ITK Release 4/Microscopy/File Formats/Hackathon August 2011: Difference between revisions
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** [[Media:ITK-ImageInterpretationLayer.odp|ODP]] | ** [[Media:ITK-ImageInterpretationLayer.odp|ODP]] | ||
** [[Media:ITK-ImageInterpretationLayer.pdf|PDF]] | ** [[Media:ITK-ImageInterpretationLayer.pdf|PDF]] | ||
* Issues | |||
** Some file formats ( i.e. TIFF ) support multi-images in a single file | |||
** This can be used for multi-resolution or volumes, how should this be accessed? Should a Image IO present a set of images? | |||
** The current ITK Image Pyramid is designed to maintain the physical center of the images. However for many sized images this lead to changing of physical locations of scale-space extrema. | |||
** How do we indicate what type of operator was used to generate the multi-resolutions? Can we even know for certain filter formats? | |||
== TIFF Microscopy Units == | == TIFF Microscopy Units == | ||
Revision as of 12:13, 18 August 2011
Goals
TIFF Update
- Background
- Tasks
- Complete update of TIFF 4.0 library
- Verify usage for TIFF files larger than 4Gb
- Verify usage for TIFF streaming
- Verify usage for TIFF extra resolutions
JPEG2000 Review
- Background
- Tasks
- Verify usage for JPEG2000 files larger than 4Gb
- Verify usage for JPEG2000 streaming
- Verify usage for JPEG2000 extra resolutions
ITK IO API
- Propose API for managing multi-resolution files
- Image Interpretation layer
- Issues
- Some file formats ( i.e. TIFF ) support multi-images in a single file
- This can be used for multi-resolution or volumes, how should this be accessed? Should a Image IO present a set of images?
- The current ITK Image Pyramid is designed to maintain the physical center of the images. However for many sized images this lead to changing of physical locations of scale-space extrema.
- How do we indicate what type of operator was used to generate the multi-resolutions? Can we even know for certain filter formats?
TIFF Microscopy Units
- What to do about lack of units in ITK spacing ?
- mm ?
- Introduce an enum type ? a class ?
- Introduce a units conversion class ?
- To centralize the computation and prevent inconsistent units conversion.
- Think of the Mars Rover...
- To centralize the computation and prevent inconsistent units conversion.
Bioformats Patch
- Review Gaetan's patch to interface to Bioformats ?
Participants
On Site
- Brad Lowekamp
- Curtis Lisle
- Matt McCormick
- Luis Ibanez
- Andinet Enquobahrie
Remote
- Arnaud Gelas
- Kishore Mosilaganti
Venue
- NLM - Bethesda
- NIH Campus
UnAgenda
Day 1
- 9:30 Computers / Network setup
- 10:00 Live Code Review of TIFF Gerrit patch
- 12:00 Merge of TIFF Gerrit patch
- 12:30 Lunch
- 1:30 Tests of 6Gb files
- 3:30 Streaming tests on TIFF files
- 5:30 Adjourn
Day 2
- 9:30am Image interpretation layer (database ?)(Channels/Resolutions/Size)
- 10:30am Managing files with internal multi-resolution
- 11:30am Managing TIFF files with J2K compression
- 12:30pm Lunch
- 1:30pm Tests of JPEG2000 streaming
- 3:30pm Tests of JPEG2000 multi-resolution
- 4:00pm Adjourn
