DicomSeriesReader/DicomSeriesReader.py

#!/usr/bin/env python
# =========================================================================
#
#  Copyright NumFOCUS
#
#  Licensed under the Apache License, Version 2.0 (the "License");
#  you may not use this file except in compliance with the License.
#  You may obtain a copy of the License at
#
#         http://www.apache.org/licenses/LICENSE-2.0.txt
#
#  Unless required by applicable law or agreed to in writing, software
#  distributed under the License is distributed on an "AS IS" BASIS,
#  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
#  See the License for the specific language governing permissions and
#  limitations under the License.
#
# =========================================================================
 
""" A SimpleITK example demonstrating how to read a DICOM
    series using DicomSeriesReader and then write out a 3d image. """
 
import sys
import os
import SimpleITK as sitk
 
if len(sys.argv) < 3:
    print("Usage: DicomSeriesReader <input_directory> <output_file>")
    sys.exit(1)
 
print("Reading Dicom directory:", sys.argv[1])
reader = sitk.ImageSeriesReader()
 
dicom_names = reader.GetGDCMSeriesFileNames(sys.argv[1])
reader.SetFileNames(dicom_names)
 
image = reader.Execute()
 
size = image.GetSize()
print("Image size:", size[0], size[1], size[2])
 
print("Writing image:", sys.argv[2])
 
sitk.WriteImage(image, sys.argv[2])
 
if "SITK_NOSHOW" not in os.environ:
    sitk.Show(image, "Dicom Series")