[Insight-users] [ANNOUNCE] ITK 4.4.0 has been released!
Panagiotis Foteinos
panagiotis.foteinos at gmail.com
Wed Jul 10 14:38:19 EDT 2013
It is the first mnc file I have ever worked on.
Let me see how other software behaves, and I will report back.
Thank you,
Panagiotis
On Wed, Jul 10, 2013 at 2:35 PM, Bill Lorensen <bill.lorensen at gmail.com>wrote:
> Have you ever read this file with other software? Have you tried other mnc
> files?
>
>
> On Wed, Jul 10, 2013 at 2:25 PM, Panagiotis Foteinos <
> panagiotis.foteinos at gmail.com> wrote:
>
>> I have given all the permissions to the file in question.
>>
>> The error I am getting is:
>>
>> *********************
>> /home/pfoteino/local/bin/itk-4.4.0-bin/release/Modules/ThirdParty/MINC/ITKMINC2_ExternalProject/libsrc2/volume.c:142
>> (from MINC2): Unable to open file
>> '/home/pfoteino/ITK_Images/BigBrain/full16_100um_2009b_sym.mnc'
>> ExceptionObject caught!
>>
>> itk::ExceptionObject (0x28ab790)
>> Location: "unknown"
>> File:
>> /home/pfoteino/local/src/ITK-4.4.0/Modules/IO/ImageBase/src/itkImageIOBase.cxx
>> Line: 366
>> Description: itk::ERROR: MINCImageIO(0x28aecf0): Unknown component type: 0
>>
>> *********************
>>
>> Best,
>> Panagiotis
>>
>>
>> On Wed, Jul 10, 2013 at 2:10 PM, Bill Lorensen <bill.lorensen at gmail.com>wrote:
>>
>>> Also, check the permissions on the file. And please post the new error.
>>> The error message should now include the full path name.
>>>
>>>
>>>
>>> On Wed, Jul 10, 2013 at 1:44 PM, Panagiotis Foteinos <
>>> panagiotis.foteinos at gmail.com> wrote:
>>>
>>>> Thank you for the reply.
>>>>
>>>> It did not solve the problem, however. Same error.
>>>>
>>>> Regards,
>>>> Panagiotis Foteinos
>>>>
>>>>
>>>> On Wed, Jul 10, 2013 at 1:16 PM, Bill Lorensen <bill.lorensen at gmail.com
>>>> > wrote:
>>>>
>>>>> When you specify the file, you should provide the full path to the
>>>>> file. The error says the file cannot be opened:
>>>>> full16_100um_2009b_sym.mnc
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> On Wed, Jul 10, 2013 at 1:07 PM, Panagiotis Foteinos <
>>>>> panagiotis.foteinos at gmail.com> wrote:
>>>>>
>>>>>> Greetings.
>>>>>>
>>>>>> Glad to see that MINC is supported.
>>>>>>
>>>>>>
>>>>>> So, I enblabled MINC support and everything compiled nicely.
>>>>>> Attempting to read, however, a *.mnc file, yielded the following error:
>>>>>>
>>>>>>
>>>>>> ********************
>>>>>> /home/pfoteino/local/bin/itk-4.4.0-bin/release/Modules/ThirdParty/MINC/ITKMINC2_ExternalProject/libsrc2/volume.c:142
>>>>>> (from MINC2): Unable to open file 'full16_100um_2009b_sym.mnc'
>>>>>> ExceptionObject caught!
>>>>>>
>>>>>> itk::ExceptionObject (0x1fc2440)
>>>>>> Location: "unknown"
>>>>>> File:
>>>>>> /home/pfoteino/local/src/ITK-4.4.0/Modules/IO/ImageBase/src/itkImageIOBase.cxx
>>>>>> Line: 366
>>>>>> Description: itk::ERROR: MINCImageIO(0x1fc0cd0): Unknown component
>>>>>> type: 0
>>>>>> ********************
>>>>>>
>>>>>> The MINC image I used was taken from the BigBrain project.
>>>>>>
>>>>>> Any suggestions?
>>>>>>
>>>>>>
>>>>>> Best Regards,
>>>>>> Panagiotis Foteinos
>>>>>>
>>>>>>
>>>>>> On Mon, Jun 3, 2013 at 5:06 PM, Matt McCormick <
>>>>>> matt.mccormick at kitware.com> wrote:
>>>>>>
>>>>>>> The InsightToolkit (ITK) 4.4.0 has been released!
>>>>>>>
>>>>>>> The 4.4 release is a major milestone that marks the hard work of many
>>>>>>> outstanding community members.
>>>>>>>
>>>>>>> Links to the Sourceforge.net tarballs can be found on the download
>>>>>>> page:
>>>>>>>
>>>>>>> http://www.itk.org/ITK/resources/software.html
>>>>>>>
>>>>>>>
>>>>>>> We will discuss what is new in 4.4.0 on Tuesday, June 11 at 3PM
>>>>>>> Eastern Time (GMT -5). To take part, join the “ITK BarCamp”
>>>>>>> GooglePlus Community, and join the “What’s New in Release 4.4.0”
>>>>>>> Event. A link to the YouTube live stream of the event will also be
>>>>>>> posted at
>>>>>>>
>>>>>>> http://www.itk.org/ITK/resources/webinars.html
>>>>>>>
>>>>>>>
>>>>>>> In summary:
>>>>>>>
>>>>>>> We are excited to announce two new ImageIO modules available in the
>>>>>>> main repository. The MINC ImageIO module provides a bridge to the
>>>>>>> MINC file format, a powerful medical imaging format used by the MINC
>>>>>>> library, another open source library with many features similar to
>>>>>>> ITK. The new MINC module, which has Image IO and Transform IO
>>>>>>> capabilities, is considered experimental and must be enabled by
>>>>>>> turning Module_ITKIOMINC ON in CMake’s configuration. This will
>>>>>>> automatically build the MINC library, which is now available on Mac,
>>>>>>> Linux, and Windows. The HDF5-based MINC2 file format is supported,
>>>>>>> but support for the NetCDF-based MINC1 file format is not supported
>>>>>>> because NetCDF is not distributed with ITK.
