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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/>.
#
"""Tiff Unit tests"""
from __future__ import print_function, with_statement, division, absolute_import
import unittest
import os
import logging
logger = logging.getLogger(__name__)
import fabio
from fabio import tifimage
from .utilstest import UtilsTest
class TestTif(unittest.TestCase):
# filename dim1 dim2 min max mean stddev
TESTIMAGES = [
("Feb09-bright-00.300s_WAXS.bz2", 1042, 1042, 0, 65535, 8546.6414, 1500.4198),
("Feb09-bright-00.300s_WAXS.gz", 1042, 1042, 0, 65535, 8546.6414, 1500.4198),
("Feb09-bright-00.300s_WAXS", 1042, 1042, 0, 65535, 8546.6414, 1500.4198)]
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.tifimage.TifImage()
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]
logger.debug("Processing: %s" % name)
obj = fabio.tifimage.TifImage()
obj.read(UtilsTest.getimage(name))
# The key order is not the same depending on Python2 or 3
expected_keys = set([
'info',
'photometricInterpretation',
'rowsPerStrip',
'nColumns',
'compression',
'sampleFormat',
'imageDescription',
'nRows',
'colormap',
'nBits',
'date',
'software',
'compression_type',
'stripOffsets',
'stripByteCounts'])
self.assertEqual(set(obj.header.keys()), expected_keys)
def test_frame(self):
for params in self.TESTIMAGES:
name = params[0]
logger.debug("Processing: %s" % name)
dim1, dim2 = params[1:3]
obj = fabio.tifimage.TifImage()
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.keys()), 15)
class TestTifImage_Pilatus(unittest.TestCase):
def setUp(self):
self.fn = {}
for i in ["pilatus2M.tif", "pilatus2M.edf"]:
self.fn[i] = UtilsTest.getimage(i + ".bz2")
for i in self.fn:
assert os.path.exists(self.fn[i])
def test1(self):
"""
Testing pilatus tif bug
"""
o1 = fabio.open(self.fn["pilatus2M.tif"]).data
o2 = fabio.open(self.fn["pilatus2M.edf"]).data
self.assertEqual(abs(o1 - o2).max(), 0.0)
class TestTifImage_Packbits(unittest.TestCase):
def setUp(self):
self.fn = {}
for i in ["oPPA_5grains_0001.tif", "oPPA_5grains_0001.edf"]:
self.fn[i] = UtilsTest.getimage(i + ".bz2")
for i in self.fn:
assert os.path.exists(self.fn[i])
def test1(self):
"""
Testing packbit comressed data tif bug
"""
o1 = fabio.open(self.fn["oPPA_5grains_0001.tif"]).data
o2 = fabio.open(self.fn["oPPA_5grains_0001.edf"]).data
self.assertEqual(abs(o1 - o2).max(), 0.0)
class TestTifImage_fit2d(unittest.TestCase):
def setUp(self):
self.fn = {}
for i in ["fit2d.tif", "fit2d.edf"]:
self.fn[i] = UtilsTest.getimage(i + ".bz2")
for i in self.fn:
assert os.path.exists(self.fn[i])
def test1(self):
"""
Testing packbit comressed data tif bug
"""
o1 = fabio.open(self.fn["fit2d.tif"]).data
o2 = fabio.open(self.fn["fit2d.edf"]).data
self.assertEqual(abs(o1 - o2).max(), 0.0)
class TestTifImage_A0009(unittest.TestCase):
"""
test image from ??? with this error
a0009.tif TIFF 1024x1024 1024x1024+0+0 16-bit Grayscale DirectClass 2MiB 0.000u 0:00.010
identify: a0009.tif: invalid TIFF directory; tags are not sorted in ascending order. `TIFFReadDirectory' @ tiff.c/TIFFWarnings/703.
identify: a0009.tif: TIFF directory is missing required "StripByteCounts" field, calculating from imagelength. `TIFFReadDirectory' @ tiff.c/TIFFWarnings/703.
"""
def setUp(self):
self.fn = {}
for i in ["a0009.tif", "a0009.edf"]:
self.fn[i] = UtilsTest.getimage(i + ".bz2")[:-4]
for i in self.fn:
assert os.path.exists(self.fn[i])
def test1(self):
"""
Testing packbit comressed data tif bug
"""
o1 = fabio.open(self.fn["a0009.tif"]).data
o2 = fabio.open(self.fn["a0009.edf"]).data
self.assertEqual(abs(o1 - o2).max(), 0.0)
class TestGzipTif(unittest.TestCase):
def setUp(self):
self.unzipped = UtilsTest.getimage("oPPA_5grains_0001.tif.bz2")[:-4]
self.zipped = self.unzipped + ".gz"
assert os.path.exists(self.zipped)
assert os.path.exists(self.unzipped)
def test1(self):
o1 = fabio.open(self.zipped)
o2 = fabio.open(self.unzipped)
self.assertEqual(o1.data[0, 0], 10)
self.assertEqual(o2.data[0, 0], 10)
class TestTif_Rect(unittest.TestCase):
def setUp(self):
self.fn = UtilsTest.getimage("testmap1_0002.tif.bz2")[:-4]
def test1(self):
for ext in ["", ".gz", ".bz2"]:
o1 = fabio.open(self.fn + ext)
self.assertEqual(o1.data.shape, (100, 120))
class TestTif_Colormap(unittest.TestCase):
def setUp(self):
self.fn = UtilsTest.getimage("indexed_color.tif.bz2")[:-4]
def tearDown(self):
tifimage._USE_PIL = True
tifimage._USE_TIFFIO = True
def _test_base(self):
for ext in ["", ".gz", ".bz2"]:
image = fabio.open(self.fn + ext)
self.assertEqual(image.data.shape, (16, 16, 3))
self.assertEqual(image.data[0, 0].tolist(), [255, 0, 0])
self.assertEqual(image.data[8, 8].tolist(), [0, 252, 255])
self.assertEqual(image.data[15, 15].tolist(), [255, 96, 0])
def test_pil(self):
if tifimage.PIL is None:
self.skipTest("PIL is not available")
tifimage._USE_TIFFIO = False
self._test_base()
def test_tiffio(self):
tifimage._USE_PIL = False
self._test_base()
class TestTif_LibTiffPic(unittest.TestCase):
"""Test TIFF loading from libtiffpic dataset"""
def setUp(self):
unittest.TestCase.setUp(self)
self.files = UtilsTest.getdir("libtiffpic.tar.gz")
def test_all_images(self):
if tifimage.PIL is None:
self.skipTest("PIL is not available")
for filename in self.files:
if filename.endswith(".tif"):
with fabio.open(filename):
pass
def suite():
loadTests = unittest.defaultTestLoader.loadTestsFromTestCase
testsuite = unittest.TestSuite()
testsuite.addTest(loadTests(TestTif))
testsuite.addTest(loadTests(TestGzipTif))
testsuite.addTest(loadTests(TestTif_Rect))
testsuite.addTest(loadTests(TestTifImage_A0009))
testsuite.addTest(loadTests(TestTifImage_fit2d))
testsuite.addTest(loadTests(TestTifImage_Packbits))
testsuite.addTest(loadTests(TestTifImage_Pilatus))
testsuite.addTest(loadTests(TestTif_Colormap))
testsuite.addTest(loadTests(TestTif_LibTiffPic))
return testsuite
if __name__ == '__main__':
runner = unittest.TextTestRunner()
runner.run(suite())
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