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############################################################################
##
## Copyright (C) 2006-2007 University of Utah. All rights reserved.
##
## This file is part of VisTrails.
##
## This file may be used under the terms of the GNU General Public
## License version 2.0 as published by the Free Software Foundation
## and appearing in the file LICENSE.GPL included in the packaging of
## this file. Please review the following to ensure GNU General Public
## Licensing requirements will be met:
## http://www.opensource.org/licenses/gpl-license.php
##
## If you are unsure which license is appropriate for your use (for
## instance, you are interested in developing a commercial derivative
## of VisTrails), please contact us at contact@vistrails.org.
##
## This file is provided AS IS with NO WARRANTY OF ANY KIND, INCLUDING THE
## WARRANTY OF DESIGN, MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
##
############################################################################
# ITK package for VisTrails
############################################################################
"""ITK is an open-source, cross-platform system that provides developers with an extensive suite of software tools for image analysis. www.itk.org
For info on installing itk and python-itk on ubuntu see: http://paulnovo.org/node/2
For info on generating wrapper modules for more itk filters see itk/filter_generator.py"""
version = '0.2'
identifier = 'edu.utah.sci.vistrails.itk'
name = 'ITK'
import core.bundles.utils
import core.requirements
from core.modules.vistrails_module import Module, ModuleError
# Ugly, but Carlos doesnt know any better
if core.bundles.utils.guess_system() == 'linux-ubuntu':
import sys
sys.path.append('/usr/local/lib/VisTrailsITK')
try:
from core.bundles import py_import
itk = py_import('itk', {'linux-ubuntu': 'vistrails-itk'})
except ImportError:
raise core.requirements.MissingRequirement("ITK and WrapITK")
import core.modules
import core.modules.module_registry
# ITK Package imports
from PixelType import *
from FeatureExtractionFilters import *
from ITK import *
from Image import Image
from IntensityFilters import *
from SegmentationFilters import *
from SelectionFilters import *
from SmoothingFilters import *
from ThresholdFilters import *
from GradientFilters import *
from NeighborhoodFilters import *
from ImageReader import *
def initialize(*args, **keywords):
reg = core.modules.module_registry
basic = core.modules.basic_modules
########################################################################################
# Misc.
Index2D.register(reg,basic)
Index3D.register(reg,basic)
Size.register(reg,basic)
Region.register(reg,basic)
PixelType.register(reg,basic)
Filter.register(reg,basic)
Kernel.register(reg,basic)
Image.register(reg,basic)
########################################################################################
# Pixel Types
pixeltypes = [PixelTypeFloat,
PixelTypeUnsignedChar,
PixelTypeUnsignedShort,
PixelTypeRGB]
for cls in pixeltypes:
cls.register(reg,basic)
########################################################################################
# Feature Extraction Filters
featurefilters = [GradientMagnitudeRecursiveGaussianImageFilter,
DanielssonDistanceMapImageFilter,
SobelEdgeDetectionImageFilter]
for cls in featurefilters:
cls.register(reg,basic)
########################################################################################
# Intensity Filters
intensityfilters = [RescaleIntensityImageFilter,
SigmoidImageFilter,
ThresholdImageFilter,
ShiftScaleImageFilter,
NormalizeImageFilter]
for cls in intensityfilters:
cls.register(reg,basic)
########################################################################################
# Segmentation Filters
segmentationfilters = [IsolatedWatershedImageFilter,
ConnectedThresholdImageFilter,
ConfidenceConnectedImageFilter,
IsolatedConnectedImageFilter]
for cls in segmentationfilters:
cls.register(reg,basic)
########################################################################################
# Selection Filters
selectionfilters = [RegionOfInterestImageFilter,
CastImageFilter,
ExtractImageFilter]
for cls in selectionfilters:
cls.register(reg,basic)
########################################################################################
# Smoothing Filters
smoothingfilters = [CurvatureAnisotropicDiffusionFilter,
RecursiveGaussianImageFilter,
DiscreteGaussianImageFilter,
GradientAnisotropicDiffusionImageFilter,
MinMaxCurvatureFlowImageFilter,
BinomialBlurImageFilter,
BilateralImageFilter,
CurvatureFlowImageFilter]
for cls in smoothingfilters:
cls.register(reg,basic)
########################################################################################
# Threshold Filters
thresholdfilters = [BinaryThresholdImageFilter]
for cls in thresholdfilters:
cls.register(reg,basic)
########################################################################################
# Gradient Filters
gradientfilters = [GradientMagnitudeImageFilter]
for cls in gradientfilters:
cls.register(reg,basic)
########################################################################################
# Neighborhood Filters
neighborhoodfilters = [MeanImageFilter,
MedianImageFilter,
BinaryErodeImageFilter]
for cls in neighborhoodfilters:
cls.register(reg,basic)
########################################################################################
# Image Reader
imagereader = [ImageReader,
ImageToFile,
GDCMReader,
DICOMReader]
for cls in imagereader:
cls.register(reg,basic)
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