Comments (4)
Maybe a follow up item here is adding this to the docs
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The dimension order of the origin is crucial for 3D images, such as CT/MRI images.
There has been some discussion on origin, spacing, and direction at ITK's board: https://discourse.itk.org/t/images-in-physical-space-in-python/2124/15.
I don't recall the conclusion of the discussion, but it appears that establishing a standard for image metadata across Python image libraries is important.
cuCIM operates with a plugin system, where the primary plugin is the cuSlide plugin.
The cuMed plugin is intended to handle CT/MRI volumetric data, but its implementation is not yet planned; currently, we have only a stub plugin implementation for this.
Currently, for Whole Slide Images, the origin metadata is not extensively utilized and is always set to [(0.0, 0.0, 0.0)]
(
from cucim.
Thanks Gigon! 🙏
When does this origin
get set in CuImage
construction? Is this part of the parse
call here?
Line 186 in 46da10e
Or does it happen somewhere else?
from cucim.
Thanks Gigon! 🙏
When does this
origin
get set inCuImage
construction? Is this part of theparse
call here?Line 186 in 46da10e
Or does it happen somewhere else?
@jakirkham
Correct, the method call would call static bool CUCIM_ABI parser_parse(CuCIMFileHandle_ptr handle_ptr, cucim::io::format::ImageMetadataDesc* out_metadata_desc)
method here (
from cucim.
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