Bug: CZI openBytes fetches incorrect pixel data

[omero-qa]

​https://www.openmicroscopy.org/qa2/qa2/qa/feedback/7748/

For big planes (~10000x10000 in this case), it looks like we are miscalculating the offsets in the CZI reader; this results in odd banding and wrapping of the image. I have attached an image of the misrendered plane to illustrate.

I have put in /ome/team/rleigh/czi:

• IP-Stitching-04.czi (original file; opens fine with Zen Blue 2012)
• IP-Stitching-04-zenblue.ome.tiff (zen blue exported ome-tiff; uses 2010-06 schema and the metadata is incorrect, but it opens and displays correctly)
• IP-Stitching-04-bfconv.ome.tiff (original file converted to ome-tiff with bfconvert; valid pixels is 16 bit, but should really be 12; could the CZI reader be updated to set the valid pixels correctly?--it's correct for the CZI image)

[mlinkert]

Branch for further testing post-beta2: ​https://github.com/melissalinkert/bioformats/tree/czi-tiles

[rleigh]

See also: QA #7771 and the files in /ome/team/rleigh/7771 which are the original QA upload plus additional information (export of the image from zen so you can see how it should look, plus some metadata from zen about the image size and pixel type and tile setup in zen.txt).

[mlinkert]

Fixed with ​https://github.com/openmicroscopy/bioformats/pull/1078; email forthcoming on ome-users/ome-devel with details of how to try this out prior to 5.0.2.

[rleigh]

The images now all look fine, thanks. For #7771 it would be nice if we could handle the image as a single series but that will need tiling support in bioformats.