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Merge topic 'SIMPLEITK-507_UpdateSegmentationExamples'
916be6d Updating Python NeighborhoodCennected example and adding test d3e00bb Updating CXX NeighborhoodConnected example and adding test 5531faa BUG: output of NeighborhoodConnected filter was input 8162ab6 removing lua segmentation examples 66077da Updating CXX ConnectedThreshold example and adding test fc7e410 Updating ConnectedThreshold python example and adding tests
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| '''========================================================================= | ||
| ' | ||
| ' Copyright Insight Software Consortium | ||
| ' | ||
| ' 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. | ||
| ' | ||
| '=========================================================================''' | ||
| ' | ||
| ' Copyright Insight Software Consortium | ||
| ' | ||
| ' 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. | ||
| ' | ||
| '=========================================================================''' | ||
|
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| from __future__ import print_function | ||
|
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| import SimpleITK | ||
| import SimpleITK as sitk | ||
| import sys | ||
| import os | ||
|
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||
| # | ||
| # Check Command Line | ||
| # | ||
| if len( sys.argv ) < 7: | ||
| print("Usage: ConnectedThresholdImageFilter inputImage outputImage lowerThreshold upperThreshold seedX seedY [seed2X seed2Y ... ]"); | ||
| sys.exit( 1 ) | ||
|
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|
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| # | ||
| # Read the image | ||
| # | ||
| reader = sitk.ImageFileReader() | ||
| reader.SetFileName( sys.argv[1] ) | ||
| image = reader.Execute(); | ||
|
|
||
| # | ||
| # Blur using CurvatureFlowImageFilter | ||
| # | ||
| blurFilter = sitk.CurvatureFlowImageFilter() | ||
| blurFilter.SetNumberOfIterations( 5 ) | ||
| blurFilter.SetTimeStep( 0.125 ) | ||
| image = blurFilter.Execute( image ) | ||
|
|
||
| # | ||
| # Set up ConnectedThresholdImageFilter for segmentation | ||
| # | ||
| segmentationFilter = sitk.ConnectedThresholdImageFilter() | ||
| segmentationFilter.SetLower( float(sys.argv[3]) ) | ||
| segmentationFilter.SetUpper( float(sys.argv[4]) ) | ||
| segmentationFilter.SetReplaceValue( 255 ) | ||
|
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| for i in range( 5, len(sys.argv)-1, 2 ): | ||
| seed = [ int(sys.argv[i]), int(sys.argv[i+1]) ] | ||
| segmentationFilter.AddSeed( seed ) | ||
| print( "Adding seed at: ", seed, " with intensity: ", image.GetPixel(*seed) ) | ||
|
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| # Run the segmentation filter | ||
| image = segmentationFilter.Execute( image ) | ||
| image[seed] = 255 | ||
|
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| # | ||
| # Write out the result | ||
| # | ||
| writer = sitk.ImageFileWriter() | ||
| writer.SetFileName( sys.argv[2] ) | ||
| writer.Execute( image ) | ||
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|
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| if ( not "SITK_NOSHOW" in os.environ ): | ||
| sitk.Show( image, "ConntectedThreshold" ) | ||
|
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| if __name__ == '__main__': | ||
|
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| # | ||
| # Check Command Line | ||
| # | ||
| if len( sys.argv ) < 7: | ||
| print("Usage: ConnectedThresholdImageFilter inputImage outputImage lowerThreshold upperThreshold seedX seedY [seed2X seed2Y ... ]"); | ||
| sys.exit( 1 ) | ||
|
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||
|
|
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| # | ||
| # Read the image | ||
| # | ||
| reader = SimpleITK.ImageFileReader() | ||
| reader.SetFileName( sys.argv[1] ) | ||
| image = reader.Execute(); | ||
|
|
||
| # | ||
| # Set up the writer | ||
| # | ||
| writer = SimpleITK.ImageFileWriter() | ||
| writer.SetFileName( sys.argv[2] ) | ||
|
|
||
| # | ||
| # Blur using CurvatureFlowImageFilter | ||
| # | ||
| blurFilter = SimpleITK.CurvatureFlowImageFilter() | ||
| blurFilter.SetNumberOfIterations( 5 ) | ||
| blurFilter.SetTimeStep( 0.125 ) | ||
| image = blurFilter.Execute( image ) | ||
|
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| # | ||
| # Set up ConnectedThresholdImageFilter for segmentation | ||
| # | ||
| segmentationFilter = SimpleITK.ConnectedThresholdImageFilter() | ||
| segmentationFilter.SetLower( float(sys.argv[3]) ) | ||
| segmentationFilter.SetUpper( float(sys.argv[4]) ) | ||
| segmentationFilter.SetReplaceValue( 255 ) | ||
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| for i in range( 5, len(sys.argv)-1, 2 ): | ||
| seed = SimpleITK.Index( int(sys.argv[i]), int(sys.argv[i+1]) ) | ||
| segmentationFilter.AddSeed( seed ) | ||
| print( "Adding seed at ", seed.ToString() ) | ||
|
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| # Run the segmentation filter | ||
| image = segmentationFilter.Execute( image ) | ||
|
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| # | ||
| # Write out the result | ||
| # | ||
| writer.Execute( image ) | ||
|
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| sys.exit(0) | ||
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59 changes: 0 additions & 59 deletions
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Examples/Segmentation/NeighborhoodConnectedImageFilter.lua
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