# This script allows 2D-registration of slices in a stack according to average coordinates of 2D objects in the slices
# What it needs:
# * an image stack, it may have several channels
# * the slices should be oriented in Z
# * the surface manager should have stored the outlines of the objects, because this script runs only with the resultstable of the surface managers statistics function
# * all surfaces MUST have the same starting and ending slice. Ideally, they are starting and endling slice of the stack
#
# Version 1.0.0, December 8th, 2015
# Author Robert Haase, Scientific Computing Facility, MPI CBG, rhaase@mpi-cbg.de
#
# Copyright 2018 Max Planck Institute of Molecular Cell Biology and Genetics,
# Dresden, Germany
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
# 1. Redistributions of source code must retain the above copyright notice,
# this list of conditions and the following disclaimer.
# 2. Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
# 3. Neither the name of the copyright holder nor the names of its
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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# ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
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# ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
