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thewtexthewtex
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feat(formats): Add LSM support
1 parent f8e00b1 commit 017a63e

12 files changed

Lines changed: 129 additions & 4 deletions

‎CMakeLists.txt‎

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@@ -14,6 +14,7 @@ set(BridgeJavaScript_IOModules
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"ITKIOVTK"
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"ITKIOBMP"
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"ITKIOHDF5"
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"ITKIOLSM"
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"ITKIOBioRad"
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"ITKIOGIPL"
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"ITKIOGE"
@@ -25,6 +26,7 @@ set(imageios_ITKIOHDF5 itkHDF5ImageIO)
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set(imageios_ITKIOGE itkGEAdwImageIO itkGE4ImageIO itkGE5ImageIO)
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set(imageios_ITKIOGIPL itkGiplImageIO)
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set(imageios_ITKIOPNG itkPNGImageIO)
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set(imageios_ITKIOLSM itkLSMImageIO)
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set(imageios_ITKIOMeta itkMetaImageIO)
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set(imageios_ITKIONIFTI itkNiftiImageIO)
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set(imageios_ITKIONRRD itkNrrdImageIO)

‎README.md‎

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@@ -17,6 +17,7 @@ Supported file formats
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- [JPEG](https://en.wikipedia.org/wiki/JPEG_File_Interchange_Format)
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- [GE4,GE5,GEAdw](http://www3.gehealthcare.com)
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- [Gipl (Guys Image Processing Lab)](https://www.ncbi.nlm.nih.gov/pubmed/12956259)
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- [LSM](http://www.openwetware.org/wiki/Dissecting_LSM_files)
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- [MetaImage](https://itk.org/Wiki/ITK/MetaIO/Documentation)
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- [NifTi](https://nifti.nimh.nih.gov/nifti-1)
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- [NRRD](http://teem.sourceforge.net/nrrd/format.html)

‎src/extensionToIO.js‎

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@@ -16,6 +16,8 @@ extensionToIO['JPG'] = 'itkJPEGImageIOJSBinding'
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extensionToIO['jpeg'] = 'itkJPEGImageIOJSBinding'
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extensionToIO['JPEG'] = 'itkJPEGImageIOJSBinding'
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extensionToIO['lsm'] = 'itkLSMImageIOJSBinding'
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extensionToIO['mha'] = 'itkMetaImageIOJSBinding'
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extensionToIO['mhd'] = 'itkMetaImageIOJSBinding'
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‎src/itkGE4ImageIOJSBinding.cxx‎

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@@ -25,7 +25,7 @@
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typedef itk::ImageIOBaseJSBinding< itk::GE4ImageIO > GE4ImageIOJSBindingType;
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EMSCRIPTEN_BINDINGS(itk_vtk_image_io_js_binding) {
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EMSCRIPTEN_BINDINGS(itk_ge4_image_io_js_binding) {
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emscripten::register_vector<double>("AxisDirectionType");
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emscripten::enum_<GE4ImageIOJSBindingType::IOPixelType>("IOPixelType")
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.value("UNKNOWNPIXELTYPE", itk::ImageIOBase::UNKNOWNPIXELTYPE)

‎src/itkGE5ImageIOJSBinding.cxx‎

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@@ -25,7 +25,7 @@
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typedef itk::ImageIOBaseJSBinding< itk::GE5ImageIO > GE5ImageIOJSBindingType;
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EMSCRIPTEN_BINDINGS(itk_vtk_image_io_js_binding) {
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EMSCRIPTEN_BINDINGS(itk_ge5_image_io_js_binding) {
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emscripten::register_vector<double>("AxisDirectionType");
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emscripten::enum_<GE5ImageIOJSBindingType::IOPixelType>("IOPixelType")
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.value("UNKNOWNPIXELTYPE", itk::ImageIOBase::UNKNOWNPIXELTYPE)

