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#!/usr/bin/env python
# -*- coding: utf-8 -*-
# TODO:
# - "pywt" vs "PyWavelets"
# - [OK] Legacy: support pywt
# - Take PyWavelets new swt order into account
import sys
import unittest
import logging
import numpy as np
from time import time
from copy import deepcopy
from testutils import available_filters, scipy_img
try:
import pywt
except ImportError:
print("ERROR : could not find the python module pywt")
sys.exit(1)
try:
from pycudwt import Wavelets
except ImportError:
print("ERROR: could not load pycudwt. Make sure it is installed (python setup.py install --user)")
sys.exit(1)
# Version <= 0.5 of PyWavelets uses the word "periodization"
# for the dwt extension mode, instead of "per" for nigma/pywt version.
# These are not compatibible for now.
try:
pywt_ver_full = pywt.version.full_version
v = pywt_ver_full.split(".")
pywt_ver = float(v[0]) + 10**-(len(v[1]))*float(v[1])
per_kw = "periodization"
except AttributeError: # nigma/pywt
per_kw = "per"
pywt_ver = -1.0
pywt_ver_full = "?"
# Uncomment for odd-size data
# scipy_img = scipy_img[:511, :509]
# Logging
logging.basicConfig(filename='results.log', filemode='w',
format='%(asctime)s %(levelname)s %(message)s',
datefmt='%m/%d/%Y %I:%M:%S', level=logging.DEBUG)
# -----
def elapsed_ms(t0):
return (time()-t0)*1e3
def _calc_errors(arr1, arr2, string=None):
if string is None: string = ""
maxerr = np.max(np.abs(arr1 - arr2))
msg = str("%s max error: %e" % (string, maxerr))
logging.info(msg)
return maxerr
# http://eli.thegreenplace.net/2011/08/02/python-unit-testing-parametrized-test-cases/
class ParametrizedTestCase(unittest.TestCase):
""" TestCase classes that want to be parametrized should
inherit from this class.
"""
def __init__(self, methodName='runTest', param=None):
super(ParametrizedTestCase, self).__init__(methodName)
self.param = param
@staticmethod
def parametrize(testcase_klass, param=None):
""" Create a suite containing all tests taken from the given
subclass, passing them the parameter 'param'.
"""
testloader = unittest.TestLoader()
testnames = testloader.getTestCaseNames(testcase_klass)
suite = unittest.TestSuite()
for name in testnames:
suite.addTest(testcase_klass(name, param=param))
return suite
class TestWavelet(ParametrizedTestCase):
def setUp(self):
"""
Set up the TestWavelet class with default parameters.
"""
# Maximum acceptable error wrt pywt for float32 precision.
# As the transform are not scaled, the error increases with
# the number of levels. Thus, self.tol is multiplied with 2**levels
self.tol = 3e-4
self.data = scipy_img
self.do_pywt = False # use pywt when testing reconstruction (for benchmarking)
# Default arguments when testing only one wavelet
self.wname = "haar"
self.levels = 8
# Bind names to methods
self.tests = {
"dwt2": self.dwt2,
"idwt2": self.idwt2,
"swt2": self.swt2,
"iswt2": self.iswt2,
"dwt": self.dwt,
"idwt": self.idwt,
"swt": self.swt,
"iswt": self.iswt,
}
self.W = None
v_str = str("Using pypwt version %s and pywavelets version %s" % (Wavelets.version(), str(pywt_ver_full)))
logging.info(v_str)
def tearDown(self):
#
# This one is very important when running many tests.
# For some reason, it looks like the reference to the Wavelets object
# is not always updated, causing some errors.
# This should be investigated further...
#
if self.W is not None:
del self.W
def test_wavelet(self):
"""
Method which is actually executed when the test in launched.
