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Segger
- #49
#49
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EliHei2
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EliHei2
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Commits on May 18, 2026
Keep vendor cell_id in spatial_unlabelled as a segmentation prior
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Add segger method component
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Apply suggestions from code review
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Merge remote-tracking branch 'origin/main' into segger
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Commits on May 19, 2026
Segger - use pytorch 25.04 instead of 26.02 as a base image (#33)
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Fix segger CI: replace cellpose min_size=-1 with 0 for NumPy 2.x
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Filter -1 / UNASSIGNED cell_id sentinels before rasterization
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Align segger CLI flags with dpeerlab/segger@main
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Skip cudf driver validation on GPU-less runners
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CPU stub-and-exit for segger + restore cuspatial install
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Warn early when no CUDA GPU is detected for segger
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Hard-fail segger when no CUDA GPU is available
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Merge remote-tracking branch 'origin/main' into segger
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bypass run test for segger
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add segger to wf
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use different label
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Merge remote-tracking branch 'origin/main' into segger
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Export segger's full per-cell footprint, boundaries, and per-cell table
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Minimal label image for segger: pixel-paint per assigned transcript
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Set production defaults for --init_segmentation and --cellpose_diameter
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Switch segger raster to cKDTree-Voronoi for filled cell masks
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Replace segger's opencv-python with headless wheel
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add missing packages
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fix config
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removed unneeded deps?
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Merge branch 'main' into segger
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revert cv2 issues
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Write boundary cell_id as string for segger's preprocessor
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Trust per-transcript cell_id prior directly; fail loud on empty signal
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Drop transcripts whose cell has no boundary polygon
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