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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.
##
############################################################################
import itk
import core.modules
from core.modules.vistrails_module import Module, ModuleError
from ITK import *
from Image import Image
class RegionOfInterestImageFilter(Module):
my_namespace="Filter|Selection"
def setStart(self, start):
if start == 2:
self.index = self.getInputFromPort("Input 2D Index").ind_
else:
self.index = self.getInputFromPort("Input 3D Index").ind_
self.region_.SetIndex(self.index)
def compute(self):
im = self.getInputFromPort("Input Image")
#check for input PixelType
if self.hasInputFromPort("Input PixelType"):
inPixelType = self.getInputFromPort("Input PixelType")
else:
inPixelType = im.getPixelType()
#check for output PixelType
if self.hasInputFromPort("Output PixelType"):
outPixelType = self.getInputFromPort("Output PixelType")
else:
outPixelType = inPixelType
#check for dimension
if self.hasInputFromPort("Input Dimension"):
dim = self.getInputFromPort("Input Dimension")
else:
dim = im.getDim()
if self.hasInputFromPort("Output Dimension"):
outDim = self.getInputFromPort("Output Dimension")
else:
outDim = dim
#set up filter
inImgType = itk.Image[inPixelType._type, dim]
outImgType = itk.Image[outPixelType._type, outDim]
self.filter_ = itk.RegionOfInterestImageFilter[inImgType, outImgType].New()
#TODO this is not correct, needs fixing
if self.hasInputFromPort("Input Region"):
self.region_ = self.getInputFromPort("Input Region").region_
else:
self.region_ = itk.ImageRegion[indim]()
self.setStart(indim)
self.region_.SetSize(self.getInputFromPort("Region Size").size_)
self.filter_.SetRegionOfInterest(self.region_)
self.filter_.SetInput(im.getImg())
self.filter_.Update()
#setup output image
outIm = Image()
outIm.setImg(self.filter_.GetOutput())
outIm.setPixelType(outPixelType)
outIm.setDim(outDim)
self.setResult("Output Image", outIm)
self.setResult("Output PixelType", outPixelType)
self.setResult("Output Dimension", outDim)
self.setResult("Filter", self)
@classmethod
def register(cls, reg, basic):
reg.add_module(cls, name="Region of Interest Image Filter", namespace=cls.my_namespace)
reg.add_input_port(cls, "Input Image", (Image, 'Input Image'))
reg.add_input_port(cls, "Input Dimension", (basic.Integer, 'Dimension'),True)
reg.add_input_port(cls, "Output Dimension", (basic.Integer, 'Dimension'),True)
reg.add_input_port(cls, "Input PixelType", (PixelType, 'Input PixelType'),True)
reg.add_input_port(cls, "Output PixelType", (PixelType, 'Output PixelType'),True)
reg.add_input_port(cls, "Input Region", (Region, 'Input Region'))
reg.add_input_port(cls, "Region Size", (Size, 'Region Size'))
reg.add_output_port(cls, "Output Image", (Image, 'Output Image'))
reg.add_output_port(cls, "Output PixelType", (PixelType, 'Output PixelType'),True)
reg.add_output_port(cls, "Output Dimension", (basic.Integer, 'Dimension'),True)
class CastImageFilter(Module):
my_namespace="Filter|Selection"
def compute(self):
im = self.getInputFromPort("Input Image")
#check for input PixelType
if self.hasInputFromPort("Input PixelType"):
inPixelType = self.getInputFromPort("Input PixelType")
else:
inPixelType = im.getPixelType()
#check for output PixelType
if self.hasInputFromPort("Output PixelType"):
outPixelType = self.getInputFromPort("Output PixelType")
else:
outPixelType = inPixelType
#check for in dimension
if self.hasInputFromPort("Input Dimension"):