An additional parameter can be passed: param=..., where:
param[0]: wavelet name
param[1]: number of levels
param[2]: input data
param[3]: what to do ("dwt2", "idwt2", "swt2", "iswt2", "dwt", "idwt", "swt", "iswt"
param[4]: separable mode for pypwt (default is True)
param[5]: test-dependent extra parameters
"""
if self.param is None:
self.what = "dwt2"
self.separable = 1
self.extra_args = None
else:
self.wname = self.param["wname"]
self.levels = self.param["levels"]
self.data = self.param["data"]
self.what = self.param["what"]
self.separable = self.param["separable"]
self.extra_args = None
if "extra" in self.param.keys():
self.extra_args = self.param["extra"]
if "tol" in self.extra_args.keys(): self.tol = self.extra_args["tol"]
if "do_pywt" in self.extra_args.keys() and bool(self.extra_args["do_pywt"]): self.do_pywt = True
# batched WT is not available in nigma/pywt
if pywt_ver < 0 and self.what in ["dwt", "idwt", "swt", "iswt"] and self.data.ndim > 1:
self.skipTest("Skipping %s as batch is not supported in this version of pywt" % self.what)
#FIXME: coefficients in PyWavelets are re-computed, which can lead to significant errors for coif5
if ("i" not in self.what) and (pywt_ver > 0 and pywt_ver <= 0.5) and (self.wname == "coif5"):
self.skipTest("Skipping coif5 test for PyWavelets %s" %pywt_ver_full)
#FIXME: big error for rbio3.1
if "i" in self.what and self.wname == "rbio3.1":
self.skipTest("Skipping rbio3.1 inversion")
# FIXME: big error for bior3.1
if "i" not in self.what and "swt" in self.what and self.wname == "bior3.1":
self.skipTest("Skipping bior3.1 SWT")
# Force an appropriate value for levels
self.levels = min(self.levels, int(np.log2(min(self.data.shape)//pywt.Wavelet(self.wname).dec_len)))
# Build the pywt Wavelet instance
if "swt" in self.what: do_swt = 1
else: do_swt = 0
if "2" in self.what: ndim = 2
else: ndim = 1
self.W = Wavelets(self.data, self.wname, self.levels, do_separable=self.separable, do_swt=do_swt, ndim=ndim)
# pywt/PyWavelets do not support odd-size SWT
if "swt" in self.what:
nope = 0
if (self.data.shape[0] & 1): nope = 1
if (self.W.ndim > 1):
if (self.data.shape[1] & 1): nope = 1
if nope:
if "i" in self.what: # Inversion test can be performed without pywt
if self.extra_args is None: self.extra_args = {}
self.extra_args["do_pywt"] = False
else: # Forward transform must be run with pywt for comparisons
self.skipTest("Skipping %s with data shape %s, as pywt does not support odd-sized SWT" % (self.what, str(self.data.shape)))
# Run the test
if self.what not in self.tests:
raise ValueError("Unknown test %s" % self.what)
isbatched = "batched" if self.W.batched1d else ""
logging.info("Testing %s %s%s with %s, %d levels" % (isbatched, self.what, self.data.shape, self.wname, self.levels))
self.tests[self.what]()
def dwt2(self):
"""
Test pypwt against pywt for DWT2 (wavedec2).
"""
W = self.W
levels = self.levels
wname = self.wname
# Forward DWT2 with pypwt
logging.info("computing Wavelets from pypwt")
t0 = time()
W.forward()
logging.info("Wavelets.forward took %.3f ms" % elapsed_ms(t0))
# Forward DWT2 with pywt
logging.info("computing wavedec2 from pywt")
Wpy = pywt.wavedec2(self.data, self.wname, mode=per_kw, level=self.levels)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Compare results
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**levels
W_coeffs = W.coeffs
if (levels != W.levels):
err_msg = str("compare_coeffs(): pypwt instance has %d levels while pywt instance has %d levels" % (W.levels, levels))
logging.error(err_msg)
raise ValueError(err_msg)
A = Wpy[0]
maxerr = _calc_errors(A, W_coeffs[0], "[app]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the approximation coefficients (%d levels) (errmax = %e)" % (wname, levels, maxerr))
for i in range(levels): # wavedec2 format
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**(i+1)
D1, D2, D3 = Wpy[levels-i][0], Wpy[levels-i][1], Wpy[levels-i][2]
logging.info("%s Level %d %s" % ("-"*5, i+1, "-"*5))
maxerr = _calc_errors(D1, W_coeffs[i+1][0], "[det.H]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients 1 at level %d (errmax = %e)" % (wname, i+1, maxerr))
maxerr = _calc_errors(D2, W_coeffs[i+1][1], "[det.V]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients 2 at level %d (errmax = %e)" % (wname, i+1, maxerr))
maxerr = _calc_errors(D3, W_coeffs[i+1][2], "[det.D]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients 3 at level %d (errmax = %e)" % (wname, i+1, maxerr))
def idwt2(self):
"""
Test pypwt for DWT reconstruction (waverec2).
