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I have an RGB tif image of size of 107375 x 85902 x 1. There are other images as well in around 100K X 100K. For these images, I am getting this following exception:
File "/lib/python3.8/site-packages/bioformats/formatreader.py", line 846, in read
planes = [
File "/lib/python3.8/site-packages/bioformats/formatreader.py", line 848, in <listcomp>
(rdr.openBytes(rdr.getIndex(z,i,t)) if XYWH is None else
File "/lib/python3.8/site-packages/javabridge/jutil.py", line 961, in method
result = call(self.o, name, sig, *args)
File "/lib/python3.8/site-packages/javabridge/jutil.py", line 892, in call
result = fn(*nice_args)
File "/lib/python3.8/site-packages/javabridge/jutil.py", line 859, in fn
raise JavaException(x)
javabridge.jutil.JavaException: Array size too large: 107375 x 85902 x 1Is there any limit on the size of the file that the library can load? Looks like its trying to load the image into an int byte array which can only support the images up to (w*h <= Integer.MAX_SIZE). I understand there's a way to get small boxes that can fit into memory and then join them for the export. I wanted to check if there's such support from the library itself.
with bioformats.ImageReader(image) as reader:
out[:, :, 0] = reader.read(c=0, z=0, t=0, rescale=False)Metadata
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