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thouis/script.py

Forked from bennihepp/script.py
Created January 19, 2012 15:28
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Example script for CellProfiler RunScript module
Raw
script.py
import cpscript
from scipy import ndimage
labels = cpscript.Cells.segmented
background_labels = np.array(labels == 0, dtype=int)
dt_labels = ndimage.distance_transform_edt(background_labels)
imVSVG_pixels = cpscript.imVSVG.pixel_data
imVSVG_dt_pixels = imVSVG_pixels * dt_labels
imVSVG_dr_pixels = imVSVG_pixels / dt_labels
imVSVG_dr_pixels[dt_labels == 0] = imVSVG_pixels[dt_labels == 0]
cpscript.imVSVG_dr_pixels.pixel_data = imVSVG_dr_pixels
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