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update prune _debug to plot the other debug img #1619

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merged 2 commits into from
Nov 4, 2024
Merged

update prune _debug to plot the other debug img #1619

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ee7cc11
update prune _debug to plot the other debug img
HaleySchuhl Oct 31, 2024
da34f2b
Merge branch 'main' into morphology_prune_debug_bugfix
HaleySchuhl Nov 4, 2024
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12 changes: 6 additions & 6 deletions plantcv/plantcv/morphology/prune.py
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Original file line number Diff line number Diff line change
Expand Up @@ -68,9 +68,6 @@ def prune(skel_img, size=0, mask=None):
pruned_img = image_subtract(pruned_img, removed_barbs)
pruned_img = _iterative_prune(pruned_img, 1)

# Reset debug mode
params.debug = debug

# Make debugging image
if mask is None:
pruned_plot = np.zeros(skel_img.shape[:2], np.uint8)
Expand All @@ -81,10 +78,13 @@ def prune(skel_img, size=0, mask=None):
cv2.drawContours(pruned_plot, removed_segments, -1, (0, 0, 255), params.line_thickness, lineType=8)
cv2.drawContours(pruned_plot, pruned_obj, -1, (150, 150, 150), params.line_thickness, lineType=8)

_debug(visual=pruned_img, filename=os.path.join(params.debug_outdir, f"{params.device}_pruned.png"))
_debug(visual=pruned_img, filename=os.path.join(params.debug_outdir, f"{params.device}_pruned_debug.png"))

# Segment the pruned skeleton
segmented_img, segment_objects = segment_skeleton(pruned_img, mask)

# Reset debug mode
params.debug = debug

_debug(visual=pruned_img, filename=os.path.join(params.debug_outdir, f"{params.device}_pruned.png"))
_debug(visual=pruned_plot, filename=os.path.join(params.debug_outdir, f"{params.device}_pruned_debug.png"))

return pruned_img, segmented_img, segment_objects