as fout:
wrb = 0
for key, val in MYHEADER.items():
fout.write((("%-7s" % key) + ':' + ("%-72s" % val)).encode("ASCII"))
wrb = wrb + 80
hdrblks = int(MYHEADER['HDRBLKS'])
while (wrb < hdrblks * 512):
fout.write(b"\x1a\x04")
fout.write(b'.' * 78)
wrb = wrb + 80
fout.write(MYIMAGE.tobytes())
noverfl = int(MYHEADER['NOVERFL'])
for ovf in OVERFLOWS:
fout.write((ovf[0] + ovf[1]).encode("ASCII"))
fout.write(b'.' * (512 - (16 * noverfl) % 512))
def tearDown(self):
unittest.TestCase.tearDown(self)
if os.path.exists(self.filename):
os.unlink(self.filename)
def test_read(self):
""" see if we can read the test image """
obj = brukerimage()
obj.read(self.filename)
self.assertAlmostEqual(obj.getmean(), 272.0, 2)
self.assertEqual(obj.getmin(), 0)
self.assertEqual(obj.getmax(), 4194304)
class TestBzipBruker(TestBruker):
""" test for a bzipped image """
def setUp(self):
""" create the image """
TestBruker.setUp(self)
if os.path.isfile(self.filename + ".bz2"):
os.unlink(self.filename + ".bz2")
with fabioutils.BZ2File(self.filename + ".bz2", "wb") as wf:
with open(self.filename, "rb") as rf:
wf.write(rf.read())
self.filename = self.filename + ".bz2"
class TestGzipBruker(TestBruker):
""" test for a gzipped image """
def setUp(self):
""" Create the image """
TestBruker.setUp(self)
if os.path.isfile(self.filename + ".gz"):
os.unlink(self.filename + ".gz")
with fabioutils.GzipFile(self.filename + ".gz", "wb") as wf:
with open(self.filename, "rb") as rf:
wf.write(rf.read())
self.filename = self.filename + ".gz"
class TestBrukerLinear(unittest.TestCase):
"""basic test, test a random array of float32"""
def setUp(self):
unittest.TestCase.setUp(self)
self.filename = os.path.join(UtilsTest.tempdir, "bruker.0000")
self.data = numpy.random.random((500, 550)).astype("float32")
def test_linear(self):
""" test for self consistency of random data read/write """
obj = brukerimage(data=self.data)
obj.write(self.filename)
new = brukerimage()
new.read(self.filename)
error = abs(new.data - self.data).max()
self.assertTrue(error < numpy.finfo(numpy.float32).eps, "Error is %s>1e-7" % error)
def tearDown(self):
unittest.TestCase.tearDown(self)
if os.path.exists(self.filename):
os.unlink(self.filename)
# statistics come from fit2d I think
# filename dim1 dim2 min max mean stddev
TESTIMAGES = """Cr8F8140k103.0026 512 512 0 145942 289.37 432.17
Cr8F8140k103.0026.gz 512 512 0 145942 289.37 432.17
Cr8F8140k103.0026.bz2 512 512 0 145942 289.37 432.17"""
class TestRealImg(unittest.TestCase):
""" check some read data from bruker detector"""
def setUp(self):
"""
download images
"""
self.im_dir = os.path.dirname(UtilsTest.getimage("Cr8F8140k103.0026.bz2"))
def tearDown(self):
unittest.TestCase.tearDown(self)
self.im_dir = None
def test_read(self):
""" check we can read bruker images"""
for line in TESTIMAGES.split("\n"):
vals = line.split()
name = vals[0]
dim1, dim2 = [int(x) for x in vals[1:3]]
shape = dim2, dim1
mini, maxi, mean, stddev = [float(x) for x in vals[3:]]
obj = brukerimage()
obj.read(os.path.join(self.im_dir, name))
self.assertAlmostEqual(mini, obj.getmin(), 2, "getmin")
self.assertAlmostEqual(maxi, obj.getmax(), 2, "getmax")
self.assertAlmostEqual(mean, obj.getmean(), 2, "getmean")
self.assertAlmostEqual(stddev, obj.getstddev(), 2, "getstddev")
self.assertEqual(shape, obj.shape)
def test_write(self):
"Test writing with self consistency at the fabio level"
for line in TESTIMAGES.split("\n"):
vals = line.split()
name = vals[0]
obj = brukerimage()
ref = brukerimage()
fname = os.path.join(self.im_dir, name)
obj.read(fname)
obj.write(os.path.join(UtilsTest.tempdir, name))
other = brukerimage()
other.read(os.path.join(UtilsTest.tempdir, name))
ref.read(fname)
self.assertEqual(abs(obj.data - other.data).max(), 0, "data are the same")
for key in ref.header:
if key in ("filename",):
continue
if key not in other.header:
logger.warning("Key %s is missing in new header, was %s" % (key, ref.header[key]))
else:
self.assertEqual(ref.header[key], other.header[key], "value are the same for key %s: was %s now %s" % (key, ref.header[key], other.header[key]))
def suite():
loadTests = unittest.defaultTestLoader.loadTestsFromTestCase
testsuite = unittest.TestSuite()
testsuite.addTest(loadTests(TestBruker))
testsuite.addTest(loadTests(TestBzipBruker))
testsuite.addTest(loadTests(TestGzipBruker))
testsuite.addTest(loadTests(TestRealImg))
testsuite.addTest(loadTests(TestBrukerLinear))
return testsuite
if __name__ == '__main__':
runner = unittest.TextTestRunner()
runner.run(suite())
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