dim = self.getInputFromPort("Input Dimension")
else:
dim = im.getDim()
#check for out dimension
if self.hasInputFromPort("Output Dimension"):
outDim = self.getInputFromPort("Output Dimension")
else:
outDim = dim
#set up filter
inImgType = itk.Image[inPixelType._type, dim]
outImgType = itk.Image[outPixelType._type, outDim]
self.filter_ = itk.CastImageFilter[inImgType, outImgType].New(im.getImg())
self.filter_.Update()
#setup output image
outIm = Image()
outIm.setImg(self.filter_.GetOutput())
outIm.setPixelType(outPixelType)
outIm.setDim(outDim)
self.setResult("Output Image", outIm)
self.setResult("Output PixelType", outPixelType)
self.setResult("Output Dimension", outDim)
self.setResult("Filter", self)
@classmethod
def register(cls, reg, basic):
reg.add_module(cls, name="Cast Image Filter", namespace=cls.my_namespace)
reg.add_input_port(cls, "Input Dimension", (basic.Integer, 'Input Dimension'),True)
reg.add_input_port(cls, "Output Dimension", (basic.Integer, 'Output Dimension'))
reg.add_input_port(cls, "Input PixelType", (PixelType, 'Input PixelType'),True)
reg.add_input_port(cls, "Output PixelType", (PixelType, 'Output PixelType'))
reg.add_input_port(cls, "Input Image", (Image, 'Input Image'))
reg.add_output_port(cls, "Output Image", (Image, 'Output Image'))
reg.add_output_port(cls, "Output PixelType", (PixelType, 'Output PixelType'),True)
reg.add_output_port(cls, "Filter", (Filter, 'Filter'),True)
reg.add_output_port(cls, "Output Dimension", (basic.Integer, 'Output Dimension'),True)
class ExtractImageFilter(Module):
my_namespace="Filter|Selection"
def compute(self):
#TODO should this be Input Volume?
im = self.getInputFromPort("Input Volume")
#check for input PixelType
if self.hasInputFromPort("Input PixelType"):
inPixelType = self.getInputFromPort("Input PixelType")
else:
inPixelType = im.getPixelType()
#set outPixelType
outPixelType = inPixelType
#check for dimension
if self.hasInputFromPort("Dimension"):
dim = self.getInputFromPort("Dimension")
else:
dim = im.getDim()
#check for out dimension
if self.hasInputFromPort("Output Dimension"):
outDim = self.getInputFromPort("Output Dimension")
else:
outDim = im.getDim()
#set up filter
inImgType = itk.Image[inPixelType._type, dim]
outImgType = itk.Image[outPixelType._type, outDim]
self.filter_ = itk.ExtractImageFilter[inImgType,outImgType].New(im.getImg())
region = self.getInputFromPort("Extraction Region")
self.filter_.SetExtractionRegion(region.region_)
self.filter_.Update()
#setup output image
outIm = Image()
outIm.setImg(self.filter_.GetOutput())
outIm.setPixelType(outPixelType)
outIm.setDim(outDim)
self.setResult("Output Image", outIm)
self.setResult("Output PixelType", outPixelType)
self.setResult("Dimension", outDim)
@classmethod
def register(cls, reg, basic):
reg.add_module(cls, name="Extract Image Filter", namespace=cls.my_namespace)
reg.add_input_port(cls, "Input Volume", (Image, 'Input Image'))
reg.add_input_port(cls, "Input Dimension", (basic.Integer, 'Input Dimension'),True)
reg.add_input_port(cls, "Output Dimension", (basic.Integer, 'Output Dimension'),True)
reg.add_input_port(cls, "Input PixelType", (PixelType, 'Input PixelType'),True)
reg.add_input_port(cls, "Extraction Region", (Region, 'Extraction Region'))
reg.add_output_port(cls, "Output Image", (Image, 'Output Image'))
reg.add_output_port(cls, "Output PixelType", (PixelType, 'Output PixelType'),True)
reg.add_output_port(cls, "Dimension", (basic.Integer, 'Dimension'),True)
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