import os
from LayerModel_lib.voxelmodel import VoxelModel
from LayerModel_lib.voxelmodel_importer import VoxelModelImporter
from LayerModel_lib.coordinate import Coordinate
current_directory = os.path.dirname(__file__)
base_path = os.path.join(current_directory, '..', '..', '..',
'Numerical Human Phantoms', 'Donna')
# path to the AVW File of this model
filename = os.path.join(base_path, 'segm_donna')
# path to the tissue_mapping file
tissue_file = os.path.join('ImportDonna_tissues.txt')
AVW_Data = VoxelModelImporter(filename, tissue_file, 'AVW')
model_orig = AVW_Data.data['image']
tissue_name_orig = AVW_Data.tissue_names
tissue_mapping = AVW_Data.tissue_mapping
Donna = VoxelModel()
Donna.show_progress_bar = True
# needs to be set manually from README.txt
Donna.set_scale(1.875, 1.875, 10)
Donna.name = 'Donna'
Donna.description = 'Donna model from the Helmholtz Zentrum München. ' \
'Resolution %.2fmm x %.2fmm x %.2fmm' % (Donna.scaling.x,
Donna.scaling.y, Donna.scaling.z)
# Folder with all the txt-files of the AustinMan model
txt_files_dir = os.path.join(base_path, 'AustinMan-v2_5-2x2x2 txt')
# file with all the tissue ids and the mapping between our TissueProperties and the one in the model
tissue_mapping_file = os.path.join('ImportAustinXXX_TissuesMaterialv2_3.txt')
# Define VoxelModel Object to store all properties of the AustinMan VoxelModel
AustinMan = VoxelModel()
AustinMan.show_progress_bar = True
# Set the name
AustinMan.name = 'AustinMan_v2.5_2x2x2'
AustinMan.description = 'AustinMan v2.5, Resolution: 2mm x 2mm x 2mm'
# get all the data from the txt files
txt_data = VoxelModelImporter(txt_files_dir, tissue_mapping_file, 'TXT', show_progress=True)
# the scale of the model in millimeter
scale = txt_data.data['scale']
AustinMan.set_scale(scale['x'], scale['y'], scale['z'])
# the original voxel model
model_orig = txt_data.data['image']
# the tissue names
tissue_name_orig = txt_data.tissue_names
tissue_mapping = txt_data.tissue_mapping
"""
#The original model
"""
# Calculate the outer_shape
outer_shape = txt_data.calculate_outer_shape(model_orig, tissue_mapping)
import os
from LayerModel_lib.voxelmodel import VoxelModel
from LayerModel_lib.voxelmodel_importer import VoxelModelImporter
from LayerModel_lib.coordinate import Coordinate
current_directory = os.path.dirname(__file__)
base_path = os.path.join(current_directory, '..', '..', '..', '..', '..',
'Numerical Human Phantoms', 'Helga')
# path to the AVW File of this model
filename = os.path.join(base_path, 'segm_helga')
# path to the tissue_mapping file
tissue_file = os.path.join('ImportHelga_tissues.txt')
AVW_Data = VoxelModelImporter(filename, tissue_file, 'AVW')
model_orig = AVW_Data.data['image']
tissue_name_orig = AVW_Data.tissue_names
tissue_mapping = AVW_Data.tissue_mapping
Helga = VoxelModel()
Helga.show_progress_bar = True
# needs to be set manually from README.txt
Helga.set_scale(0.98, 0.98, 10)
Helga.name = 'Helga'
Helga.description = 'Helga model from the Helmholtz Zentrum München. ' \
'Resolution %.2fmm x %.2fmm x %.2fmm' % (Helga.scaling.x,
Helga.scaling.y, Helga.scaling.z)
# Folder with all the txt-files of the AustinWoman model
txt_files_dir = os.path.join(base_path, 'AustinWoman-v2_5-2x2x2')
# file with all the tissue ids and the mapping between our TissueProperties and the one in the model
tissue_mapping_file = os.path.join('ImportAustinXXX_TissuesMaterialv2_3.txt')
# Define VoxelModel Object to store all properties of the AustinMan VoxelModel
AustinWoman = VoxelModel()
AustinWoman.show_progress_bar = True
# Set the name
AustinWoman.name = 'AustinWoman_v2.5_2x2x2'
AustinWoman.description = 'AustinWoman v2.5, Resolution: 2mm x 2mm x 2mm'
# get all the data from the txt files
txt_data = VoxelModelImporter(txt_files_dir,
tissue_mapping_file,
'TXT',
show_progress=True)
scale = txt_data.data['scale']
AustinWoman.set_scale(scale['x'], scale['y'], scale['z'])
model_orig = txt_data.data['image']
tissue_name_orig = txt_data.tissue_names
tissue_mapping = txt_data.tissue_mapping
"""
the original model
"""
outer_shape = txt_data.calculate_outer_shape(model_orig, tissue_mapping)
# store the original human body model
AustinWoman.add_voxel_data(
short_name='original',
import os
import numpy as np
from LayerModel_lib.voxelmodel import VoxelModel
from LayerModel_lib.voxelmodel_importer import VoxelModelImporter
from LayerModel_lib.coordinate import Coordinate
current_directory = os.path.dirname(__file__)
base_path = os.path.join(current_directory, '..', '..', '..', '..', '..', 'Numerical Human Phantoms', 'VisHum')
# path to the AVW File of this model
filename = os.path.join(base_path, 'segm_vishum')
# path to the tissue_mapping file
tissue_file = os.path.join('ImportVisibleHuman_tissues.txt')
AVW_Data = VoxelModelImporter(filename, tissue_file, 'AVW')
model_orig = AVW_Data.data['image']
tissue_name_orig = AVW_Data.tissue_names
tissue_mapping = AVW_Data.tissue_mapping
VisibleHuman = VoxelModel()
VisibleHuman.show_progress_bar = True
# from README.txt
VisibleHuman.set_scale(0.94, 0.91, 5)
VisibleHuman.name = 'VisibleHuman'
VisibleHuman.description = 'Visible Human model from the Helmholtz Zentrum München. ' \
'Resolution %.2fmm x %.2fmm x %.2fmm' % (VisibleHuman.scaling.x,
VisibleHuman.scaling.y, VisibleHuman.scaling.z)
# Calculate the outer_shape of the original and the complete model