Project-MONAI / Project-MONAI/MONAILabel
Dicom seg shows all labels as color red
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- Dominant language
- Python
- Stars
- 891
- Forks
- 269
- Avg merge
- 15h 41m
- Merged PRs (30d)
- 1
Description
Describe the bug
When creating a dicom seg object all segments show up as red unless labels are in the
https://github.com/Project-MONAI/MONAILabel/blob/main/monailabel/datastore/utils/colors.py
Expected behavior
Each segment should have different color
Proposed fix
https://github.com/Project-MONAI/MONAILabel/blob/main/monailabel/datastore/utils/convert.py#L98
change to
out side the loop do
GENERIC_ANATOMY_COLORS_list = list(GENERIC_ANATOMY_COLORS.values())
if name in GENERIC_ANATOMY_COLORS:
rgb = list(info.get("color", GENERIC_ANATOMY_COLORS.get(name, (255, 0, 0))))[0:3]
else:
rgb = GENERIC_ANATOMY_COLORS_list[(i%len(GENERIC_ANATOMY_COLORS_list))+1] # picks index from list skipping the background
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
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- Open a pull request that references the issue number.
Research direction
Start in monailabel/datastore/utils/convert.py around line 98 and inspect the color definitions in monailabel/datastore/utils/colors.py. Reproduce DICOM SEG conversion with labels outside the predefined anatomy colors and verify that each segment receives a different color instead of red.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Bug
- Difficulty
- 2/5
- Estimated time
- 1-3 hours
- Activity status
- Stale
- Clarity
- Clearly specified
- Newbie friendliness
- 48/100