<html><head><meta name="color-scheme" content="light dark"></head><body><pre style="word-wrap: break-word; white-space: pre-wrap;"># -*- coding: utf-8 -*-
#  This software and supporting documentation are distributed by
#      Institut Federatif de Recherche 49
#      CEA/NeuroSpin, Batiment 145,
#      91191 Gif-sur-Yvette cedex
#      France
#
# This software is governed by the CeCILL-B license under
# French law and abiding by the rules of distribution of free software.
# You can  use, modify and/or redistribute the software under the
# terms of the CeCILL-B license as circulated by CEA, CNRS
# and INRIA at the following URL "http://www.cecill.info".
#
# As a counterpart to the access to the source code and  rights to copy,
# modify and redistribute granted by the license, users are provided only
# with a limited warranty  and the software's author,  the holder of the
# economic rights,  and the successive licensors  have only  limited
# liability.
#
# In this respect, the user's attention is drawn to the risks associated
# with loading,  using,  modifying and/or developing or reproducing the
# software by the user in light of its specific status of free software,
# that may mean  that it is complicated to manipulate,  and  that  also
# therefore means  that it is reserved for developers  and  experienced
# professionals having in-depth computer knowledge. Users are therefore
# encouraged to load and test the software's suitability as regards their
# requirements in conditions enabling the security of their systems and/or
# data to be ensured and,  more generally, to use and operate it in the
# same conditions as regards security.
#
# The fact that you are presently reading this means that you have had
# knowledge of the CeCILL-B license and that you accept its terms.
from __future__ import print_function
from __future__ import absolute_import
import sys
from soma import aims
import math

# Read regions of interests from sys.argv[ 1 ]
roiIterator = aims.getRoiIterator(sys.argv[1])


# Read image from sys.argv[ 2 ]
reader = aims.Reader({'Volume': 'AimsData'})
image = reader.read(sys.argv[2])
interpolator = aims.getLinearInterpolator(image)


# Iterate on each region
while roiIterator.isValid():
    print(roiIterator.regionName() + ':')
    maskIterator = roiIterator.maskIterator()
    print('maskIterator:', maskIterator)
    valid = 0
    invalid = 0
    sum = None
    sqsum = 0
    # Iterate on each point of a region
    print('iter on maskIterator')
    while maskIterator.isValid():
        print(' point')
        p = maskIterator.valueMillimeters()
        print(p)
        # Check if the point is in the image limit
        print('4:', interpolator)
        if interpolator.isValid(p):
            print('6')
            value = interpolator.value(p)
            print('7:', value)
            if sum is None:
                sum = value
            else:
                sum += value
            valid += 1
            sqsum += value * value
        else:
            invalid += 1
        print('8')
        next(maskIterator)
    print('  valid points:', valid)
    print('  invalid points:', invalid)
    if valid:
        mean = sum / float(valid)
        if valid &gt;= 2:
            stddev = math.sqrt((sqsum - mean * mean) / (valid - 1))
        else:
            stddev = math.sqrt((sqsum - mean * mean) / valid)
    else:
        mean = 'N/A'
        stddev = 'N/A'
    print('  mean value:', mean)
    print('  std dev   :', stddev)
    next(roiIterator)
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