def open(self, filename): import pyfits # save startup time f = pyfits.open(filename) img = f[0].data labels = None # f[0].name prefs = self.preferences # OPEN # due to different conventions: img = transpose(img) # crop if prefs.pCrop.value(): r = (prefs.pCropX0.value(), prefs.pCropX1.value(), prefs.pCropY0.value(), prefs.pCropY1.value()) img = img[r[0]:r[1], r[2]:r[3]] # resize if prefs.pResize.value(): img = cv2.resize( img, (prefs.pResizeX.value(), prefs.pResizeY.value())) img = self.toFloat(img) return img, labels
def open(self, filename): import pyfits #save startup time f = pyfits.open(filename) img = f[0].data labels = None#f[0].name prefs = self.preferences #OPEN #due to different conventions: img = transpose(img) #crop if prefs.pCrop.value(): r = (prefs.pCropX0.value(), prefs.pCropX1.value(), prefs.pCropY0.value(), prefs.pCropY1.value()) img = img[r[0]:r[1],r[2]:r[3]] #resize if prefs.pResize.value(): img = cv2.resize(img, (prefs.pResizeX.value(), prefs.pResizeY.value())) img = self.toFloat(img) return img, labels
def open(self, filename): p = self.preferences #open in 8 bit? if p.p8bit.value(): col = 0 else: col = cv2.IMREAD_ANYDEPTH if p.pGrey.value() and not p.pSplitColors.value(): col = col | cv2.IMREAD_GRAYSCALE else: col |= cv2.IMREAD_ANYCOLOR #OPEN img = cv2.imread(str(filename), col) #cv2.IMREAD_UNCHANGED) if img is None: raise Exception("image '%s' doesn't exist" %filename) #due to different conventions: img = transpose(img) #crop if p.pCrop.value(): r = (p.pCropX0.value(), p.pCropX1.value(), p.pCropY0.value(), p.pCropY1.value()) img = img[r[0]:r[1],r[2]:r[3]] #resize if p.pResize.value(): img = cv2.resize(img, (p.pResizeX.value(), p.pResizeY.value())) labels = None if img.ndim == 3: if p.pSplitColors.value(): img = np.transpose(img, axes=(2,0,1)) labels = ['blue', 'green','red'] else: #rgb convention img = cv2.cvtColor(img, cv2.cv.CV_BGR2RGB) #change data type to float img = self.toFloat(img, p.pToFloat.value(), p.pForceFloat64.value()) return img, labels
def open(self, filename): p = self.preferences #open in 8 bit? if p.p8bit.value(): col = 0 else: col = cv2.IMREAD_ANYDEPTH if p.pGrey.value() and not p.pSplitColors.value(): col = col | cv2.IMREAD_GRAYSCALE else: col |= cv2.IMREAD_ANYCOLOR #OPEN img = cv2.imread(str(filename), col) #cv2.IMREAD_UNCHANGED) if img is None: raise Exception("image '%s' doesn't exist" %filename) #due to different conventions: img = transpose(img) #crop if p.pCrop.value(): r = (p.pCropX0.value(), p.pCropX1.value(), p.pCropY0.value(), p.pCropY1.value()) img = img[r[0]:r[1],r[2]:r[3]] #resize if p.pResize.value(): img = cv2.resize(img, (p.pResizeX.value(), p.pResizeY.value())) labels = None if img.ndim == 3: if p.pSplitColors.value(): img = np.transpose(img, axes=(2,0,1)) labels = ['blue', 'green','red'] else: #rgb convention img = cv2.cvtColor(img, cv2.cv.CV_BGR2RGB) #change data type to float img = self.toFloat(img) return img, labels
def open(self, filename): prefs = self.preferences # OPEN tif = TiffFile(str(filename)) img = tif.asarray() # due to different conventions: img = transpose(img) # crop if prefs.pCrop.value(): r = (prefs.pCropX0.value(), prefs.pCropX1.value(), prefs.pCropY0.value(), prefs.pCropY1.value()) img = img[r[0]:r[1], r[2]:r[3]] # resize if prefs.pResize.value(): img = cv2.resize( img, (prefs.pResizeX.value(), prefs.pResizeY.value())) img = self.toFloat(img) try: # try to extract labels names set by imageJ: labels = tif.pages[0].imagej_tags['labels'] # remove surplus information: for n, l in enumerate(labels): try: i = l.index('\n') if i != -1: labels[n] = l[:i] except ValueError: # no \n in label pass except AttributeError: if img.ndim == 3: # color image labels = [str(r) for r in range(len(img))] else: labels = None tif.close() return img, labels
def open(self, filename): prefs = self.preferences #OPEN tif = tff.TIFFfile(str(filename)) img = tif.asarray() #due to different conventions: img = transpose(img) #crop if prefs.pCrop.value(): r = (prefs.pCropX0.value(), prefs.pCropX1.value(), prefs.pCropY0.value(), prefs.pCropY1.value()) img = img[r[0]:r[1], r[2]:r[3]] #resize if prefs.pResize.value(): img = cv2.resize(img, (prefs.pResizeX.value(), prefs.pResizeY.value())) img = self.toFloat(img) try: #try to extract labels names set by imageJ: labels = tif.pages[0].imagej_tags['labels'] #remove surplus information: for n, l in enumerate(labels): try: i = l.index('\n') if i != -1: labels[n] = l[:i] except ValueError: #no \n in label pass except AttributeError: if img.ndim == 3: #color image labels = [str(r) for r in range(len(img))] else: labels = None tif.close() return img, labels
def _transpose(self): w = self.display.widget i = w.image w.setImage(transpose(i))
def out(img): if ip.ARRAYS_ORDER_IS_XY: return transpose(img) return img