Task #7134 (closed)
Opened 13 years ago
Closed 12 years ago
Bug: pyramid tile endianness is set incorrectly
| Reported by: | jburel | Owned by: | mlinkert |
|---|---|---|---|
| Priority: | critical | Milestone: | OMERO-4.4 |
| Component: | General | Version: | n.a. |
| Keywords: | n.a. | Cc: | cxallan, mlinkert, a.ostrowski@… |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | 0.0d |
| Sprint: | 2012-01-17 (6) |
Description
Import gatan file (.dm3)
Import fine, thumbnail created, when viewing the image. Display in web and insight garbage.
Change History (7)
comment:1 Changed 13 years ago by jburel
- Summary changed from Bug: gata file to Bug: gatan file
comment:2 Changed 13 years ago by mlinkert
comment:3 Changed 12 years ago by jburel
Chris, could you investigate that one?
comment:4 Changed 12 years ago by jburel
- Owner set to mlinkert-x
- Sprint set to 2012-01-17 (6)
comment:5 Changed 12 years ago by mlinkert
- Cc a.ostrowski@… added
- Summary changed from Bug: gatan file to Bug: pyramid tile endianness is set incorrectly
Proposed fix: http://github.com/openmicroscopy/openmicroscopy/pull/59
See also #7743.
comment:6 Changed 12 years ago by mlinkert
- Status changed from new to accepted
comment:7 Changed 12 years ago by Melissa Linkert <melissa@…>
- Remaining Time set to 0
- Resolution set to fixed
- Status changed from accepted to closed
(In [56b25bafd028e4db6b62726ce0d2fbe97fe11f9b/ome.git]) Do not assume that pyramid tiles are little-endian
Fixes #7134.
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After a cursory investigation, it looks a bit like the incorrect endianness is being used when reading pixel data out of the pyramid files. I was able to duplicate the problem by importing biosamplefullframe.dm3; however, opening that file and the generated pyramid file in Fiji yields completely correct images.
I'll investigate more later, but at the moment this doesn't appear to be a bug in Bio-Formats (or if it is, it's a really subtle one).