‎src/itkGEAdwImageIOJSBinding.cxx‎

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@@ -25,7 +25,7 @@
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typedef itk::ImageIOBaseJSBinding< itk::GEAdwImageIO > GEAdwImageIOJSBindingType;
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EMSCRIPTEN_BINDINGS(itk_vtk_image_io_js_binding) {
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EMSCRIPTEN_BINDINGS(itk_geadw_image_io_js_binding) {
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emscripten::register_vector<double>("AxisDirectionType");
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emscripten::enum_<GEAdwImageIOJSBindingType::IOPixelType>("IOPixelType")
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.value("UNKNOWNPIXELTYPE", itk::ImageIOBase::UNKNOWNPIXELTYPE)

‎src/itkHDF5ImageIOJSBinding.cxx‎

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@@ -25,7 +25,7 @@
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typedef itk::ImageIOBaseJSBinding< itk::HDF5ImageIO > HDF5ImageIOJSBindingType;
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EMSCRIPTEN_BINDINGS(itk_biorad_image_io_js_binding) {
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EMSCRIPTEN_BINDINGS(itk_hdf5_image_io_js_binding) {
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emscripten::register_vector<double>("AxisDirectionType");
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emscripten::enum_<HDF5ImageIOJSBindingType::IOPixelType>("IOPixelType")
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.value("UNKNOWNPIXELTYPE", itk::ImageIOBase::UNKNOWNPIXELTYPE)