>>>>>>>
>>>>>>> Another new ImageIO module that expands the reach of ITK is the
>>>>>>> SCIFIO
>>>>>>> module. SCIFIO is a refactoring of the Bio-Formats library. This
>>>>>>> module provides access to a wide range of file formats encountered in
>>>>>>> life sciences/microscopy environments. This experimental feature is
>>>>>>> available a Remote module; to enable it, set the Fetch_SCIFIO CMake
>>>>>>> variable to ON. Many improvements and fixes are ongoing for this
>>>>>>> module; Git master is recommended for those interested in this
>>>>>>> module.
>>>>>>>
>>>>>>> A number of improvements were also made to DCMTK ImageIO, but this
>>>>>>> module remains experimental on disabled by default. To try DCMTK
>>>>>>> ImageIO support, turn the CMake option Module_ITKIODCMTK ON. For
>>>>>>> Unix
>>>>>>> platforms, the supporting DCMTK library will automatically be built
>>>>>>> as
>>>>>>> a CMake ExternalProject. On Windows, the DCMTK library must be built
>>>>>>> independently of the ITK build system. Then, specify the location to
>>>>>>> the external build after setting the CMake option
>>>>>>> ITK_USE_SYSTEM_DCMTK
>>>>>>> ON.
>>>>>>>
>>>>>>> A number of performance improvements were made to QuadEdgeMesh
>>>>>>> processing and memory copy functions. A new ImageScanlineIterator is
>>>>>>> available. This iterator can be used in many of the cases where an
>>>>>>> ImageRegionIterator is applied, but it has better performance.
>>>>>>>
>>>>>>> The approach to split image regions for parallel processing is no
>>>>>>> longer hard coded to make multiple options available.
>>>>>>>
>>>>>>> An API design change was started to improve the implied functionality
>>>>>>> of the GetObject methods. The non-const “GetObjectMacro” has been
>>>>>>> replaced with a “GetModifiableObjectMacro” that will result in a
>>>>>>> GetModifiableXXX method instead of a GetXXX method. This makes the
>>>>>>> non-const nature of the method and the circumvention of pipeline
>>>>>>> update semantics explicit for both the code author and those reading
>>>>>>> the class API. This was implemented in a backwards compatible way,
>>>>>>> and it will only be enforced if ITK_FUTURE_LEGACY_REMOVE is defined.
>>>>>>>
>>>>>>> Support for the Google Double Conversion library was added to improve
>>>>>>> the reading and writing of double values as ASCII text with the
>>>>>>> intention to improve the precision of the text transform file
>>>>>>> format’s
>>>>>>> serialization.
>>>>>>>
>>>>>>> It is now easier to identify filter inputs by both a string name or
>>>>>>> an
>>>>>>> integer index. The internal methods to store and retrieve inputs by
>>>>>>> either string or index was correspondingly refactored, and
>>>>>>> performance
>>>>>>> was also improved.
>>>>>>>
>>>>>>> JPEG ImageIO now writes and reads image spacing in a manner similar
>>>>>>> to
>>>>>>> the TIFF ImageIO.
>>>>>>>
>>>>>>> An extensive amount of code cruft was removed and coding style was
>>>>>>> made more consistent; ITK gets more stylish and classy with every
>>>>>>> release!
>>>>>>>
>>>>>>> The ExternalData method to store large testing data outside of the
>>>>>>> Git
>>>>>>> repository is now in upstream CMake 2.8.11. Our internal version has
>>>>>>> been updated to the improved version in CMake.
>>>>>>>
>>>>>>> The minimum CMake required version was bumped to 2.8.8 on Windows and
>>>>>>> 2.8.5 otherwise. This may be increased even higher in the near
>>>>>>> future
>>>>>>> to ensure all CMake features utilized operate correctly.
>>>>>>>
>>>>>>> Known assertion failures occur when compiled under Visual Studio in
>>>>>>> the Debug configuration. This will be fixed in 4.4.1. If this has a
>>>>>>> significant negative impact on your work, please consider
>>>>>>> contributing
>>>>>>> a Nightly dashboard build under this configuration. As previously
>>>>>>> scheduled, Visual Studio 2005 is no longer be supported.
>>>>>>>
>>>>>>> Support for building against system third party libraries continues
>>>>>>> to
>>>>>>> improve. Further improvements are expected for version 4.5.
>>>>>>>
>>>>>>> All tests are now passing again on the Nightly big-endian dashboard
>>>>>>> system.
