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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)
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
#
"""Pilatus Tiff Unit tests"""
from __future__ import print_function, with_statement, division, absolute_import
import unittest
import logging
logger = logging.getLogger(__name__)
import fabio
from .utilstest import UtilsTest
class TestPilatus(unittest.TestCase):
# filename dim1 dim2 min max mean stddev
TESTIMAGES = [
("lysb_5mg-1.90s_SAXS.bz2", 487, 619, 0, 1300, 29.4260, 17.7367),
("lysb_5mg-1.90s_SAXS.gz", 487, 619, 0, 1300, 29.4260, 17.7367),
("lysb_5mg-1.90s_SAXS", 487, 619, 0, 1300, 29.4260, 17.7367),
]
def test_read(self):
"""
Test the reading of Mar345 images
"""
for params in self.TESTIMAGES:
name = params[0]
logger.debug("Processing: %s" % name)
dim1, dim2 = params[1:3]
mini, maxi, mean, stddev = params[3:]
obj = fabio.pilatusimage.PilatusImage()
obj.read(UtilsTest.getimage(name))
self.assertAlmostEqual(mini, obj.getmin(), 2, "getmin [%s,%s]" % (mini, obj.getmin()))
self.assertAlmostEqual(maxi, obj.getmax(), 2, "getmax [%s,%s]" % (maxi, obj.getmax()))
self.assertAlmostEqual(mean, obj.getmean(), 2, "getmean [%s,%s]" % (mean, obj.getmean()))
self.assertAlmostEqual(stddev, obj.getstddev(), 2, "getstddev [%s,%s]" % (stddev, obj.getstddev()))
self.assertEqual(dim1, obj.dim1, "dim1")
self.assertEqual(dim2, obj.dim2, "dim2")
def test_header(self):
for params in self.TESTIMAGES:
name = params[0]
obj = fabio.pilatusimage.PilatusImage()
obj.read(UtilsTest.getimage(name))
expected_keys = [
"Pixel_size",
"Silicon",
"Exposure_time",
"Exposure_period",
"Tau",
"Count_cutoff",
"Threshold_setting",
"Gain_setting",
"N_excluded_pixels",
"Excluded_pixels",
"Flat_field",
"Trim_directory"]
self.assertEqual(list(obj.header.keys()), expected_keys)
expected_values = {
"Pixel_size": "172e-6 m x 172e-6 m",
"Silicon": "sensor, thickness 0.000320 m",
"Exposure_time": "90.000000 s",
"Exposure_period": "90.000000 s",
"Tau": "0 s",
"Count_cutoff": "1048574 counts",
"Threshold_setting": "0 eV",
"Gain_setting": "not implemented (vrf = 9.900)",
"N_excluded_pixels": "0",
"Excluded_pixels": "(nil)",
"Flat_field": "(nil)",
"Trim_directory": "(nil)"}
self.assertEqual(dict(obj.header), expected_values)
def test_frame(self):
for params in self.TESTIMAGES:
name = params[0]
dim1, dim2 = params[1:3]
obj = fabio.pilatusimage.PilatusImage()
obj.read(UtilsTest.getimage(name))
self.assertEqual(obj.nframes, 1)
frame = obj.getframe(0)
self.assertIsNotNone(frame)
self.assertIsNotNone(frame.data)
self.assertEqual(frame.data.shape, (dim2, dim1))
self.assertEqual(len(frame.header), 12)
class TestPilatus1M(unittest.TestCase):
# filename dim1 dim2 min max mean stddev
TESTIMAGES = [
("Pilatus1M.tif.bz2", 981, 1043),
("Pilatus1M.tif", 981, 1043),
]
def setUp(self):
import fabio.utils.pilutils
if fabio.utils.pilutils.Image is None:
self.skipTest("No TIFF decoder available for LZW")
def test_read(self):
"""
Test the reading of Mar345 images
"""
for params in self.TESTIMAGES:
name = params[0]
logger.debug("Processing: %s" % name)
dim1, dim2 = params[1:3]
obj = fabio.pilatusimage.PilatusImage()
obj.read(UtilsTest.getimage(name))
self.assertEqual(dim1, obj.dim1, "dim1")
self.assertEqual(dim2, obj.dim2, "dim2")
def test_header(self):
for params in self.TESTIMAGES:
name = params[0]
obj = fabio.pilatusimage.PilatusImage()
obj.read(UtilsTest.getimage(name))
expected_keys = [
"Pixel_size",
"Silicon",
"Exposure_time",
"Exposure_period",
"Tau",
"Count_cutoff",
"Threshold_setting",
"Gain_setting",
"N_excluded_pixels",
"Excluded_pixels",
"Flat_field",
"Trim_file",
"Image_path",
"Energy_range",
"Detector_distance",
"Detector_Voffset",
"Beam_xy",
"Flux",
"Filter_transmission",
"Start_angle",
"Angle_increment",
"Detector_2theta",
"Polarization",
"Alpha",
"Kappa",
"Phi",
"Chi",
"Oscillation_axis",
"N_oscillations"]
self.assertEqual(list(obj.header.keys()), expected_keys)
def suite():
loadTests = unittest.defaultTestLoader.loadTestsFromTestCase
testsuite = unittest.TestSuite()
testsuite.addTest(loadTests(TestPilatus))
testsuite.addTest(loadTests(TestPilatus1M))
return testsuite
if __name__ == '__main__':
runner = unittest.TextTestRunner()
runner.run(suite())
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