Task #5000 (closed)
Correct for alternate image orientations (Leica LIF)
| Reported by: | mlinkert | Owned by: | mlinkert |
|---|---|---|---|
| Priority: | major | Milestone: | OMERO-Beta4.3.1 |
| Component: | Bio-Formats | Version: | n.a. |
| Keywords: | n.a. | Cc: | olivier.burri@… |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | 0.0d |
| Sprint: | 2011-07-07 (1) |
Description
See file in data/leica-lif/olivier/. The images are flipped horizontally with respect to how they were acquired. The 'eDirectional' metadata keys appear to indicate the acquisition orientation, so it should just be a matter of parsing those keys and flipping the image accordingly.
Change History (9)
comment:1 Changed 13 years ago by mlinkert
- Cc olivier.burri@… added
comment:2 Changed 13 years ago by mlinkert
- Milestone changed from Unscheduled to OMERO-Beta4.3.1
comment:3 Changed 13 years ago by mlinkert
- Sprint set to 2011-07-07 (1)
comment:4 Changed 13 years ago by Melissa Linkert <melissa@…>
- Remaining Time changed from 0.5 to 0
- Resolution set to fixed
- Status changed from new to closed
comment:5 Changed 13 years ago by Melissa Linkert <melissa@…>
(In [0e6aac52ba8749769c0beacb8e7e2f1f840c892e/bioformats.git]) Parse and respect orientation metadata.
Closes #5000.
comment:6 Changed 13 years ago by Melissa Linkert <melissa@…>
(In [26e9fe3036e52646e9e452bd835be3c770279d27/bioformats.git]) Add new metadata keys that record the image orientation.
The keys are "Reverse X orientation" and "Reverse Y orientation".
These keys should be used if the orientation must be corrected, as we are
*not* doing this automatically in Bio-Formats. Upon closer
investigation, I think it is better to record the metadata and preserve
the images as they are stored and displayed in LAS AF, rather than
automatically correcting the images.
See #5000.
comment:7 Changed 13 years ago by Melissa Linkert <melissa@…>
(In [26e9fe3036e52646e9e452bd835be3c770279d27/bioformats.git]) Add new metadata keys that record the image orientation.
The keys are "Reverse X orientation" and "Reverse Y orientation".
These keys should be used if the orientation must be corrected, as we are
*not* doing this automatically in Bio-Formats. Upon closer
investigation, I think it is better to record the metadata and preserve
the images as they are stored and displayed in LAS AF, rather than
automatically correcting the images.
See #5000.
comment:8 Changed 13 years ago by Melissa Linkert <melissa@…>
(In [7c80866ef26faeaacab0e97d9d0f499c0d70aea3/bioformats.git]) Add new metadata keys that record the image orientation.
The keys are "Reverse X orientation" and "Reverse Y orientation".
These keys should be used if the orientation must be corrected, as we are
*not* doing this automatically in Bio-Formats. Upon closer
investigation, I think it is better to record the metadata and preserve
the images as they are stored and displayed in LAS AF, rather than
automatically correcting the images.
See #5000.
(cherry picked from commit 26e9fe3036e52646e9e452bd835be3c770279d27)
comment:9 Changed 13 years ago by Melissa Linkert <melissa@…>
(In [7c80866ef26faeaacab0e97d9d0f499c0d70aea3/bioformats.git]) Add new metadata keys that record the image orientation.
The keys are "Reverse X orientation" and "Reverse Y orientation".
These keys should be used if the orientation must be corrected, as we are
*not* doing this automatically in Bio-Formats. Upon closer
investigation, I think it is better to record the metadata and preserve
the images as they are stored and displayed in LAS AF, rather than
automatically correcting the images.
See #5000.
(cherry picked from commit 26e9fe3036e52646e9e452bd835be3c770279d27)
(In [0e6aac52ba8749769c0beacb8e7e2f1f840c892e/bioformats.git]) Parse and respect orientation metadata.
Closes #5000.