>>>>>>>
>>>>>>> InsightApplications (ITKApps) has seen fixes in the FLTK superbuild
>>>>>>> and the TCL wrapped applications.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> Changes in ITK from v4.3.0 to v4.4.0 from the Git log:
>>>>>>>
>>>>>>> Ali Ghayoor (7):
>>>>>>> ENH: Get the internal transforms of SyN registration filter
>>>>>>> COMP: Fix all valid cppcheck warnings in "Module/Filtering"
>>>>>>> directory
>>>>>>> COMP: Fix all valid cppcheck warnings in "Module/Core"
>>>>>>> directory
>>>>>>> COMP: Fix all valid cppcheck warnings in
>>>>>>> "Module/Segmentation" directory
>>>>>>> COMP: Fix all valid cppcheck warnings in
>>>>>>> "Module/Registration" directory
>>>>>>> COMP: Fix all valid cppcheck warnings in ITK (last patch)
>>>>>>> COMP: Fix all valid cppcheck warnings in "ITK/Module"
>>>>>>> directory
>>>>>>>
>>>>>>> Arnaud Gelas (4):
>>>>>>> PERF: improve performance of couple of methods of
>>>>>>> itk::QuadEdgeMesh
>>>>>>> PERF: couple of speed up improvements for QuadEdgeMesh
>>>>>>> processing
>>>>>>> PERF: avoid doing GetPoint and SetPoint for the same point
>>>>>>> ENH: Simplify template parameters in itk::PointsLocator
>>>>>>>
>>>>>>> Bill Lorensen (20):
>>>>>>> ENH: Prevent duplicate loading of dynamic libraries
>>>>>>> COMP: Fix compile error in PhilipsRECImageIO
>>>>>>> COMP: Fix compile error in PhilipsRECImageIO
>>>>>>> BUG: Memory leak after failed RegisterFactory
>>>>>>> BUG: Warn on directories
>>>>>>> ENH: Refactor DoubleToString into NumberToString
>>>>>>> DOC: Escape hash in comment
>>>>>>> STYLE: Apply kwstyle to Modules/Core tests
>>>>>>> STYLE: Apply kwstyle to Modules/Filtering tests
>>>>>>> STYLE: Apply kwstyle to Modules/Segmentation tests
>>>>>>> STYLE: Apply kwstyle to Modules/IO tests
>>>>>>> STYLE: Apply kwstyle to Modules/Numerics tests
>>>>>>> STYLE: Apply kwstyle to Modules/Registration tests
>>>>>>> STYLE: Apply kwstyle to some tests
>>>>>>> BUG: Memory leak after failed RegisterFactory
>>>>>>> COMP: Remove copy_n wrapper for standard std::copy
>>>>>>> COMP: Make the test stable by removing random source
>>>>>>> COMP: More baselines
>>>>>>> COMP: Another baseline
>>>>>>> COMP: Missing return error after exception
>>>>>>>
>>>>>>> Brad King (14):
>>>>>>> BUG: ExternalData: Do not match directory names when
>>>>>>> resolving DATA{}
>>>>>>> STYLE: ExternalData: Cleanup stray TODO and typo in comments
>>>>>>> STYLE: ExternalData: Remove unused private interface
>>>>>>> ENH: ExternalData: Improve series matching using an explicit
>>>>>>> syntax
>>>>>>> ENH: ExternalData: Allow ()-groups in series match regex
>>>>>>> ENH: ExternalData: Allow DATA{} syntax to reference
>>>>>>> directories
>>>>>>> ENH: Configure new ExternalData series parsing for ITK
>>>>>>> baselines
>>>>>>> BUG: ExternalData: Collapse ../ components in DATA{} paths
>>>>>>> BUG: Fix "git gerrit-push" for content links with spaces
>>>>>>> STYLE: Add detail to the vxl update instructions
>>>>>>> STYLE: Add more detail to the vxl update instructions
>>>>>>> ENH: ExternalData: Partly generalize hash algo/ext handling
>>>>>>> ENH: ExternalData: Attach download rules to content links in
>>>>>>> IDEs
>>>>>>> ENH: ExternalData: Preserve escaped semicolons during
>>>>>>> argument expansion
>>>>>>>
>>>>>>> Bradley Lowekamp (78):
>>>>>>> STYLE: Use ITK_ prefix for FFTW cmake variables and defines
>>>>>>> BUG: Change default boundary condition to ZeroFlux
>>>>>>> ENH: wrapping itkImageSeriesWriter
>>>>>>> BUG: incorrect CMake variable for system jpeg include
>>>>>>> DOC: Correct description of Bitwise binary filters
>>>>>>> BUG: incorrect CMake variable for system jpeg include
>>>>>>> COMP: GetTimeVaryingVelocityField methods did not compile
>>>>>>> ENH: Creating templateless region splitter classes
>>>>>>> ENH: Adding image region splitter for separable filtering
>>>>>>> PERF: Do not spawn threads that will not be used.
>>>>>>> ENH: ImageIO's now use ImageRegionSplitter base
>>>>>>> COMP: Specify export for Specialized Array output operators
>>>>>>> ENH: making old ImageRegionSplitter compatible with new
>>>>>>> splitter
>>>>>>> BUG: initials Direction IVAR
>>>>>>> STYLE: never a space before;
>>>>>>> COMP: Address unused parameter warning in GPU code
>>>>>>> BUG: Do not create static initialized ITK objects
>>>>>>> ENH: Converted Multidimensional splitter to new base class
>>>>>>> ENH: moving old ImageRegionSplitter to Deprecated Module
>>>>>>> BUG: Only thread 0 should report progress.
>>>>>>> PERF: Use std::fill for image filling
>>>>>>> BUG: Only thread 0 should report progress in LabelMapFilters
>>>>>>> COMP: Adding missing header
>>>>>>> BUG: Using CMake variable in external builds with autoconf
>>>>>>> environment
>>>>>>> BUG: initialize InverseCovariance size with degenerate matrix
>>>>>>> ENH: Adding numeric_traits specializations for "long long"
>>>>>>> ENH: instantiate vnl types with "long long" on all platforms
>>>>>>> Revert "ENH: Use named inputs in BinaryReconstruction
>>>>>>> filters."
>>>>>>> BUG: initialize InverseCovariance size with degenerate matrix
>>>>>>> BUG: Using CMake variable in external builds with autoconf
>>>>>>> environment
>>>>>>> COMP: Address unused parameter warning in GPU code
>>>>>>> BUG: Only thread 0 should report progress in LabelMapFilters
>>>>>>> BUG: Only thread 0 should report progress.