"""
W = self.W
levels = self.levels
# inverse DWT with pypwt
W.forward()
logging.info("computing Wavelets.inverse from pypwt")
t0 = time()
W.inverse()
logging.info("Wavelets.inverse took %.3f ms" % elapsed_ms(t0))
if self.do_pywt:
# inverse DWT with pywt
Wpy = pywt.wavedec2(self.data, self.wname, mode=per_kw, level=levels)
logging.info("computing waverec2 from pywt")
_ = pywt.waverec2(Wpy, self.wname, mode=per_kw)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Check reconstruction
W_image = W.image
maxerr = _calc_errors(self.data, W_image, "[rec]")
self.assertTrue(maxerr < self.tol, msg="[%s] something wrong with the reconstruction (errmax = %e)" % (self.wname, maxerr))
def swt2(self):
"""
Test pypwt against pywt for SWT2.
"""
W = self.W
levels = self.levels
wname = self.wname
# Forward SWT2 with pypwt
logging.info("computing Wavelets from pypwt")
t0 = time()
W.forward()
logging.info("Wavelets.forward took %.3f ms" % elapsed_ms(t0))
# Forward SWT2 with pywt
logging.info("computing wavedec2 from pywt")
Wpy = pywt.swt2(self.data, self.wname, level=levels)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Compare results
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**levels
W_coeffs = W.coeffs
if (levels != W.levels):
err_msg = str("compare_coeffs(): pypwt instance has %d levels while pywt instance has %d levels" % (W.levels, levels))
logging.error(err_msg)
raise ValueError(err_msg)
# For now pypwt only returns the last appcoeff
A = Wpy[levels-1][0]
maxerr = _calc_errors(A, W_coeffs[0], "[app]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the approximation coefficients (%d levels) (errmax = %e)" % (wname, levels, maxerr))
for i in range(levels): # wavedec2 format. TODO: pywavelets > 0.5 will use another order
tol = self.tol * 2**(i+1)
A, D1, D2, D3 = Wpy[i][0], Wpy[i][1][0], Wpy[i][1][1], Wpy[i][1][2]
logging.info("%s Level %d %s" % ("-"*5, i+1, "-"*5))
maxerr = _calc_errors(D1, W_coeffs[i+1][0], "[det.H]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients 1 at level %d (errmax = %e)" % (wname, i+1, maxerr))
maxerr = _calc_errors(D2, W_coeffs[i+1][1], "[det.V]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients 2 at level %d (errmax = %e)" % (wname, i+1, maxerr))
maxerr = _calc_errors(D3, W_coeffs[i+1][2], "[det.D]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients 3 at level %d (errmax = %e)" % (wname, i+1, maxerr))
def iswt2(self):
"""
Test pypwt for DWT2 reconstruction (iswt2).
"""
W = self.W
# inverse DWT with pypwt
W.forward()
logging.info("computing Wavelets.inverse from pypwt")
t0 = time()
W.inverse()
logging.info("Wavelets.inverse took %.3f ms" % elapsed_ms(t0))
if self.do_pywt:
# inverse DWT with pywt
Wpy = pywt.swt2(self.data, self.wname, level=self.levels)
logging.info("computing iswt2 from pywt")
_ = pywt.iswt2(Wpy, self.wname)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Check reconstruction
W_image = W.image
maxerr = _calc_errors(self.data, W_image, "[rec]")
self.assertTrue(maxerr < self.tol, msg="[%s] something wrong with the reconstruction (errmax = %e)" % (self.wname, maxerr))
def dwt(self):
"""
Test pypwt against pywt for DWT (wavedec).
