Task #12622 (closed)
Opened 10 years ago
Closed 10 years ago
SlideBook export w/o XML option
| Reported by: | omero-qa | Owned by: | mlinkert |
|---|---|---|---|
| Priority: | minor | Milestone: | 5.1.0 |
| Component: | Bio-Formats | Version: | 5.0.5 |
| Keywords: | n.a. | Cc: | glenmac@…, jburel, jamoore |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | n.a. |
| Sprint: | n.a. |
Description
https://www.openmicroscopy.org/qa2/qa2/qa/feedback/10322/
Comment: these stacks are from a 3 channel z-series exported from Slidebook 6 as 16-bit, without the OME-XML option selected. Bio-formats 5.0.5-DEV rev f660e3c imports a merged stack with 2 timepoints and duplicating the slices.
this does not happen when the user exports from Slidebook with the OME-XML option checked.
Change History (2)
comment:1 Changed 10 years ago by jburel
- Component changed from from QA to Bio-Formats
- Milestone changed from Unscheduled to 5.1.0
comment:2 Changed 10 years ago by mlinkert
- Resolution set to worksforme
- Status changed from new to closed
I haven't been able to reproduce this at all with f660e3c or current develop - choosing any one of the files results in a 3-channel stack with no duplicate images. SizeT is set to 32 and SizeZ is set to 1; there isn't much we can do about that though, as there is no metadata in the files to distinguish Z from T.
The only two things I can think of are that 1) a second older version of Bio-Formats is installed, or 2) there were additional files in the folder that were not uploaded to QA and which interfere with the dimension detection.
Moving to 5.1 for initial investigation, feel free to move.