>>>>>>> COMP: Adding missing header
>>>>>>> ENH: Adding support for instantiating long long pixel types
>>>>>>> BUG: VerifyPreconditions checks required named inputs
>>>>>>> PERF: Adding performance oriented ScanlineIterator
>>>>>>> COMP: Remove copy_n wrapper for standard std::copy
>>>>>>> COMP: Missing ProgressReporter header
>>>>>>> COMP: Suppress linker warning from fftw external project
>>>>>>> COMP: Add missing ImageRegionIterator header in test
>>>>>>> BUG: Don't allocate empty names in Get I/O Names methods
>>>>>>> COMP: Make GPUFunctorBase destructor virtual
>>>>>>> PERF: Changing filters to use ImageScanlineInterator
>>>>>>> COMP: GCC_XML external project does not use BUILD_EXAMPLES
>>>>>>> BUG: Scanline iterator in STAPLE filter not advanced to next
>>>>>>> line
>>>>>>> PERF: Use ImageScanlineIterator in ImageAlgorithm::Copy
>>>>>>> PERF: Use iterators into name map for index inputs
>>>>>>> ENH: index can be associated with required input
>>>>>>> PERF: Add global variable of index names in ProcessObject
>>>>>>> COMP: fix unused result warning in ProcessObject
>>>>>>> ENH: Remove names inputs specialized comparison
>>>>>>> DOC: Updated input methods doxygen
>>>>>>> PERF: Use ImageAlgorithm::Copy in JoinSeries filter
>>>>>>> PERF: Change default index i/o prefix to just "_"
>>>>>>> PERF: Use ImageAlgorithm::Copy in CastImageFilter
>>>>>>> COMP: Fix failing implicit conversion from NULL
>>>>>>> BUG: restore gnu aligned attribute
>>>>>>> PERF: ImageAlgorithm::copy to use std::copy for conversion
>>>>>>> PERF: Store indexed outputs in array for constant time access
>>>>>>> COMP: GCC_XML compilation error with type_traits
>>>>>>> BUG: Add unsigned int concept check to LabelVoting filter
>>>>>>> COMP: Disable conversion warning for std::copy in
>>>>>>> ImageAlgorithm
>>>>>>> BUG: Use correct types for TIFF Tags and buff math
>>>>>>> BUG: Use local var for TIFF va_list parameter
>>>>>>> BUG: Use correct bytes for BigEndian magic number
>>>>>>> COMP: Fix int to char narrowing error and warning
>>>>>>> COMP: Fix int to char narrowing error and warning
>>>>>>> COMP: Fix scanf conversion specification to %u
>>>>>>> COMP: Fix scanf conversion specification for id types
>>>>>>> BUG: Remove extraneous print statement in tiffio
>>>>>>> BUG: Incorrect va_arg type used in TIFF and LSM
>>>>>>> BUG: JPEG2000 bool type in C is now unsigned char
>>>>>>> BUG: add a test to demonstrate ThreadedIteratorPartitioner
>>>>>>> bug
>>>>>>> BUG: Fix written other magic number in FreeSurferBinaryMeshIO
>>>>>>> COMP: Fix assert in LSM, = in err of ==
>>>>>>> BUG: IteratorPartitioner extra thread don't advance
>>>>>>> BUG: C++ bool is 4 bytes on osx ppc
>>>>>>>
>>>>>>> Brian Helba (11):
>>>>>>> STYLE: Ensure documentation \author tags are parsed
>>>>>>> STYLE: Remove unnecessary overloads in favor of implicit
>>>>>>> conversion
>>>>>>> PERF: Replace deep copy with const const signature
>>>>>>> ENH: Re-enable LoadPrivateTags option in GDCMImageIO
>>>>>>> STYLE: Slightly refactor ImageFileWriter::Write to simplify
>>>>>>> logic
>>>>>>> ENH: Always enable Get*FromTag methods in GDCMImageIO
>>>>>>> DOC: Fix misspelling in MorphologyImageFilter
>>>>>>> DOC: Fix misspelling in ObjectMorphologyImageFilter
>>>>>>> STYLE: Remove unnecessary function call in GDCMImageIO
>>>>>>> STYLE: Remove calls to deprecated functionality from DICOM
>>>>>>> Examples / Tests
>>>>>>> ENH: Allow Get*FromTag to accept uppercase hex
>>>>>>>
>>>>>>> Cory Quammen (1):
>>>>>>> COMP: Bumped up minimum required CMake version
>>>>>>>
>>>>>>> Cyrille Faucheux (2):
>>>>>>> ENH: allow the ClampImageFilter to use user-defined bounds
>>>>>>> (#3016).
>>>>>>> ENH: Move the ClampImageFilter to the ImageIntensity module
>>>>>>> (#3016).
>>>>>>>
>>>>>>> David Cole (4):
>>>>>>> BUG: Avoid using def file when BUILD_SHARED_LIBS is off
>>>>>>> BUG: Do not undefine _WIN32_WINNT
>>>>>>> BUG: Avoid using def file when BUILD_SHARED_LIBS is off
>>>>>>> BUG: Do not undefine _WIN32_WINNT
>>>>>>>
>>>>>>> David Fuentes (2):
>>>>>>> ENH: Allow block matching on diff size images
>>>>>>> ENH: wrapping itkMaskFeaturePointSelectionFilter
>>>>>>> itkBlockMatchingImageFilter
>>>>>>>
>>>>>>> Dirk Padfield (6):
>>>>>>> BUG: CSVFileReader was reading all values as NaN
>>>>>>> DOC: Made AnisotropicDiffusion documentation consistent with
>>>>>>> code
>>>>>>> ENH: Enable MetaIO to read filenames with spaces using regex
>>>>>>> BUG: CSVFileReader was reading all values as NaN
>>>>>>> ENH: Added m_RequiredFractionOfOverlappingPixels to
>>>>>>> MaskedFFTNCC
>>>>>>> BUG: SignedMaurerDistanceMap in 4D
>>>>>>>
>>>>>>> Google double-conversion Maintainers (1):
>>>>>>> Google double-conversion (reduced)
>>>>>>>
>>>>>>> Hans Johnson (21):
>>>>>>> COMP: Remove unnecessary BORLAND code
>>>>>>> COMP: Make type conversions explicit/consistent
>>>>>>> PERF: Optimize loop index computations
>>>>>>> COMP: Remove unnecessary BORLAND code
>>>>>>> COMP: Incomplete variable name change.
