ome/bioformats

CZI Incorrect Pixel Physical Size (For pyramidal image series)

Opened this issue · 0 comments

ian-coccimiglio commented

This issue was first raised on the image.sc forums: https://forum.image.sc/t/incorrect-pixel-scaling-on-czi-image-series/87149

Description

Two slices of the same image will report different physical sizes.

image

Steps to reproduce:

  1. Open Fiji
  2. Use the baseline Bio-formats Importer (v7.3.0 or otherwise), and open a CZI pyramidal image.
  3. Pick any two slices.
  4. The physical image dimensions will be different between slices (as the pixel/micron size remains fixed)

@NicoKiaru has a potential fix in in #4092. For anyone performing measurement/analysis of the smaller image, this requires both knowledge of the issue as well as a posthoc correction.

Ian.