[ITK-users] [ANNOUNCE] ITK 4.7 Release Candidate 1 has been tagged!
Matt McCormick
matt.mccormick at kitware.com
Mon Dec 8 23:44:31 EST 2014
On behalf of the Insight Toolkit community, we are proud to announce
that ITK 4.7.0 release candidate 1 has been tagged and is available
for testing!
To obtain the source code,
git clone http://itk.org/ITK.git
cd ITK
git checkout -q --detach v4.7rc01
For more details, please see the Git documentation [1].
Please test the release candidate and share your experiences on the
mailing list, issue tracker, and Gerrit Code Review. Please help
identify issues submitting an Experimental build to the dashboard [2]
with:
ctest -M Experimental -T Configure -T Build -T Test -T Submit
and notifying the mailing list. Testing your own applications against
the RC is also appreciated.
Congratulations and well done to everyone that has contributed to this
release. Release candidates are tagged every week. The final release
is scheduled for December 18th.
[1] http://www.itk.org/Wiki/ITK/Git
[2] http://open.cdash.org/index.php?project=Insight
New Features
------------------
* Documentation Improvements
- Update Software Guide registration examples to ITKv4 framework
- Wiki and Sphinx examples are indexed in Doxygen
- Clean Software Guide dashboard build
* Filtering Improvements
- New Laplacian deformation filter’s for QuadEdgeMesh’s
- IJ article: http://hdl.handle.net/10380/3410
- FFTComplexToComplexImageFilter out of Review, Vnl, FFTW implementations
* ImageIO improvements
- PNG sCAL unit support
- TIFF IO performance greatly improved
- TIFF tags read into Image MetaDataDictionary
- MetaIO updated
- Better support for system GDCM
* Infrastructure improvements
- New method to erase a MetaDataDictionary entry
- New global method to set physical space tolerance
- New, experimental thread pool support
- NumericTraits::Zero and ::One are deprecated in favor of
::ZeroValue() and ::OneValue()
* New Remote Modules
- Higher Order Accurate Gradient
- http://hdl.handle.net/10380/3231
- IO Transform DCMTK
- http://hdl.handle.net/10380/3468
* Registration improvements
- LandmarkBasedTransformInitializer supports BSplineTransform
- Transverse inverse consistency increased
- Automatic initialization of the transform center for multi-stage
registrations
- Sparse point B-spline field estimate
* Performance improvements
- Faster recursive Gaussian on VectorImage
- Mutual information faster, lower memory usage
* Wrapping improvements
- Wrapping now builds without type warnings
- pygccxml bumped to 1.6.2
- Latest GCCXML
- CMake wrapping infrastructure cleanup
- Build with Ninja CMake generator
- New GetTypes() and GetTypesAsList() methods
- ITK_WRAP_PYTHON is exposed in ITKConfig.cmake
* Many style improvements -- ITK gets more stylish with every release!
* Improved code coverage -- we are over 85%!
* *Lots* of important bug fixes
* And much more! See details in the log below.
List of changes since v4.5.0
--------------------------------------
Alexander Schmidt-Richberg (1):
ENH: Updated Remote Module VariationalRegistration to new git tag
Ali Ghayoor (10):
ENH: Make ITKv4 compatible with ITKSoftwareGuide
ENH: Add GetCurrentStepLength to RegularStepGradDescentOptv4
ENH: Convert three ImageRegistration Examples to ITKv4
ENH: Add multi-Res and multistage registration Examples to ITKv4
ENH: Convert DeformableReg examples to ITKv4 reg framework
BUG: Expand a test to reflect multi-metric registration bug
BUG: Fix multi metric point sampling bug in ImageRegistrationMethodv4
ENH: Add direct initialization to SyN registration
ENH: Direct initialization of SyN by restoring the state
ENH: LandmarkBasedTransformInitializer supports BSplineTransformType
Arnaud Gelas (15):
COMP: use find_package(VTK COMPONENTS) for LevelSetsv4Visualization
ENH: Importing Laplacian Deformation for QuadEdgeMesh
DOC: Add more explanation about SmoothingQuadEdgeMeshFilter's usage
ENH: SmoothingQuadEdgeMeshFilter::SetCoefficientMethod calls Modified()
ENH: Add progress report in itk::SmoothingQuadEdgeMeshFilter
BUG: fix gdcm version in GDCMImageIO.