>>>>>>> COMP: Incorrect warning presented for cppcheck
>>>>>>> STYLE: The FFTW libs should be co-located with ITK
>>>>>>> COMP: Fix robustness of DCMTK internal builds
>>>>>>> ENH: Get function accessible from const objects
>>>>>>> COMP: Missing patch for ITK_FUTURE_LEGACY_REMOVE
>>>>>>> STYLE: Reduce redundant code identified by cpd
>>>>>>> BUG: Return a modifiable object or provide const
>>>>>>> STYLE: Improve SoftwareGuide documentation
>>>>>>> COMP: Type mis-match for comparison operator
>>>>>>> STYLE: Enforce using ITK macros when available
>>>>>>> COMP: Type mis-match for comparison operator
>>>>>>> BUG: ITK_FUTURE_LEGACY_REMOVE must cmake configured
>>>>>>> BUG: Expose BSplineInterpolateImageFunction test
>>>>>>> COMP: Linkage ITK_ABI_EXPORT to ITKCommon_EXPORT
>>>>>>> BUG: itk_tiff.h should not be in itkTIFFImageIO.h
>>>>>>> DOC: Fix line length issues for the SoftwareGuide
>>>>>>>
>>>>>>> Ho Cheung (7):
>>>>>>> BUG: GradientVectorFlow should calculate timestep based on
>>>>>>> image dimension
>>>>>>> STYLE: GradientVectorFlow - Add const correctness
>>>>>>> STYLE: GradientVectorFlow
>>>>>>> PERF: GradientVectorFlow - Remove redundant initializations
>>>>>>> BUG: itkPolyLineParametricPath infinite loop for degenerate
>>>>>>> paths
>>>>>>> BUG: Fix ITK Path test failures
>>>>>>> BUG: ITK unable to detect number of threads under Unix in
>>>>>>> recent glibc.
>>>>>>>
>>>>>>> ITK Migration V4 (4):
>>>>>>> DOC: Modify ContourMeanDistanceImageFilter comments.
>>>>>>> DOC: Modify MattesMutualInformationImageToImageMetric
>>>>>>> comments.
>>>>>>> DOC: Modify MaskImageFilter comments.
>>>>>>> DOC: Modify BSplineTransformInitializer comments.
>>>>>>>
>>>>>>> Jan Margeta (1):
>>>>>>> COMP: Added missing header <functional> in
>>>>>>> itkAnchorCloseImageFilter.h
>>>>>>>
>>>>>>> Julien Finet (2):
>>>>>>> ENH: Add unit test to itkThresholdImageFilterTest
>>>>>>> ENH: Add MaskingValue to MaskImageFilter
>>>>>>>
>>>>>>> Julien Malik (2):
>>>>>>> BUG: Remove itkLoad definition in JPEG2000ImageIOFactory
>>>>>>> ENH: Add missing NumericTraits for complex
>>>>>>>
>>>>>>> Julien Michel (2):
>>>>>>> BUG: Fix InverseDisplacementFieldImageFilter bug
>>>>>>> BUG: Fix InverseDisplacementFieldImageFilter bug
>>>>>>>
>>>>>>> Kent Williams (21):
>>>>>>> COMP: Turn on -fpic in options for DCMTK External Project
>>>>>>> BUG: using InputPixelType to hold label count can overflow.
>>>>>>> COMP: Update DCMTK version to incorporate new fixes.
>>>>>>> COMP: Use portable method to find source dir & find DCMTK
>>>>>>> headers
>>>>>>> COMP: Start using ITKConsortium github to retrieve DCMTK.
>>>>>>> BUG: Regressions with respect to building DCMTK
>>>>>>> COMP: Added patch from Dirk Padfield
>>>>>>> ENH: use find_package(DCMTK NO_MODULE)
>>>>>>> ENH: Add double-conversion library for precise Float output
>>>>>>> COMP: replace in-line access methods with itk Macros
>>>>>>> COMP: The install path for DoubleConversion lib was wrong.
>>>>>>> COMP: removed warnings on Windows due to generic vs excp obj
>>>>>>> throw.
>>>>>>> COMP: check for this == &rhs as much as possible.
>>>>>>> COMP: Replace memcpy with std::copy in ImportImageContainer.
>>>>>>> COMP: Replace memcpy calls with std::copy
>>>>>>> COMP: Further changes to the use of std::copy_n
>>>>>>> COMP: Add preprocessor symbols to double-conversion for OS X
>>>>>>> PPC
>>>>>>> COMP: Add DoubleConversion merge from upstream documentation
>>>>>>> BUG: Return of NaN by
>>>>>>> DiffusionTensor3D::GetFractionalAnisotropy
>>>>>>> BUG: Dicom method for Dir Cosines made non-orthogonal
>>>>>>> directions
>>>>>>> COMP: Install openjpgDllConfig.h
>>>>>>>
>>>>>>> Kris Zygmunt (1):
>>>>>>> PERF: Provide better default config for patch-based denoiser
>>>>>>>
>>>>>>> Luis Ibanez (1):
>>>>>>> ENH: Maurer for Danielsson in Surface Distance.
