BUG: TestingExtractSliceImageFilterTest v3 direction strategy.

The DirectionCollapseToStrategy is different with v3 compatibility on per
the constructor.

Change-Id: I929f1a64d95958e0c280a3290ef6169dd519714e
STYLE: Remove duplicated TestingExtractSliceImageFilter doxygen.

Change-Id: I3f2b6c296032bb2b21da275e5bc85b5003c600a8
DOC: Improved comments and reorganized code for IsolatedConnected

Added documentation to the AddSeed1() and AddSeed2() methods.
Updated the deprecated SetSeed1() and SetSeed2() method documentation
to point to these instead of to AddSeed(), which does not exist.  Also
reorganized the code to emphasize these Add methods.
Wrapped the deprecated SetSeed1(), SetSeed2(), SetUpperValueLimit(),
and GetUpperValueLimit() methods in
ITK_FUTURE_LEGACY_REMOVE preprocessor directives.
Updated the IsolatedConnected test to wrap calls to SetSeed1(),
SetSeed2(), SetUpperValueLimit(), and GetUpperValueLimit() with
ITK_FUTURE_LEGACY_REMOVE preprocessor directives.
IsolatedConnected example also updated to avoid use of deprecated
methods.

Change-Id: Icf934b3eb9273d4b334a48b268784c32f1c6d806
ENH: New test for itkLogSigmoidTransferFunction

New test for the itk::Statistics::LogSigmoidTransferFunction class.
Compiles fine under VS2010 (64 bit), Windows 7.

Change-Id: I45120122546c3d5f39bfe9a3fa68f03e7264dce1
COMP: Update AnalyzeObjectMapIO replacing deprecated

The Begin() iterators were replaced with GoToBegin() for
future ITKv4 compliance.

Change-Id: I74a86eeaa721b16775b1ab3bc3d2798e778130fd
DOC: Fixed documentation regarding multi-threading

Multithreading was fixed in 2011 in preparation for
using MI for BRAINSTools testing and for inclusion into
Slicer.  It was fixed in patch set f542d0c75848ccb8bf35130a896da2fdb1a10d2c,
but the comment was overlooked.

Change-Id: I7cb2648159a7abfc75f14953c821e499ba26d5f1
Merge topic 'RemoveOutdatedComment'

3991bae5 DOC: Fixed documentation regarding multi-threading
Merge topic 'UpdateAnalyzeObjectIO'

4d3b91ff COMP: Update AnalyzeObjectMapIO replacing deprecated
Merge topic 'LogSigmoidTransferFunctionTestBranch'

4c20fa85 ENH: New test for itkLogSigmoidTransferFunction
Merge topic 'IsolatedConnectedSeedDocumentation'

e142b842 DOC: Improved comments and reorganized code for IsolatedConnected
Merge topic 'testing-extract-doxygen'

5144b613 STYLE: Remove duplicated TestingExtractSliceImageFilter doxygen.
Merge topic 'testing-compatibility'

808c9684 BUG: TestingExtractSliceImageFilterTest v3 direction strategy.
ENH: Convert the ImageRegistration3,4,5  examples to ITKv4

Three registration examples are refactored to use v4 registration
framework. Also, the explanations related to the deprecated features are
remove, and new explanations are added to reflect the new features.

Change-Id: Ia6513dc15869bf6b29ac508e481e86212e9aa396
ENH: ImageRegistration6 is fully converted to ITKv4

Change-Id: Iccc04dfc7303dd826469f39a42409c97dc5a0375
WIP: ImageRegistration7 example is fully converted to ITKv4

It seems that this example is the best place that we can explain about
ScaleEstimators. Work on that later.

Change-Id: Idf6bad24ee0dba573c44a39d20774697ae0b9a85
WIP: ex8 is revised till after regRun

Change-Id: I17bc9d6adb5fdb1b5fb405b4602f142ac8a19e96
ENH: convert the ex8 fully to ITKv4

Change-Id: Ia435c87aee2c6cc4d1de37fc281aee740bfaf320
ENH: complete the ex8

Change-Id: I64399ce37378c80c35105a7d4e844364d93ce91d
ENH: change the base line for ex8

Change-Id: I8df4c04a3f23b02c63706741902f5f4052176c27