"""
W = self.W
levels = self.levels
wname = self.wname
# Forward DWT with pypwt
logging.info("computing Wavelets from pypwt")
t0 = time()
W.forward()
logging.info("Wavelets.forward took %.3f ms" % elapsed_ms(t0))
# Forward DWT2 with pywt
logging.info("computing wavedec from pywt")
Wpy = pywt.wavedec(self.data, self.wname, mode=per_kw, level=levels)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Compare results
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**levels
W_coeffs = W.coeffs
if (levels != W.levels):
err_msg = str("compare_coeffs(): pypwt instance has %d levels while pywt instance has %d levels" % (W.levels, levels))
logging.error(err_msg)
raise ValueError(err_msg)
A = Wpy[0]
maxerr = _calc_errors(A, W_coeffs[0], "[app]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the approximation coefficients (%d levels) (errmax = %e)" % (wname, levels, maxerr))
for i in range(levels): # wavedec2 format
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**(i+1)
D1 = Wpy[levels-i]
logging.info("%s Level %d %s" % ("-"*5, i+1, "-"*5))
maxerr = _calc_errors(D1, W_coeffs[i+1], "[det]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients at level %d (errmax = %e)" % (wname, i+1, maxerr))
def idwt(self):
"""
Test pypwt for DWT reconstruction (waverec).
"""
W = self.W
# inverse DWT with pypwt
W.forward()
logging.info("computing Wavelets.inverse from pypwt")
t0 = time()
W.inverse()
logging.info("Wavelets.inverse took %.3f ms" % elapsed_ms(t0))
if self.do_pywt:
# inverse DWT with pywt
Wpy = pywt.wavedec(self.data, self.wname, mode=per_kw, level=self.levels)
logging.info("computing waverec from pywt")
_ = pywt.waverec(Wpy, self.wname, mode=per_kw)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Check reconstruction
W_image = W.image
maxerr = _calc_errors(self.data, W_image, "[rec]")
self.assertTrue(maxerr < self.tol, msg="[%s] something wrong with the reconstruction (errmax = %e)" % (self.wname, maxerr))
def swt(self):
"""
Test pypwt against pywt for SWT.
"""
W = self.W
levels = self.levels
wname = self.wname
# Forward DWT with pypwt
logging.info("computing Wavelets from pypwt")
t0 = time()
W.forward()
logging.info("Wavelets.forward took %.3f ms" % elapsed_ms(t0))
# Forward DWT2 with pywt
logging.info("computing swt from pywt")
Wpy = pywt.swt(self.data, self.wname, level=levels)
logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Compare results
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**levels
W_coeffs = W.coeffs
if (levels != W.levels):
err_msg = str("compare_coeffs(): pypwt instance has %d levels while pywt instance has %d levels" % (W.levels, levels))
logging.error(err_msg)
raise ValueError(err_msg)
A = Wpy[0][0]
W_a = W_coeffs[0] if W.batched1d else W_coeffs[0].ravel()
maxerr = _calc_errors(A, W_a, "[app]") #
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the approximation coefficients (%d levels) (errmax = %e)" % (wname, levels, maxerr))
for i in range(levels): # wavedec2 format
# FIXME: Error increases when levels increase, since output is scaled.
tol = self.tol * 2**(i+1)
D1 = Wpy[levels-i-1][1] # TODO: take the new PyWavelet swt order into account
logging.info("%s Level %d %s" % ("-"*5, i+1, "-"*5))
W_D1 = W_coeffs[i+1] if W.batched1d else W_coeffs[i+1].ravel()
maxerr = _calc_errors(D1, W_D1, "[det]")
self.assertTrue(maxerr < tol, msg="[%s] something wrong with the detail coefficients at level %d (errmax = %e)" % (wname, i+1, maxerr))
def iswt(self):
"""
Test pypwt for ISWT reconstruction.
"""
W = self.W
# inverse DWT with pypwt
W.forward()
logging.info("computing Wavelets.inverse from pypwt")
t0 = time()
W.inverse()
logging.info("Wavelets.inverse took %.3f ms" % elapsed_ms(t0))
# PyWavelets <= 0.5 does not have an "axis" property for iswt
#~ if self.do_pywt:
#~ # inverse DWT with pywt
#~ Wpy = pywt.swt(self.data, self.wname, level=self.levels)
#~ logging.info("computing waverec from pywt")
#~ _ = pywt.iswt(Wpy, self.wname)
#~ logging.info("pywt took %.3f ms" % elapsed_ms(t0))
# Check reconstruction
W_image = W.image
maxerr = _calc_errors(self.data, W_image, "[rec]")
self.assertTrue(maxerr < self.tol, msg="[%s] something wrong with the reconstruction (errmax = %e)" % (self.wname, maxerr))
# End of class
# ----------------
def test_wavelet(what, data=None, levels=None, wname=None):
"""
Entry point for running a test.