>>>>>>>
>>>>>>> Manuel Grizonnet (4):
>>>>>>> BUG: Inconsistency detected by ld.so due to static const
>>>>>>> string
>>>>>>> BUG: Inconsistency detected by ld.so due to static const
>>>>>>> string
>>>>>>> BUG: Inconsistency detected by ld.so due to static const
>>>>>>> string
>>>>>>> BUG: Inconsistency detected by ld.so due to static const
>>>>>>> string
>>>>>>>
>>>>>>> Marco Feuerstein (1):
>>>>>>> ENH: JPEG IO now writes and reads spacing, similar to the
>>>>>>> TIFF IO (ITK-3023)
>>>>>>>
>>>>>>> Marius Staring (3):
>>>>>>> ENH: expose parameter in Bilateral filter
>>>>>>> PERF: Replace fill and copy with std alternatives
>>>>>>> BUG: B-spline interpolator should use direction
>>>>>>>
>>>>>>> Mark Hiner (1):
>>>>>>> ENH: Add SCIFIOImageIO.
>>>>>>>
>>>>>>> Matthew McCormick (47):
>>>>>>> COMP: Fix wrapping configuration warnings about itkMeshBase,
>>>>>>> etc.
>>>>>>> COMP: Fix HDF5 unused function for long long on Unix.
>>>>>>> ENH: Bump CMake version numbers to 4.4.0.
>>>>>>> BUG: Remove unused metric test content link.
>>>>>>> COMP: Add DLL to PATH for Python tests on Visual Studio.
>>>>>>> BUG: Do not nullify the DCMTK ExternalProject UPDATE_COMMAND.
>>>>>>> BUG: Fix DCMTK lib_prefix identification.
>>>>>>> COMP: Fix HDF5 unused function for long long on Unix.
>>>>>>> BUG: Remove unused metric test content link.
>>>>>>> COMP: Add DLL to PATH for Python tests on Visual Studio.
>>>>>>> ENH: Bump CMakeLists.txt ITK version to 4.3.1.
>>>>>>> STYLE: Fix errors detected by KWStyleCodeTest.
>>>>>>> COMP: VectorIndexSelectionCastImageFilter extra itk
>>>>>>> namespace.
>>>>>>> STYLE: Fix alignment in itkMask{Image,Negated}ImageFilter.h
>>>>>>> ENH: Doxygen configuration update to 1.8.3.1.
>>>>>>> BUG: Fix FFTW install paths in ITKConfig.cmake (ITK-2995).
>>>>>>> DOC: Doxygen detection of DirectionTolerance as private.
>>>>>>> ENH: Get Direction and CoordinateTolerance are const methods.
>>>>>>> BUG: Add missing header to the third party TIFF install.
>>>>>>> COMP: More fixes to mesh wrapping warnings.
>>>>>>> BUG: Temporarily disable Python utility tests.
>>>>>>> COMP: Avoid explicit instantiation and specialization for
>>>>>>> Array.
>>>>>>> ENH: Add utility script to create JRE tarballs.
>>>>>>> ENH: Use named inputs in BinaryReconstruction filters.
>>>>>>> STYLE: Remove redundant itk namespace.
>>>>>>> DOC: CreateTestDriver srcs should have the .cxx extension.
>>>>>>> COMP: Must reinterpret the pointers to match
>>>>>>> COMP: Fix project linking against ITK that does not use
>>>>>>> VtkGlue.
>>>>>>> COMP: Fix project linking against ITK that does not use
>>>>>>> VtkGlue.
>>>>>>> BUG: Fix FFTW install paths in ITKConfig.cmake (ITK-2995).
>>>>>>> ENH: Bump version in CMakeLists.txt to 4.3.2.
>>>>>>> DOC: Doxygen expansion of itkGetModifiableObjectMacro.
>>>>>>> ENH: Remove unused wrapping code. ITK-3032.
>>>>>>> ENH: Use named inputs in BinaryReconstruction filters.
>>>>>>> COMP: Distance maps filters cannot wrap 1D.
>>>>>>> DOC: Remove reference to MeanDistanceImageFilter.
>>>>>>> STYLE: Fix KWStyle errors.
>>>>>>> STYLE: Remove entries from the old MINC2ImageIO.
>>>>>>> BUG: Remove MINCIO from the default registered modules.
>>>>>>> BUG: Add EXCLUDE_FROM_ALL to ThirdParty/MINC.
>>>>>>> BUG: Include SCIFIO in the auto-registered factories if the
>>>>>>> module
>>>>>>> is enabled.
>>>>>>> BUG: Visual Studio itkClampImageFilterTest failures.
>>>>>>> STYLE: itkClampImageFilter.hxx in the wrong module.
>>>>>>> COMP: Add _CRT_NO_SECURE_WARNINGS when building GCCXML.
>>>>>>> COMP: Prevent ITK_USE_64BITS_IDS with Wrapping on Windows.
>>>>>>> STYLE: Too many blank lines in itkCastImageFilterTest.cxx.
>>>>>>> COMP: Bump MINC third party to fix warnings.
>>>>>>>
>>>>>>> Nick Tustison (4):
>>>>>>> ENH: Adding masking capabilities with confidence mask
>>>>>>> option.
>>>>>>> BUG: Masks need to be warped.
>>>>>>> ENH: Permitting access to shrinking per dimension.
>>>>>>> BUG: Valgrind error.
