feat: apply process_pixel conversion in segmenter and capture threshold value#916
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feat: apply process_pixel conversion in segmenter and capture threshold value#916
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…ld value - Convert linear measurements by pixel_size and area measurements by pixel_size² in _extract_metadata_from_regionprop - Fix min ESD filter to convert µm threshold to pixels using process_pixel - Record threshold value from cv2.threshold in object metadata - Set process_pixel_applied flag to prevent double-conversion downstream - Expand metadata filter to include calibration prefix Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
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Summary
_extract_metadata_from_regionprop()now acceptspixel_size_umparameter and converts measurements:pixel_sizepixel_size²equivalent_diameter_areathresholdvalue fromcv2.thresholdin object metadata via newget_last_threshold_value()accessorprocess_pixel_applied = Truein global metadata when conversion is applied, preventing double-conversion downstreamcalibrationprefixFiles changed
segmenter/planktoscope/segmenter/__init__.py— pixel conversion logic, min ESD fix, process_pixel_applied flagsegmenter/planktoscope/segmenter/operations.py— threshold value capture insimple_threshold()Companion PR
feature/process-pixel-display) — backward-compat conversion for legacy TSV data that was segmented before this change