def normalize_image(self, plate_id=None):
img_in = self.meta_image.image
if self.bFlatfieldCorrection:
self.logger.debug("* using flat field correction with image from %s"
% self.strBackgroundImagePath)
imgBackground = self._load_flatfield_correction_image(plate_id)
crop_coordinated = MetaImage.get_crop_coordinates()
if crop_coordinated is not None:
self.logger.debug("* applying cropping to background image")
imgBackground = ccore.subImage(imgBackground,
ccore.Diff2D(crop_coordinated[0],
crop_coordinated[1]),
ccore.Diff2D(crop_coordinated[2],
crop_coordinated[3]))
img_in = ccore.flatfieldCorrection(img_in, imgBackground, 0.0, True)
img_out = ccore.linearTransform2(img_in, self.fNormalizeMin,
self.fNormalizeMax, 0, 255, 0, 255)
else:
self.logger.debug("* not using flat field correction")
if type(img_in) == ccore.UInt16Image:
img_out = ccore.linearTransform3(img_in, int(self.fNormalizeMin),
int(self.fNormalizeMax),
0, 255, 0, 255)
elif type(img_in) == ccore.Image:
img_out = ccore.linearTransform2(img_in, int(self.fNormalizeMin),
int(self.fNormalizeMax),
0, 255, 0, 255)
else:
img_out = img_in
self.meta_image.set_image(img_out)
def normalize_image(self, plate_id=None):
try:
import pydevd
pydevd.connected = True
pydevd.settrace(suspend=False)
print 'Thread enabled interactive eclipse debuging...'
except:
pass
img_in = self.meta_image.image
if self.bFlatfieldCorrection:
self.logger.debug(
"* using flat field correction with image from %s" %
self.strBackgroundImagePath)
imgBackground = self._load_flatfield_correction_image(plate_id)
crop_coordinated = MetaImage.get_crop_coordinates()
if crop_coordinated is not None:
self.logger.debug("* applying cropping to background image")
imgBackground = ccore.subImage(
imgBackground,
ccore.Diff2D(crop_coordinated[0], crop_coordinated[1]),
ccore.Diff2D(crop_coordinated[2], crop_coordinated[3]))
img_in = ccore.flatfieldCorrection(img_in, imgBackground, 0.0,
True)
img_out = ccore.linearTransform2(img_in, self.fNormalizeMin,
self.fNormalizeMax, 0, 255, 0,
255)
else:
self.logger.debug("* not using flat field correction")
if type(img_in) == ccore.UInt16Image:
img_out = ccore.linearTransform3(img_in,
int(self.fNormalizeMin),
int(self.fNormalizeMax), 0,
255, 0, 255)
elif type(img_in) == ccore.Image:
img_out = ccore.linearTransform2(img_in,
int(self.fNormalizeMin),
int(self.fNormalizeMax), 0,
255, 0, 255)
else:
img_out = img_in
self.meta_image.set_image(img_out)
def normalize_image(self, plate_id=None):
try:
import pydevd
pydevd.connected = True
pydevd.settrace(suspend=False)
print 'Thread enabled interactive eclipse debuging...'
except:
pass
img_in = self.meta_image.image
if self.bFlatfieldCorrection:
self.logger.debug("* using flat field correction with image from %s"
% self.strBackgroundImagePath)
imgBackground = self._load_flatfield_correction_image(plate_id)
crop_coordinated = MetaImage.get_crop_coordinates()
if crop_coordinated is not None:
self.logger.debug("* applying cropping to background image")
imgBackground = ccore.subImage(imgBackground,
ccore.Diff2D(crop_coordinated[0],
crop_coordinated[1]),
ccore.Diff2D(crop_coordinated[2],
crop_coordinated[3]))
img_in = ccore.flatfieldCorrection(img_in, imgBackground, 0.0, True)
img_out = ccore.linearTransform2(img_in, self.fNormalizeMin,
self.fNormalizeMax, 0, 255, 0, 255)
else:
self.logger.debug("* not using flat field correction")
if type(img_in) == ccore.UInt16Image:
img_out = ccore.linearTransform3(img_in, int(self.fNormalizeMin),
int(self.fNormalizeMax),
0, 255, 0, 255)
elif type(img_in) == ccore.Image:
img_out = ccore.linearTransform2(img_in, int(self.fNormalizeMin),
int(self.fNormalizeMax),
0, 255, 0, 255)
else:
img_out = img_in
self.meta_image.set_image(img_out)
def normalize_image(self, plate_id=None):
img_in = self.meta_image.image
if self.bFlatfieldCorrection:
self.logger.debug(
"* using flat field correction with image from %s" %
self.strBackgroundImagePath)
imgBackground = self._load_flatfield_correction_image(plate_id)
crop_coordinated = MetaImage.get_crop_coordinates()
if crop_coordinated is not None:
self.logger.debug("* applying cropping to background image")
imgBackground = ccore.subImage(
imgBackground,
ccore.Diff2D(crop_coordinated[0], crop_coordinated[1]),
ccore.Diff2D(crop_coordinated[2], crop_coordinated[3]))
img_in = ccore.flatfieldCorrection(img_in, imgBackground, 0.0,
True)
img_out = ccore.linearTransform2(img_in, self.fNormalizeMin,
self.fNormalizeMax, 0, 255, 0,
255)
else:
self.logger.debug("* not using flat field correction")
if type(img_in) == ccore.UInt16Image:
img_out = ccore.linearTransform3(img_in,
int(self.fNormalizeMin),
int(self.fNormalizeMax), 0,
255, 0, 255)
elif type(img_in) == ccore.Image:
img_out = ccore.linearTransform2(img_in,
int(self.fNormalizeMin),
int(self.fNormalizeMax), 0,
255, 0, 255)
else:
img_out = img_in
self.meta_image.set_image(img_out)