>>>>>>>
>>>>>>> Nicolas Rey (1):
>>>>>>> STYLE: Minor style fixes
>>>>>>>
>>>>>>> Paul Novotny (3):
>>>>>>> COMP: Fix TIFF on big endian systems
>>>>>>> COMP: Build fails with ITK_USE_SYSTEM_TIFF
>>>>>>> COMP: Fix TIFF on big endian systems
>>>>>>>
>>>>>>> Prathamesh Kulkarni (1):
>>>>>>> COMP: QuickViewTest new baseline.
>>>>>>>
>>>>>>> Sean McBride (4):
>>>>>>> STYLE: fixed minor spelling: XCode -> Xcode
>>>>>>> COMP: fixed clang warning about NULL to bool conversion
>>>>>>> BUG: Handle missing Analyze 7.5 flipped directions
>>>>>>> COMP: Handle missing Analyze 7.5 flipped directions
>>>>>>>
>>>>>>> Tim Allman (3):
>>>>>>> DOC: Modify BSplineTransform comments.
>>>>>>> DOC: Modify
>>>>>>> JointHistogramMutualInformationImageToImageMetricv4 comments.
>>>>>>> DOC: Modify
>>>>>>> JointHistogramMutualInformationImageToImageMetricv4 comments.
>>>>>>>
>>>>>>> Tom Vercauteren (2):
>>>>>>> COMP: GPUPDEDeformableRegistrationFilter.cl fails to
>>>>>>> "compile".
>>>>>>> COMP: GPUPDEDeformableRegistrationFilter.cl fails to
>>>>>>> "compile".
>>>>>>>
>>>>>>> Vladimir S. FONOV (2):
>>>>>>> ENH: Adding libminc and updating MINC IO support.
>>>>>>> BUG: Making 2D Minc IO work properly
>>>>>>>
>>>>>>> Xiaoxiao Liu (2):
>>>>>>> ENH: Sync python scripts with python3.
>>>>>>> ENH: Sync python scripts with python3.
>>>>>>>
>>>>>>> Yan Xu (1):
>>>>>>> COMP: static cast unsigned int to int
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> Changes in ITKapps from v4.3.0-apps to v4.4.0-apps:
>>>>>>>
>>>>>>> Bill Lorensen (3):
>>>>>>> COMP: VTK6 API change
>>>>>>> ENH: Add TCL Wrapped examples
>>>>>>> BUG: Missing includes for ITK4.4
>>>>>>>
>>>>>>> Hans Johnson (1):
>>>>>>> COMP: Mac 10.8 fixes were incorporated in FLTK
>>>>>>>
>>>>>>> Jamie Snape (1):
>>>>>>> BUG: Propagate build, linker, and OSX settings to external
>>>>>>> projects
>>>>>>>
>>>>>>> Matt McCormick (6):
>>>>>>> COMP: Re-add the FLTK patch for some Macs.
>>>>>>> BUG: ITK External build only depends on VTK if being built.
>>>>>>> COMP: Update FLTK SVN configuration.
>>>>>>> ENH: Bump VTK ExternalProject to 5.10.1.
>>>>>>> COMP: Use FLTK zip file stored on Midas3.
>>>>>>> ENH: Bump ITK superbuild version to 4.4.0.
>>>>>>>
>>>>>>> Roland Kwitt (1):
>>>>>>> COMP: Shadowing warning in GLSliceView.h
>>>>>>>
>>>>>>> Stephen R. Aylward (1):
>>>>>>> COMP: Fix FLTK build error on Mac/Clang.
>>>>>>>
>>>>>>> Xiaoxiao Liu (1):
>>>>>>> ENH: Print out accurate image IO error message.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> Changes from v4.3.0 to v4.4.0 from the Jira Issue tracker:
>>>>>>>
>>>>>>> [ITK-3002] - Make itkGetObjectMacro issue compile time warnings
>>>>>>> [ITK-3003] - Add itkGetObjectMacro to the ITK_LEGACY_REMOVE option
>>>>>>> [ITK-3085] - itkBSplineExponentialImageRegistrationTest Timeout on
>>>>>>> RogueResearch11
>>>>>>> [ITK-3086] - QuickViewTest test failure on farsight-mint
>>>>>>> [ITK-3087] - itkLargeMetaImageWriteReadTest4 test failure on
>>>>>>> dash5win7x64.kitware
>>>>>>> [ITK-3088] - itkClampImageFilterTest test failure on lhcp-win7vm2.nlm
>>>>>>> Win32-VS9-Release-Shared VS10-Release-Shared
>>>>>>> [ITK-3089] - itkLSMImageIOTest on eldorado.kitware
>>>>>>> Ubuntu-g++-4.6.2-Debug
>>>>>>> [ITK-3090] - itkTimeVaryingVelocityFieldImageRegistrationTest test
>>>>>>> failure on eldorado.kitware Ubuntu-g++-4.6.2-Debug
>>>>>>> [ITK-3091] - itkLSMImageIOTest test failure on RogueResearch9,
>>>>>>> Mac10.6-gcc-rel-x86_64-static
>>>>>>> [ITK-3093] - itkTIFFImageIOSpacing test failure on mini0.nlm,
>>>>>>> MacOSX-cross-rosetta
>>>>>>> [ITK-3094] - itkMeshFileReadWriteTest04 test failure on mini0.nlm,
>>>>>>> MacOSX-cross-rosetta
>>>>>>> [ITK-3095] - itkMeshFileReadWriteTest02 test failure on mini0.nlm,
>>>>>>> MacOSX-cross-rosetta
>>>>>>> [ITK-3096] - itkDiscreteGaussianImageFilterTest2 test failure on
>>>>>>> mini0.nlm, MacOSX-cross-rosetta
>>>>>>>
>>>>>>> Bug
>>>>>>> [ITK-2889] - Bug in BSplineInterpolateImageFunction ?
