%load_ext autoreload
%autoreload 2
%matplotlib inline
#
# ,o888888o. 8 8888 88 8 8888 8 888888888o. 8 8888888888 8 888888888o.
# 8888 `88. 8 8888 88 8 8888 8 8888 `^888. 8 8888 8 8888 `^888.
# ,8 8888 `8. 8 8888 88 8 8888 8 8888 `88. 8 8888 8 8888 `88.
# 88 8888 8 8888 88 8 8888 8 8888 `88 8 8888 8 8888 `88
# 88 8888 8 8888 88 8 8888 8 8888 88 8 888888888888 8 8888 88
# 88 8888 8 8888 88 8 8888 8 8888 88 8 8888 8 8888 88
# 88 8888 8888888 8 8888 88 8 8888 8 8888 ,88 8 8888 8 8888 ,88
# `8 8888 .8' ` 8888 ,8P 8 8888 8 8888 ,88' 8 8888 8 8888 ,88'
# 8888 ,88' 8888 ,d8P 8 8888 8 8888 ,o88P' 8 8888 8 8888 ,o88P'
# `8888888P' `Y88888P' 8 8888 8 888888888P' 8 888888888888 8 888888888P'
#
# P R O O F R E A D I N G
# http://github.com/VCG/guidedproofreading
#
import gp#
# LOAD GP MODEL
#
g = gp.GP() # model='mouse' by default, model='fruitfly'...Loaded GP model for mouse brain.
#
# LOAD TEST DATA (AC4 Subvolume 400x400x10vx)
#
# Haehn D, Knowles-Barley S, Roberts M, Beyer J, Kasthuri N, Lichtman JW, Pfister H.
# Design and Evaluation of Interactive Proofreading Tools for Connectomics.
# IEEE Transactions on Visualization and Computer Graphics 2014;20(12):2466-2475.
#
#
image, prob, gold, segmentation = gp.Util.load(0) # <-- slice 0 only, we will load all later..
gp.Util.show(image, prob, gold, segmentation)
#
# RANK SEGMENT PAIR FOR SPLIT ERROR
#
label1 = 2365
label2 = 975
# Show the pair
gp.Util.show_labels(image, segmentation, [label1, label2])
# Rank the pair
# 0: correct split
# ..
# 1: split error
rank = g.rank(image, prob, segmentation, label1, label2)
print rank0.991059184074
#
# FIND MERGE ERROR IN SEGMENT
#
label1 = 583
# Generate potential boundaries in a segment and rank them.
# result: the fixed merge error
# rank:
# 0: uncertain fix
# ..
# 1: confident fix
result, rank = g.find_merge_error(image, prob, segmentation, label1)
print rank
# Show the label and the fix
gp.Util.show_labels(image, segmentation, [label1], result)0.999999998746
#
#
#
# CORRECT A WHOLE VOLUME
#
#
##
# LOAD TEST DATA
#
images, probs, golds, segmentations = gp.Util.load_all() # <-- this time we load all 10 slices
gp.Util.show(images, probs, golds, segmentations)Loading..
100%
#
# TODO! (see http://github.com/VCG/gp for all the stuff but it needs some cleanup!)
#