ENH: Update ITKv4 and BRAINSTools

The commit BRAINSia/BRAINSTools@7311363 related to the re-organization of
the "find_package(VTK)" call has not been included, this will be done
when Slicer itself will be re-organized.

// -----------------
ITK changes:

$ git shortlog v4.6.0...3147239 --no-merges
Bradley Lowekamp (4):
      ENH: Adding License file from upstream MetaIO
      ENH: Adding script to update MetaIO from upstream
      ENH: Remove ITK MetaIO to prepare for upstream import
      COMP: Fix variable type for Set/Get macros

David T. Chen (1):
      DOC: Fixed HistogramThresholdImageFitler

Gert Wollny (1):
      COMP: Fix SSE2 build errors with WrapITK on GCC 4.9. (ForRelease)

Hans Johnson (3):
      COMP: Add tolerance for comparing floating point
      PERF: Remove non-threadable algorithm components
      PERF: Remove large foot print of PDF derivatives.

Matthew McCormick (13):
      BUG: ArchiveTestingData.py future imports must occur at the beginning.
      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.
      BUG: Bump GCCXML to 2014-08-06.
      BUG: Fix invalid assignment of second VoronoiBoundaryOrigin.
      BUG: Call clear instead of empty on PatchBasedDenoising EmptyCaches().
      BUG: Fix Size() in ImageToListSampleAdaptor for VectorImage's.

MetaIO Maintainers (1):
      MetaIO (reduced)

Michka Popoff (4):
      BUG: Improve SWIG version check
      BUG: Add VTK_VERSION for older VTK versions
      BUG: Update VTK minimum version (for release)
      BUG: Fix memory leak in MetaImageIO after exception


// -----------------
BRAINSTools changes:

$ git shortlog slicer-e5c9c8c_2014-07-29...slicer-57c31ab_2014-08-08 --no-merges
Ali Ghayoor (2):
      BUG: Fix cmake bug and replace a test baseline
      BUG: Fix ValidateBRAINSResampleTest4 by increasing tolearance

David Welch (9):
      WIP: Initial testing with one session/subject
      WIP: Run one session/subject successfully
      ENH: Refactored workflow with new config variable and singleSession.py executable
      STYLE: Updated configuration template file
      BUG: singleSession.py can now be called as an executable w/o modifying PYTHONPATH     BUG: Fixed --session flag to take in one or more session IDs
      BUG: Fixing the template running stage.
      STYLE: Remove python warning and reorganize imports
      STYLE: Removed master_config dictionary in favor of descriptive dictionary names
      ENH: Fixed command line for singleSession and template     STYLE: Moved imports in template to top of file     BUG: Fixed DataGrabber for template workflow     BUG: Fixed session checking in singleSe

Hans Johnson (27):
      ENH: Utilize new mattes with improved threading
      BUG: Fixed bugs in singleSession
      COMP: Address dependencies on tests.
      BUG: Incomplete refactorings done for Autoworkup
      ENH: Add convience alias for pushing changes.
      ENH: Allow XML files to have relative paths to images
      COMP: Add warning suppressions for OpenCV.
      COMP: Add second suppression for OpenCV.
      BUG: Missed brainmask read read wrapping
      ENH: Refactoring template.py for consistent data sinks.
      ENH: More changes to get atlas generation cleaned up.
      BUG: Incorrect file was used for selecting the brain mask.
      STYLE: Remove unnecessary code.
      BUG: Data grabber changes required dictionary changes
      BUG: The master atlas should be specified from config file
      STYLE: Remove global code from __init__.py
      BUG: Command line wfrun argument was not being respected
      STYLE: Remove unnecessary checking
      BUG: The logitudinal processing could not occur previously
      ENH: Add separate config variables specific to each workphase
      BUG: Premature return from loop
      ENH: Updated to latest ITK+Gerrit Mattes patch
      ENH: Update to latest version of ANTS.
      COMP: Erroneous closing ')'
      ENH: Remove outdated and non-functioning md5 files.
      ENH: Added Sentinal output file checking for Workflows
      STYLE: Only give debugging information when requested

Jean-Christophe Fillion-Robin (2):
      COMP: Move ITK find_package calls into each sub-project.
      COMP: Fixes tests by explicitly specifying list of ITK IO components

Kent Williams (15):
      COMP: get rid of ITKv3 Compatibility ifdefs
      COMP: Sync with NAMICExternalProjects
      COMP: fix teem build and ITK->VTK dependency
      BUG: don't extend composite transform filenames needlessly.there was some deficient logic that was changing the filename of composit transforms to force them to hdf5 format, even if the filename give
      BUG: don't extend composite transform filenames needlessly.there was some deficient logic that was changing the filename of composit transforms to force them to hdf5 format, even if the filename give
      COMP: update teem tag
      COMP: Make FSLToNrrd synthesize bval/bvec filenames if none are given.
      COMP: Move find_package(ITK) into a macro
      COMP: tune module list
      COMP: streamlined FindITKUtil commands
      COMP: cleaned up CMakeLists.txt with respect to FindITKUtil
      COMP: slight changes to address compiler errors in BRAINSSurfaceTools
      COMP: iccdef changes to work with ITKv4
      COMP: add new parameter for FSLToNrrd conversion
      COMP: reorganize path processing

git-svn-id: http://svn.slicer.org/Slicer4/trunk@23571 3bd1e089-480b-0410-8dfb-8563597acbee