#!/usr/bin/env python # coding: utf-8 # /*########################################################################## # # Copyright (c) 2016 European Synchrotron Radiation Facility # # 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. # # ###########################################################################*/ """Test of the filtered backprojection module""" from __future__ import division, print_function __authors__ = ["Pierre paleo"] __license__ = "MIT" __copyright__ = "2013-2017 European Synchrotron Radiation Facility, Grenoble, France" __date__ = "05/10/2017" import time import logging import numpy import unittest try: import mako except ImportError: mako = None from ..common import ocl if ocl: from .. import backprojection from silx.test.utils import utilstest logger = logging.getLogger(__name__) def generate_coords(img_shp, center=None): """ Return two 2D arrays containing the indexes of an image. The zero is at the center of the image. """ l_r, l_c = float(img_shp[0]), float(img_shp[1]) R, C = numpy.mgrid[:l_r, :l_c] if center is None: center0, center1 = l_r / 2., l_c / 2. else: center0, center1 = center R = R + 0.5 - center0 C = C + 0.5 - center1 return R, C def clip_circle(img, center=None, radius=None): """ Puts zeros outside the inscribed circle of the image support. """ R, C = generate_coords(img.shape, center) M = R * R + C * C res = numpy.zeros_like(img) if radius is None: radius = img.shape[0] / 2. - 1 mask = M < radius * radius res[mask] = img[mask] return res @unittest.skipUnless(ocl and mako, "PyOpenCl is missing") class TestFBP(unittest.TestCase): def setUp(self): if ocl is None: return # ~ if sys.platform.startswith('darwin'): # ~ self.skipTest("Backprojection is not implemented on CPU for OS X yet") self.getfiles() self.fbp = backprojection.Backprojection(self.sino.shape, profile=True) if self.fbp.compiletime_workgroup_size < 16: self.skipTest("Current implementation of OpenCL backprojection is not supported on this platform yet") def tearDown(self): self.sino = None # self.fbp.log_profile() self.fbp = None def getfiles(self): # load sinogram of 512x512 MRI phantom self.sino = numpy.load(utilstest.getfile("sino500.npz"))["data"] # load reconstruction made with ASTRA FBP (with filter designed in spatial domain) self.reference_rec = numpy.load(utilstest.getfile("rec_astra_500.npz"))["data"] def measure(self): "Common measurement of timings" t1 = time.time() try: result = self.fbp.filtered_backprojection(self.sino) except RuntimeError as msg: logger.error(msg) return t2 = time.time() return t2 - t1, result def compare(self, res): """ Compare a result with the reference reconstruction. Only the valid reconstruction zone (inscribed circle) is taken into account """ res_clipped = clip_circle(res) ref_clipped = clip_circle(self.reference_rec) delta = abs(res_clipped - ref_clipped) bad = delta > 1 # numpy.save("/tmp/bad.npy", bad.astype(int)) logger.debug("Absolute difference: %s with %s outlier pixels out of %s", delta.max(), bad.sum(), numpy.prod(bad.shape)) return delta.max() @unittest.skipUnless(ocl and mako, "pyopencl is missing") def test_fbp(self): """ tests FBP """ # Test single reconstruction # -------------------------- t, res = self.measure() if t is None: logger.info("test_fp: skipped") else: logger.info("test_backproj: time = %.3fs" % t) err = self.compare(res) msg = str("Max error = %e" % err) logger.info(msg) # TODO: cannot do better than 1e0 ? # The plain backprojection was much better, so it must be an issue in the filtering process self.assertTrue(err < 1., "Max error is too high") # Test multiple reconstructions # ----------------------------- res0 = numpy.copy(res) for i in range(10): res = self.fbp.filtered_backprojection(self.sino) errmax = numpy.max(numpy.abs(res - res0)) self.assertTrue(errmax < 1.e-6, "Max error is too high") def suite(): testSuite = unittest.TestSuite() testSuite.addTest(TestFBP("test_fbp")) return testSuite if __name__ == '__main__': unittest.main(defaultTest="suite")