It returns a unittest.TestSuite() instance.
Parameters
-----------
what: str
Name of the test
data: numpy.ndarray, optional
Input data
levels: int, optional
Number of decomposition levels
wname: str, optional
Name of the wavelet to test. If no argument is provided,
all wavelets will be tested.
Example
---------
runner = unittest.TextTestRunner()
mysuite = test_wavelet("dwt2", my_img, 8)
runner.run(mysuite)
"""
if data is None: data = scipy_img
if levels is None: levels = 999 # Max level will be automatically computed
testSuite = unittest.TestSuite()
if what == "dwt2":
par = {
"levels": levels,
"data": data,
"what": "dwt2",
"separable": 1,
"extra": {
"tol": 4e-4, # bior3.1....
}
}
if what == "idwt2":
par = {
"levels": levels,
"data": data,
"what": "idwt2",
"separable": 1,
"extra": {
"tol": 7e-4,
"do_pywt": True # False # set to True for benchmarking - can be slow !
}
}
if what == "swt2":
par = {
"levels": levels,
"data": data,
"what": "swt2",
"separable": 1,
"extra": {
"tol": 3e-4,
}
}
if what == "iswt2":
par = {
"levels": levels,
"data": data,
"what": "iswt2",
"separable": 1,
"extra": {
"tol": 4e-4,
"do_pywt": True # False # set to True for benchmarking - can be slow !
}
}
if what == "dwt":
par = {
"levels": levels,
"data": data[50, :],
"what": "dwt",
"separable": 1,
"extra": {
"tol": 1e-4,
}
}
if what == "dwt_batched":
par = {
"levels": levels,
"data": data,
"what": "dwt",
"separable": 1,
"extra": {
"tol": 1e-4,
}
}
if what == "idwt":
par = {
"levels": levels,
"data": data[50, :],
"what": "idwt",
"separable": 1,
"extra": {
"tol": 2e-4,
"do_pywt": False # set to True for benchmarking
}
}
if what == "idwt_batched":
par = {
"levels": levels,
"data": data,
"what": "idwt",
"separable": 1,
"extra": {
"tol": 5e-4, # bior* wavelets...
"do_pywt": False # set to True for benchmarking
}
}
if what == "swt":
par = {
"levels": levels,
"data": data[50, :],
"what": "swt",
"separable": 1,
"extra": {
"tol": 4e-5,
}
}
if what == "swt_batched":
par = {
"levels": levels,
"data": data,
"what": "swt",
"separable": 1,
"extra": {
"tol": 1.1e-4, # db17
}
}
if what == "iswt":
par = {
"levels": levels,
"data": data[50, :],
"what": "iswt",
"separable": 1,
"extra": {
"tol": 1e-4,
"do_pywt": False # set to True for benchmarking
}
}
if what == "iswt_batched":
par = {
"levels": levels,
"data": data,
"what": "iswt",
"separable": 1,
"extra": {
"tol": 3e-4, # bior* wavelets...
"do_pywt": False # set to True for benchmarking - can be slow !
}
}
if wname is None: wnames = available_filters
else: wnames = [wname] # TODO: iterable user-provided "wname"
for wname in wnames:
par_curr = deepcopy(par) # otherwise the same dict is used for all tests
par_curr["wname"] = wname
testcase = ParametrizedTestCase.parametrize(TestWavelet, param=par_curr)
testSuite.addTest(testcase)
return testSuite
def test_all():
suite = unittest.TestSuite()
suite.addTest(test_wavelet("dwt2"))
suite.addTest(test_wavelet("idwt2"))
suite.addTest(test_wavelet("swt2"))
suite.addTest(test_wavelet("iswt2"))
suite.addTest(test_wavelet("dwt"))
suite.addTest(test_wavelet("dwt_batched"))
suite.addTest(test_wavelet("idwt"))
suite.addTest(test_wavelet("idwt_batched"))
suite.addTest(test_wavelet("swt"))
suite.addTest(test_wavelet("swt_batched"))
suite.addTest(test_wavelet("iswt"))
suite.addTest(test_wavelet("iswt_batched"))
return suite
if __name__ == '__main__':
mysuite = test_all()
runner = unittest.TextTestRunner()
runner.run(mysuite)
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