‎src/itkLSMImageIOJSBinding.cxx‎

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@@ -0,0 +1,91 @@
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/*=========================================================================
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*
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* Copyright Insight Software Consortium
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*
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* Licensed under the Apache License, Version 2.0 (the "License");
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* you may not use this file except in compliance with the License.
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* You may obtain a copy of the License at
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*
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* http://www.apache.org/licenses/LICENSE-2.0.txt
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*
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* Unless required by applicable law or agreed to in writing, software
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* distributed under the License is distributed on an "AS IS" BASIS,
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* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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* See the License for the specific language governing permissions and
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* limitations under the License.
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*
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*=========================================================================*/
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#include <emscripten.h>
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#include <emscripten/bind.h>
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#include "itkLSMImageIO.h"
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#include "itkImageIOBaseJSBinding.h"
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typedef itk::ImageIOBaseJSBinding< itk::LSMImageIO > LSMImageIOJSBindingType;
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EMSCRIPTEN_BINDINGS(itk_lsm_image_io_js_binding) {
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emscripten::register_vector<double>("AxisDirectionType");
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emscripten::enum_<LSMImageIOJSBindingType::IOPixelType>("IOPixelType")
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.value("UNKNOWNPIXELTYPE", itk::ImageIOBase::UNKNOWNPIXELTYPE)
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.value("SCALAR", itk::ImageIOBase::SCALAR)
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.value("RGB", itk::ImageIOBase::RGB)
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.value("RGBA", itk::ImageIOBase::RGBA)
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.value("OFFSET", itk::ImageIOBase::OFFSET)
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.value("VECTOR", itk::ImageIOBase::VECTOR)
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.value("POINT", itk::ImageIOBase::POINT)
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.value("COVARIANTVECTOR", itk::ImageIOBase::COVARIANTVECTOR)
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.value("SYMMETRICSECONDRANKTENSOR", itk::ImageIOBase::SYMMETRICSECONDRANKTENSOR)
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.value("POINT", itk::ImageIOBase::POINT)
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.value("COVARIANTVECTOR", itk::ImageIOBase::COVARIANTVECTOR)
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.value("SYMMETRICSECONDRANKTENSOR", itk::ImageIOBase::SYMMETRICSECONDRANKTENSOR)
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.value("DIFFUSIONTENSOR3D", itk::ImageIOBase::DIFFUSIONTENSOR3D)
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.value("COMPLEX", itk::ImageIOBase::COMPLEX)
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.value("FIXEDARRAY", itk::ImageIOBase::FIXEDARRAY)
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.value("MATRIX", itk::ImageIOBase::MATRIX)
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;
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emscripten::enum_<LSMImageIOJSBindingType::IOComponentType>("IOComponentType")
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.value("UNKNOWNCOMPONENTTYPE", itk::ImageIOBase::UNKNOWNCOMPONENTTYPE)
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.value("UCHAR", itk::ImageIOBase::UCHAR)
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.value("CHAR", itk::ImageIOBase::CHAR)
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.value("USHORT", itk::ImageIOBase::USHORT)
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.value("SHORT", itk::ImageIOBase::SHORT)
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.value("UINT", itk::ImageIOBase::UINT)
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.value("INT", itk::ImageIOBase::INT)
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.value("ULONG", itk::ImageIOBase::ULONG)
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.value("LONG", itk::ImageIOBase::LONG)
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.value("FLOAT", itk::ImageIOBase::FLOAT)
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.value("DOUBLE", itk::ImageIOBase::DOUBLE)
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;
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emscripten::class_<LSMImageIOJSBindingType>("ITKImageIO")
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.constructor<>()
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.function("SetNumberOfDimensions", &LSMImageIOJSBindingType::SetNumberOfDimensions)
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.function("GetNumberOfDimensions", &LSMImageIOJSBindingType::GetNumberOfDimensions)
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.function("SetFileName", &LSMImageIOJSBindingType::SetFileName)
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.function("GetFileName", &LSMImageIOJSBindingType::GetFileName)
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.function("CanReadFile", &LSMImageIOJSBindingType::CanReadFile)
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.function("ReadImageInformation", &LSMImageIOJSBindingType::ReadImageInformation)
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.function("SetDimensions", &LSMImageIOJSBindingType::SetDimensions)
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.function("GetDimensions", &LSMImageIOJSBindingType::GetDimensions)
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.function("SetOrigin", &LSMImageIOJSBindingType::SetOrigin)
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.function("GetOrigin", &LSMImageIOJSBindingType::GetOrigin)
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.function("SetSpacing", &LSMImageIOJSBindingType::SetSpacing)
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.function("GetSpacing", &LSMImageIOJSBindingType::GetSpacing)
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.function("SetDirection", &LSMImageIOJSBindingType::SetDirection)
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.function("GetDirection", &LSMImageIOJSBindingType::GetDirection)
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.function("GetDefaultDirection", &LSMImageIOJSBindingType::GetDefaultDirection)
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.function("SetPixelType", &LSMImageIOJSBindingType::SetPixelType)
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.function("GetPixelType", &LSMImageIOJSBindingType::GetPixelType)
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.function("SetComponentType", &LSMImageIOJSBindingType::SetComponentType)
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.function("GetComponentType", &LSMImageIOJSBindingType::GetComponentType)
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.class_function("GetPixelTypeAsString", &LSMImageIOJSBindingType::GetPixelTypeAsString)
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.class_function("GetComponentTypeAsString", &LSMImageIOJSBindingType::GetComponentTypeAsString)
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.function("GetImageSizeInPixels", &LSMImageIOJSBindingType::GetImageSizeInPixels)
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.function("GetImageSizeInBytes", &LSMImageIOJSBindingType::GetImageSizeInBytes)
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.function("GetImageSizeInComponents", &LSMImageIOJSBindingType::GetImageSizeInComponents)
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.function("SetNumberOfComponents", &LSMImageIOJSBindingType::SetNumberOfComponents)
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.function("GetNumberOfComponents", &LSMImageIOJSBindingType::GetNumberOfComponents)
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.function("Read", &LSMImageIOJSBindingType::Read)
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;
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}

‎test/CMakeLists.txt‎

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@@ -34,4 +34,5 @@ ExternalData_Expand_Arguments(
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DATA{Input/I.001}
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DATA{Input/ramp.gipl}
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DATA{Input/ITKImage.hdf5}
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DATA{Input/cthead1.lsm}
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)

‎test/Input/cthead1.lsm.md5‎

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276e992e6768f3905cbdb8bcf0b80269

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