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# 

# LSST Data Management System 

# 

# Copyright 2008-2016 AURA/LSST. 

# 

# This product includes software developed by the 

# LSST Project (http://www.lsst.org/). 

# 

# 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 LSST License Statement and 

# the GNU General Public License along with this program. If not, 

# see <https://www.lsstcorp.org/LegalNotices/>. 

# 

import math 

import os 

import sys 

import unittest 

 

import lsst.geom 

import lsst.afw.image as afwImage 

import lsst.afw.math as afwMath 

import lsst.afw.display.ds9 as ds9 

import lsst.log.utils as logUtils 

import lsst.meas.algorithms as algorithms 

import lsst.meas.algorithms.defects as defects 

import lsst.pex.config as pexConfig 

import lsst.utils 

import lsst.utils.tests 

 

# Increase the number for more verbose messages 

logUtils.traceSetAt("algorithms.CR", 3) 

 

try: 

type(display) 

except NameError: 

display = False 

 

try: 

afwdataDir = lsst.utils.getPackageDir('afwdata') 

imageFile0 = os.path.join(afwdataDir, "CFHT", "D4", "cal-53535-i-797722_1.fits") 

except Exception: 

imageFile0 = None 

imageFile = imageFile0 

 

 

class CosmicRayTestCase(lsst.utils.tests.TestCase): 

"""A test case for Cosmic Ray detection.""" 

 

def setUp(self): 

self.FWHM = 5 # pixels 

self.psf = algorithms.DoubleGaussianPsf(29, 29, self.FWHM/(2*math.sqrt(2*math.log(2)))) 

 

self.mi = afwImage.MaskedImageF(imageFile) 

self.XY0 = lsst.geom.PointI(0, 0) # origin of the subimage we use 

 

if imageFile == imageFile0: 

if True: # use full image, trimmed to data section 

self.XY0 = lsst.geom.PointI(32, 2) 

self.mi = self.mi.Factory(self.mi, lsst.geom.BoxI(self.XY0, lsst.geom.PointI(2079, 4609)), 

afwImage.LOCAL) 

self.mi.setXY0(lsst.geom.PointI(0, 0)) 

self.nCR = 1076 # number of CRs we should detect 

else: # use sub-image 

if True: 

self.XY0 = lsst.geom.PointI(824, 140) 

self.nCR = 10 

else: 

self.XY0 = lsst.geom.PointI(280, 2750) 

self.nCR = 2 

self.mi = self.mi.Factory(self.mi, lsst.geom.BoxI(self.XY0, lsst.geom.ExtentI(256, 256), 

afwImage.LOCAL)) 

self.mi.setXY0(lsst.geom.PointI(0, 0)) 

else: 

self.nCR = None 

 

self.mi.getMask().addMaskPlane("DETECTED") 

 

def tearDown(self): 

del self.mi 

del self.psf 

 

@unittest.skipUnless(imageFile0, "afwdata not available") 

def testDetection(self): 

"""Test CR detection.""" 

# 

# Subtract background 

# 

bctrl = afwMath.BackgroundControl(afwMath.Interpolate.NATURAL_SPLINE) 

bctrl.setNxSample(int(self.mi.getWidth()/256) + 1) 

bctrl.setNySample(int(self.mi.getHeight()/256) + 1) 

bctrl.getStatisticsControl().setNumSigmaClip(3.0) 

bctrl.getStatisticsControl().setNumIter(2) 

 

im = self.mi.getImage() 

try: 

backobj = afwMath.makeBackground(im, bctrl) 

except Exception as e: 

print >> sys.stderr, e, 

 

bctrl.setInterpStyle(afwMath.Interpolate.CONSTANT) 

backobj = afwMath.makeBackground(im, bctrl) 

 

im -= backobj.getImageF() 

 

if display: 

frame = 0 

ds9.mtv(self.mi, frame=frame, title="Raw") # raw frame 

if self.mi.getWidth() > 256: 

ds9.pan(944 - self.mi.getX0(), 260 - self.mi.getY0()) 

# 

# Mask known bad pixels 

# 

measAlgorithmsDir = lsst.utils.getPackageDir('meas_algorithms') 

badPixels = defects.policyToBadRegionList(os.path.join(measAlgorithmsDir, 

"policy", "BadPixels.paf")) 

# did someone lie about the origin of the maskedImage? If so, adjust bad pixel list 

if self.XY0.getX() != self.mi.getX0() or self.XY0.getY() != self.mi.getY0(): 

dx = self.XY0.getX() - self.mi.getX0() 

dy = self.XY0.getY() - self.mi.getY0() 

for bp in badPixels: 

bp.shift(-dx, -dy) 

 

algorithms.interpolateOverDefects(self.mi, self.psf, badPixels) 

 

stats = afwMath.makeStatistics(self.mi.getImage(), afwMath.MEANCLIP | afwMath.STDEVCLIP) 

background = stats.getValue(afwMath.MEANCLIP) 

 

crConfig = algorithms.FindCosmicRaysConfig() 

crs = algorithms.findCosmicRays(self.mi, self.psf, background, pexConfig.makePolicy(crConfig)) 

 

if display: 

ds9.mtv(self.mi, frame=frame + 1, title="CRs removed") 

if self.mi.getWidth() > 256: 

ds9.pan(944 - self.mi.getX0(), 260 - self.mi.getY0()) 

 

print("Detected %d CRs" % len(crs)) 

if display and False: 

for cr in crs: 

bbox = cr.getBBox() 

bbox.shift(lsst.geom.ExtentI(-self.mi.getX0(), -self.mi.getY0())) 

ds9.line([(bbox.getMinX() - 0.5, bbox.getMinY() - 0.5), 

(bbox.getMaxX() + 0.5, bbox.getMinY() - 0.5), 

(bbox.getMaxX() + 0.5, bbox.getMaxY() + 0.5), 

(bbox.getMinX() - 0.5, bbox.getMaxY() + 0.5), 

(bbox.getMinX() - 0.5, bbox.getMinY() - 0.5)], frame=frame + 1) 

 

if self.nCR is not None: 

self.assertEqual(len(crs), self.nCR) 

 

 

class CosmicRayNullTestCase(unittest.TestCase): 

"""A test case for no Cosmic Ray detection.""" 

 

def setUp(self): 

self.FWHM = 5 # pixels 

self.size = 128 

 

self.psf = algorithms.DoubleGaussianPsf(29, 29, self.FWHM/(2*math.sqrt(2*math.log(2)))) 

self.mi = afwImage.MaskedImageF(128, 128) 

self.mi.set((0, 0, 1)) 

 

def tearDown(self): 

del self.psf 

del self.mi 

 

def testDetection(self): 

crConfig = algorithms.FindCosmicRaysConfig() 

crs = algorithms.findCosmicRays(self.mi, self.psf, 0.0, pexConfig.makePolicy(crConfig)) 

self.assertEqual(len(crs), 0, "Found %d CRs in empty image" % len(crs)) 

 

 

class TestMemory(lsst.utils.tests.MemoryTestCase): 

pass 

 

 

def setup_module(module): 

lsst.utils.tests.init() 

 

 

189 ↛ 190line 189 didn't jump to line 190, because the condition on line 189 was never trueif __name__ == "__main__": 

lsst.utils.tests.init() 

unittest.main()