COMP: missing cast when calling gdcm::DataElement::SetByteValue
COMP: missing cast when calling gdcm::DataElement::SetByteValue
ENH: increase LaplacianDeformation code coverage
STYLE: use typedef rather than inheritance
BUG: GDCMImageIO was not working properly when m_KeepOriginalUID is false
BUG: split include directories into appropriate cmake variables HDF5
BUG: missing gdcm libraries when using system GDCM
DOC: fix doxygen documentaiton for
itk::LaplacianDeformationQuadEdgeMeshFilter
ENH: Add one method to erase a tag into MetaDataDictionary
Bill Lorensen (5):
ENH: Specify required VTK modules
COMP: Wiki examples require additional vtk modules
ENH: Modify WikiExamples remote config
COMP: Bad test signature
COMP: Update tag for wiki examples
Brad King (6):
COMP: Fix vxl_config_macros usage of CMake check macros
ENH: Use if(DEFINED) to simplify conditions
COMP: Fix vxl_config_macros checks broken by refactoring
COMP: Fix one more vxl_config_macros check broken by refactoring
BUG: Fix itk_module_config for repeated calls
BUG: Fix itk_module_config for repeated calls
Bradley Lowekamp (52):
ENH: Adding License file from upstream MetaIO
ENH: Adding script to update MetaIO from upstream
ENH: Remove ITK MetaIO to prepare for upstream import
PERF: Remove dynamically allocated temporary in evaluate method
COMP: Fix variable type for Set/Get macros
BUG: Implement ITK Style Singleton design pattern
ENH: Add no throw exception specification for UnRegister methods
COMP: Must specify order as "noexcept override"
BUG: Add GetInverse for IdentityTransform
ENH: Adding SetIdentity method to base DisplacementField class
BUG: Remove unused redefinition of NULL
BUG: Don't print to std::cout in PrintSelf
ENH: Prefer the PrintSelfObjectMacro for printing nested objects
BUG: Use METER of sCAL scale unit
BUG: Use PNG_SCALE_METER for PNG sCAL unit
BUG: Use METER of sCAL scale unit
BUG: Use PNG_SCALE_METER for PNG sCAL unit
COMP: Fix signed to unsigned int comparison
BUG: Fix overflows computing size of read tiff image
ENH: Extract TiffReaderInternal to separate file
ENH: Refactor ReadTwoSamplePerPixelImage into template function
ENH: Refactor GenericReadImage into template function
BUG: Remove Zeiss 2-channel support code in TIFFImageIO ( and LSMImageIO )
ENH: Refactor method to convert RGBA image to output buffer
ENH: Refactor duplicated code to read a page
BUG: Fix right oriented tiff images
BUG: Remove dead separated plannar code, add test
STYLE: Fix minor kwstyle defects in test and test results
BUG: Use array delete operator for array new allocations
ENH: add arbitrary TIFF TAGs to meta-data dictionary
ENH: Reduce code duplicate in TIFFImageIO::ReadCurrentPage
BUG: Address Coverity warning about null pointer dereferences
ENH: Remove support for TIFF tile as 3D and dead code
ENH: RGBA read images should stay unchanged.
BUG: Override method to MakeOutput by name
ENH: Refactor per pixel conversion function to per scan-line method
PERF: Refactor color table lookup
BUG: Adding missing parentheses around boolean expression
ENH: adding TIFFImageIO test for RGB palette images
PERF: Improve recursive Gaussian perfromance with VectorImages
ENH: Query libtiff to determine compression support
BUG: Support TIFF tiled image with TIFFReadRGBAImage
BUG: Use SizeValueType for length of scanline
PERF: Store causal results directly in output buffers
COMP: Add explicit conversion to const char
COMP: Explicitly add override to GetNameOfClass method
COMP: Address internal segmentation fault with Intel compiler
ENH: Adding method to set global physical space tolerance
COMP: Explicitly add override to GetNameOfClass method
BUG: Add new TypeMacro for non-overloaded classes
BUG: Fix obscure race condition on access thread pool initialization
BUG: Updating FDFImageIO remote module
Christopher Mullins (15):
COMP: Allows latex to compile for ITKSoftwareGuide
COMP: Allows latex to compile for ITKSoftwareGuide
COMP: Wrap MeshBase templates
COMP: Wrap MeshBase templates
COMP: Fix warning in BlockMatchingImageFilter
STYLE: Line lengths in examples should be no longer than 80 chars.
COMP: Wrap the remaining MeshBase and MeshToMeshFilter types.
COMP: Fix LaTeX warnings.
STYLE: Fix formatting/punctuation errors.
STYLE: Formatting and punctuation fixes.
DOC: Edits for Book 2 Chapter 1 documentation in the Examples.
DOC: Edits for book 2 chapter 2.
