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Updates stitcher to trim all edges evenly rather than right/bottom only. #24

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Merged
k-rl merged 2 commits into from
Jun 2, 2025
+7 −2
Merged

Updates stitcher to trim all edges evenly rather than right/bottom only. #24

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f29fe3d
Updates stitcher to trim all edges evenly rather than right/bottom only.
palmhjell Jun 2, 2025
97b583e
Fixes stitcher update syntax and formatting
palmhjell Jun 2, 2025
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9 changes: 7 additions & 2 deletions src/magnify/stitch.py
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Original file line number Diff line number Diff line change
Expand Up @@ -8,10 +8,15 @@ def __init__(self, overlap: int = 102):
self.overlap = overlap

def __call__(self, assay: xr.Dataset) -> xr.Dataset:
# Take half of overlap from each edge
clip = self.overlap // 2
# Account for odd overlaps
remainder = self.overlap % 2
# Adjust tiles
tiles = assay.tile[
...,
: assay.tile.shape[-2] - self.overlap,
: assay.tile.shape[-1] - self.overlap,
clip : assay.tile.shape[-2] - clip + remainder,
clip : assay.tile.shape[-1] - clip + remainder,
]

# Move the time and channel axes last so we can focus on joining images.
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