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ome / bioformats

Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.
https://www.openmicroscopy.org/bio-formats
GNU General Public License v2.0
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CZI: Auto-stitch scaling #4150

Closed dgault closed 4 months ago

dgault commented 4 months ago

Another auto-stitching issue has been reported on forum thread https://forum.image.sc/t/pb-when-i-open-czi-stitching-image/87585/2

A sample image was provided and is available at inbox/imagesc-87585 and the issue can be reproduced using Bio-Formats 7.0.1 with the CZI auto-stitching option enabled.

In this particular case the user was able to save a stitched image with Zen 3.4 and that opens as expected, but when saved with Zen 3.8 the image appears "distorted" with the stitching option enabled. In QuPath zooming in to the highest resolution level produced a normal looking image, similarly cropping regions of the highest resolution also seemed to return correct looking pixel data. When the stitching option is disabled the individual tiles appear to be correct and display as expected.

Originally posted by @dgault in https://github.com/ome/bioformats/issues/4102#issuecomment-1772752535

Additional sample files have been provided that are now included in inbox/imagesc-87585

dgault commented 4 months ago

Closing as resolved by https://github.com/ome/bioformats/pull/4138