DOC: More chapter 2 edits
DOC: Book 2 Chapter 3 edits (part 1)
DOC: book 2 chapter 4 Segmentation edits
Danny Perry (2):
BUG: adding test for vnl_sparse_matrix::mult()
BUG: size of q buffer should actually be (this->rows())*pcols.
David T. Chen (1):
DOC: Fixed HistogramThresholdImageFitler
Dirk Padfield (1):
BUG: Corrected processing of last sigma
GCC-XML Upstream (1):
ENH: pygccxml v1.6.2 (reduced)
Gert Wollny (1):
COMP: Fix SSE2 build errors with WrapITK on GCC 4.9. (ForRelease)
Girish Mallya (1):
BUG: Tests added for BinaryImageToLabelMapFilter for single-row images.
Hans Johnson (24):
COMP: Add tolerance for comparing floating point
PERF: Remove non-threadable algorithm components
COMP: Add tolerance for comparing floating point
PERF: Remove non-threadable algorithm components
PERF: Remove large foot print of PDF derivatives.
PERF: Revert Remove large foot print of PDF derivatives.
STYLE: Test against almost equal for floating point values
STYLE: Non-exact floating point testing
PERF: Distribute initialization per thread buffers
ENH: Remove unnecessary mutable qualifier.
STYLE: Remove comment with no meaning.
ENH: Moved accumlator logic to main MI class
ENH: Allow staggering of accumulations per thread.
PERF: Zero reset thread buffers during finalize
BUG: Syntax error in comment
PERF: Add non-blocking mutex locking.
ENH: Use TryLock minimize thread stalls
BUG: ThreadedIndexedContainerPartitioner is inclusive
STYLE: Remove include_regular_expression from Examples
BUG: Demonstrate Inv(Inv(T)) != T
BUG: Ensure Inv(Inv(T)) == T for transforms
COMP: Valgrind detects uninitialized memory read
COMP: Missing required base class API component
ENH: Expand interface for selecting threadpool
Ismael Belghiti (1):
DOC: Spelling Error in PatchBasedDenoisingBaseImageFilter
Jim Miller (1):
STYLE: Removing what appears to be a temporary file
Johan Andruejol (1):
ENH: Fix normalization for null vectors and return the norm
Jon Haitz Legarreta (1):
ENH: New test for itkLabelShapeOpeningImageFilter
Kent Williams (9):
COMP: use find_package(VTK COMPONENTS) to specify just needed
VTK Components
BUG: ImageSources/test/CMakeLists.txt incorrect library var reference
COMP: Fix coverity defects related to RegistrationV4 examples
COMP: silence warning of vnl_vector_fixed_ref::assert_size
COMP: Fix various Coverity warnings
COMP: Fix a typo in an error message print statement.
COMP: itk::Command-derived class used pointless dynamic_cast.
PERF: Don't recompute InternalInverse repeatedly
COMP: Correct orientation/spacing for Philips MultiFrame
Mark Hiner (2):
ENH: Update SCIFIO remote module hash
BUG: Fix duplicate variables in Windows
Matthew McCormick (105):
DOC: Fix itkSetGetDecoratedInputMacro Doxygen macro.
ENH: Move FFTComplexToComplexImageFilter out of Review.
ENH: Add VnlComplexToComplexFFTImageFilter.
BUG: Use fixed seed for Vnl FFT tests for repeatibility.
ENH: Bump CMakeLists.txt version to 4.7.0.
BUG: ArchiveTestingData.py future imports must occur at the beginning.
BUG: Do not run vnl_test_na with broken libc++.
DOC: Remove Image2.cxx reference from Book 2.
DOC: Fix Software Guide page overruns in IterativeClosestPoint3.cxx.
DOC: Remove references to Book 1 sections from Book 2.
DOC: Make BinaryThresholdImageFilter not floating.
DOC: Fix Software Guide figure caption for FlipImageFilter.
DOC: Avoid duplicate figure description in ResampleImageFilter2.cxx.
DOC: Remove duplicate figure in
LaplacianRecursiveGaussianImageFilter2.cxx.
DOC: ImageRandomConstIteratorWithIndex table reference.
DOC: Fix Software Guide page overruns in IterativeClosestPoint{1,2}.cxx.
DOC: Remove duplicate text in LaplacianRecursiveGaussian example.
BUG: Uninitialized m_TransformDirection in ComplexToComplexFFTImageFilter.
BUG: Fix offset[2] in PointSetToSpatialObjectDemonsRegistrationTest.
STYLE: Fix style in VoronoiDiagram2D.
