[ome-users] Bugreport - BioFormats CZIReader gets Dimension Order of CZI wrong

[Sebastian Rhode]

Hi,

here you can find 2 CZI sample data sets:

https://dl.dropboxusercontent.com/u/623476/XYCZT_CH%3D2_Z%3D5_All_CH_per_Slice.czi

https://dl.dropboxusercontent.com/u/623476/XYZCT_Z%3D5_CH%3D2_Z%3D5_FullStack_per_CH.czi

The 1st CZI file was acquired with the option "All Channels per Slice" -->
XYCZT

The 2nd  CZI file was acquired with the option "Full Stack per Channel" -->
XYZCT

*When I open both files via BioFormats the original Metadata show:*

*"All Channel per Slice" --> DimensenOrder = XYCZT -- > OK*
*"Full Stack per Channel" --> DimensionOrder = XYCZT --> NOK*

The DimensionOrder seems to be always XYCZT, no matter what it actaully was.

Inside the CZI File the "officail" dimension order is:

"All Channel per Slice" --> *BTCZYX0* --> corresponds to XYZCT
"Full Stack per Channel" --> *BTCZYX0* --> corresponds to XYZCT

Would be nice to get this fixed soon ...

Cheers

Sebi
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