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Fixing exception in some OME multiplex files that still return isRGB=True #166

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Fixing exception in some OME multiplex files that still return isRGB=True #166

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13 changes: 5 additions & 8 deletions bioformats/formatreader.py
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Original file line number Diff line number Diff line change
Expand Up @@ -821,15 +821,12 @@ def read(self, c = None, z = 0, t = 0, series = None, index = None,
logger.warning("WARNING: failed to get MaxSampleValue for image. Intensities may be improperly scaled.")
if index is not None:
image = np.frombuffer(openBytes_func(index), dtype)
if len(image) / height / width in (3,4):
n_channels = int(len(image) / height / width)
if self.rdr.isInterleaved():
image.shape = (height, width, n_channels)
else:
image.shape = (n_channels, height, width)
image = image.transpose(1, 2, 0)
n_channels = int(len(image) / height / width)
if self.rdr.isInterleaved():
image.shape = (height, width, n_channels)
else:
image.shape = (height, width)
image.shape = (n_channels, height, width)
image = image.transpose(1, 2, 0)
elif self.rdr.isRGB() and self.rdr.isInterleaved():
index = self.rdr.getIndex(z,0,t)
image = np.frombuffer(openBytes_func(index), dtype)
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