BUG: Fix invalid assignment of second VoronoiBoundaryOrigin.
BUG: Bump GCCXML to 2014-08-06.
BUG: Remove unused m_{SplitEpsilon,SigmoidPrimeOffset}.
BUG: Fix Win MultiThreader check for successful process creation.
BUG: Fix VTKPolyDataMeshIO writing for 2D second rank tensor.
COMP: Fix ImageRegistration8RegisteredSlice.png baseline name.
DOC: itk::statistics -> itk::Statistics.
COMP: Fix transform type for ITKv3/IterativeClosestPoint2.
BUG: Fix invalid assignment of second VoronoiBoundaryOrigin.
COMP: Improve const correctness of GradientRecursiveGaussianImageFilter.
BUG: Call clear instead of empty on PatchBasedDenoising EmptyCaches().
BUG: Fix Size() in ImageToListSampleAdaptor for VectorImage's.
COMP: ThreadJob NULL not defined.
BUG: Fix alpha assignment for RGBA TIFF.
COMP: Remove unused typedefs in LevelSetsv4Visualization.
COMP: Remove unused typedef's in VtkGlue.
ENH: Mark BSplineWarping2Test as RUNS_LONG.
BUG: Fix Nifti IO read with large images.
COMP: Remove call for non-existent variable in Nifti debugging.
BUG: Close the file on Read and Write in HDF5TransformIO.
BUG: Remove InsightLegacy test code from TransformHDF5Test.
ENH: Add {Set,Get}TransformIO for TransformFile{Reader,Writer}.
STYLE: Use SeriesUIDContainerType and FileNamesContainerType
ENH: Allow specification of orthogonality tolerance in rigid transforms.
BUG: TransformFileReader does not clear its TransformList.
BUG: Prevent dangling pointer in HDF5TransformIO.
COMP: Do not use _stat64 with MinGW-32.
BUG: Improve thread-safety and performance of
PCAShapeSignedDistanceFunction.
DOC: itk::statistics -> itk::Statistics.
DOC: Remove duplicate text in LaplacianRecursiveGaussian example.
DOC: Fix Software Guide page overruns in IterativeClosestPoint{1,2}.cxx.
COMP: Address LaplacianDeformation Doxygen warnings.
BUG: TransformFileReader does not clear its TransformList.
BUG: Prevent dangling pointer in HDF5TransformIO.
COMP: Fix missing prefix in ITKv3ImageRegistration20Test.
BUG: Do not return SmartPointers in TimeVaryingVelocityFieldTransform
COMP: Do not wrap the FixedArray of Image SmartPointer's.
COMP: Add missing wrapping for TransformIOBaseTemplate.
COMP: Mark DeformableRegistration6Test as RUNS_LONG.
STYLE: Improve style in BinaryImageToLabelMapFilter.
BUG: Fix BinaryImageToLabelMapFilter on 1D image.
ENH: Improve precision of the joint PDF sum
BUG: Fix BinShrinkImageFilter for different input/output image types.
COMP: Fix transform type for ITKv3/IterativeClosestPoint2.
BUG: Use -py3 when building wrapping for Python 3.
COMP: Add missing wrapping for TransformIOBaseTemplate.
DOC: Improve ImageRegistration4 grammar.
ENH: Add IOTransformDCMTK Remote module.
BUG: gdcm::StringFilter recognizes backslash delimiter.
DOC: Add migration guide for GDCM Rescale slope intercept apply on write.
COMP: Remove unused typedef's in GPU code.
STYLE: Improve style of HoughTransform2DLinesImageFilter example.
COMP: Use ConceptChecking for IterativeInverse dimension check.
COMP: Wrap TransformIOBaseTemplate for const SmartPointer.
COMP: Add warning exceptions for third party pcre, swig, gccxml.
ENH: Bump ITK version to 4.6.1.
BUG: Add missing ITK_OVERRIDE to ITKImageeSources module.
BUG: Remove GaussianImageSource members shadowing GenerateImageSource.
STYLE: Style fixes to ITKImageSources module.
BUG: GaussianSpatialFunction and GaborImageSource use SpacePrecisionType.
BUG: Do not perform itk_download_attempt_check when not building ITK.
DOC: Update GDCMImageIO rescale slope intercept doc.
BUG: Only register requestion IO COMPONENT modules.
BUG: Fix wrapping .i, .idx CMake dependencies.
COMP: Add VTK Python module when wrapping ITKVtkGlue.
STYLE: Remove NULL definition in itkVoronoiDiagram2DGenerator.
STYLE: VoronoiDiagram2DGenerator defines a VoronoiDiagramType typedef.