>>>>>>> [ITK-2919] - Build with JOM fails to properly generate
>>>>>>> ITKTargets.cmake
>>>>>>> [ITK-2943] - Add migration guide related to "itkTestMain.h"
>>>>>>> [ITK-2975] - itk::CastImageFilter creates bad output
>>>>>>> [ITK-2978] - ImageSeriesFileReader MetaDataDictionary Array
>>>>>>> Incorrectly Handles Missing Fields
>>>>>>> [ITK-2983] - ITKVtkGlue not adding VTK_LIBRARIES
>>>>>>> [ITK-2988] - tiff name pollution
>>>>>>> [ITK-2989] - A factor of 1/standard_deviation is missing from the
>>>>>>> kernel pdf estimator in MutualInformationImageToImageMetric
>>>>>>> [ITK-2992] - tif_config.h is not install
>>>>>>> [ITK-2995] - Install tree ITKConfig.cmake is wrong for FFTW
>>>>>>> [ITK-3004] - Direction cosine matrix generated using the images DICOM
>>>>>>> tag "image orientation (patient)" or (0020,0037) is not necessarilly
>>>>>>> orthogonal
>>>>>>> [ITK-3009] - itk::InverseDisplacementFieldImageFilter does not work
>>>>>>> properly
>>>>>>> [ITK-3011] - Maurer for Danielsson in Surface Distance
>>>>>>> [ITK-3012] - ld error on exit when using itkBinaryErodeImageFilter
>>>>>>> and
>>>>>>> itkBinaryDilateImageFilter
>>>>>>> [ITK-3015] - Modules/IO/PhillipsREC/src/itkPhilipsPar.cxx contains
>>>>>>> nonsense code
>>>>>>> [ITK-3017] - ITK_ABI_EXPORT is used directly when ITKCommon_EXPORT
>>>>>>> should be used
>>>>>>> [ITK-3020] - ImageRegistration2D bug
>>>>>>> [ITK-3021] - itk::ImportImageContainer use of memcpy seen as harmful
>>>>>>> [ITK-3028] - BUG: B-spline interpolator should use direction
>>>>>>> [ITK-3064] - BSplineDeformableTransform writes out a warning every
>>>>>>> time a point in an image is transformed, causes memory allocation
>>>>>>> errors
>>>>>>> [ITK-3065] - TestImportImageContainer cannot handle memory
>>>>>>> reallocation
>>>>>>> [ITK-3066] - BSplineDeformableTransform::InsideValidRegion icm with
>>>>>>> even spline orders and
>>>>>>> ITK_USE_CENTERED_PIXEL_COORDINATES_CONSISTENTLY
>>>>>>> [ITK-3068] - Cannot resample a VectorImage
>>>>>>> [ITK-3069] - itkMersenneTwisterRandomVariateGenerator is not thread
>>>>>>> safe
>>>>>>> [ITK-3070] - IPLCommonImageIO fails to read GE Signa CT file series.
>>>>>>> [ITK-3071] - PolyLineParametricPath converges too slow
>>>>>>> [ITK-3072] - itkTransforms could supply a spatial Jacobian.
>>>>>>> [ITK-3083] - Clean Dashboard for 4.4 release
>>>>>>> [ITK-3118] - inconsistent behavior of all filters derived from
>>>>>>> itk::BinaryFunctorImageFilter
>>>>>>>
>>>>>>> Improvement
>>>>>>> [ITK-2896] - Add missing NumericTraits for complex
>>>>>>> [ITK-2940] - MaskedFFTNormalizedCorrelationImageFilter should be
>>>>>>> templated on MaskType
>>>>>>> [ITK-2964] - CMake warnings about "Perhaps should you turn on more
>>>>>>> WRAP_* options" not helpful.
>>>>>>> [ITK-2977] - itkMatrix sometimes requires extra VNL includes, leading
>>>>>>> to confusing linker errors
>>>>>>> [ITK-2980] - STYLE: Make FEM Get/Set codes use itkMacros wherever
>>>>>>> possible
>>>>>>> [ITK-2993] - Add Masking value to MaskImageFilter
>>>>>>> [ITK-2996] - Improve speed bilateral filter
>>>>>>> (itk::BilateralImageFilter)
>>>>>>> [ITK-3001] - itkGetObjectMacro pervasively hides the
>>>>>>> itkGetConstObjectMacro
>>>>>>> [ITK-3008] - Apply cppcheck to ITK
>>>>>>> [ITK-3016] - Allow the ClampImageFilter to use user-defined bounds
>>>>>>> [ITK-3073] - Const Correctness Warning
>>>>>>>
>>>>>>> New Feature
>>>>>>> [ITK-2985] - Get the internal transforms of the
>>>>>>> itkSyNImageRegistrationMethod
>>>>>>> [ITK-3005] - Add ITK icon to ITK wiki, doc and examples
>>>>>>> Task
>>>>>>> [ITK-2560] - Remove ITK_TEMPLATE_TXX
>>>>>>> [ITK-2979] - Fix doxygen documentation
>>>>>>> [ITK-3032] - Duplicate Source Code Versions of
>>>>>>> itkImagetoVTKImageFilter
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> Enjoy ITK!
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://www.itk.org/mailman/listinfo/insight-users
>>>>>>>
>>>>>>
>>>>>>
>>>>>> _____________________________________
>>>>>> Powered by www.kitware.com
>>>>>>
>>>>>> Visit other Kitware open-source projects at
>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>
>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>
>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>
>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>> http://www.itk.org/mailman/listinfo/insight-users
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Unpaid intern in BillsBasement at noware dot com
>>>>>
>>>>
>>>>
>>>
>>>
>>> --
>>> Unpaid intern in BillsBasement at noware dot com
>>>
>>
>>
>
>
> --
> Unpaid intern in BillsBasement at noware dot com
>
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