COMP: Add missing VTK module dependency for LevelSetsv4Visualization.
BUG: By default, do not create any fixed parameters.
STYLE: Remove trivial method comments in itkTransform.hxx.
BUG: PolylineMask Filter's GenerateData is protected / virtual.
ENH: Add HigherOrderAccurateGradient Module.
BUG: Use input RequestedRegion Index in SliceBySliceImageFilter internal.
COMP: Remove extra semi-colon, variable scope in DCMTKFileReader.
STYLE: Style fixes for Transform classes.
DOC: Increase Doxygen LOOKUP_CACHE_SIZE.
BUG: MatrixOffsetTransformBase::GetFixedParameters not thread safe.
DOC: Index Wiki examples with Doxygen.
COMP: Bump SphinxExamples remote module.
DOC: Index Sphinx examples in Doxygen.
COMP: Remove old java examples.
COMP: Remove duplicate DiffusionTensor3DReconstruction example reference.
COMP: Address GradientAnisotropicDiffusionImageFilter example settings.
COMP: Bump Sphinx Examples remote.
COMP: Bump WikiExamples remote.
MetaIO Maintainers (1):
MetaIO (reduced)
Michka Popoff (40):
ENH: Fixes for python 3 support
BUG: Add VTK_VERSION for older VTK versions
BUG: Improve SWIG version check
COMP: Add wrapping for ThreadPool and ThreadJob
COMP: Remove unimplemented DestroyPool method
COMP: Fix itkVnlComplexToComplexFFTImageFilter wrapping
COMP: Do not hide pygccxml warnings
ENH: Update links in readme file
BUG: Improve SWIG version check
BUG: Add VTK_VERSION for older VTK versions
STYLE: Remove trailing whitespaces
STYLE: Set ITK_USE_SYTEM_ZLIB and ITK_USE_SYTEM_SZIP
BUG: Fix memory leak in MetaImageIO after exception
ENH: Add script to update pygccxml from upstream
BUG: Update VTK minimum version (for release)
BUG: Fix memory leak in MetaImageIO after exception
ENH: Remove Sun OS compatibility for the wrappings
COMP: Fix for conversion to non-pointer like type warning
STYLE: LabelObject style
DOC: Remove broken link from LabelObject class description
ENH: Do not setup the python tests if not asked
ENH: Add new GetTypes() and GetTypesAsList() methods to the template class
COMP: Fix CMP0054 warnings in wrappings
STYLE: Remove old cmake < 2.8.4 specific code
STYLE: Remove old cmake < 2.8.5 specific code
ENH: Update to PCRE 8.36
COMP: Refactor Wrapping setup and fix legacy warnings
ENH: Add wrapping configuration to ITKConfig.cmake
STYLE: Some minor code cleanup in the wrapping setup
DOC: Fix typo in RelabelComponentImageFilter
ENH: Deprecate VectorResampleImageFilter
DOC: Add migration guide for ::Zero and ::One
ENH: Deprecate ::Zero and ::One
ENH: Add option to disable sorting by size in
itkRelabelComponentImageFilter
ENH: Add Vector and RGB wrapping to linear interpolator
STYLE: Remove SORT macro in wrappings
COMP: Fix warning for InterpolateImageFunction wrapping
COMP: Add a check for Blocks in GPU module
COMP: Bump SCIFIO to fix test build warnings
COMP: Fix wrapping of itkImageFunctionBase
Nick Tustison (7):
BUG: Need to explicitly specify spline order.
ENH: Initializing the transform center.
BUG: Need to check the dynamic cast before any calls.
ENH: Adding modifications for point set metrics.
BUG: Need to specify TInternalComputationValueType for default metric.
ENH: Adding sparse points to B-spline field estimate.
BUG: Uninitialized variables.
Richard Beare (1):
ENH: Include TIFF tags in the MetaDataDictionary
Taylor Braun-Jones (1):
BUG: Fix SliceBySliceImageFilter doesn't propagate information internally
Umang B (1):
ENH: Use thread pool to dispatch multithreading tasks
Vivien Delmon (2):
BUG: ExtractImageFilter::CollapseToSubMatrix fix
ENH: Add a test on extracted directions in CollapseToSubMatrix mode
Vladimir S. FONOV (1):
BUG: Fixing incorrect MINC style inverse transform
-----------------------------------------------------
Errors or omissions? Please fix them here:
https://docs.google.com/document/d/1V0zNgFrm_GyF1jOC00fMq-7VBXk4hHmHL62qByfeKP4/edit?usp=sharing
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