COMP: Remove clrLine in itkExtras

A special escape character was used in python to display the loading process.
This was intended to display the loading sequence on one line in the terminal.

When there are errors in the python tests, the error messages are cluttered with : [2000D[NON-XML-CHAR-0x1B] in Cdash
Anyway this hack also seems not to work  on OS X's terminal.
I suppose we don't want to support all types of terminal types and configurations here.

Change-Id: I387bab704718534dcdc9305944894d7de383c236
BUG: Windows BigTIFF errors: stat failure and lack of COMPRESSION_DEFLATE

Two bug fixes in itkTIFFImageIO.cxx:
1. On attempting to open a BigTIFF file 'stat' gave an error, because on Windows _stat64
must be used in this case.  The fix was to check for the OS, and if WIN32 use _stat64
in addition to stat.
2. The function TIFFReaderInternal::CanRead() was missing a line for COMPRESSION_DEFLATE.
This enables the formerally patented GIF compression, but the patent expired in 2006.

Change-Id: I6f1b0d95400c597f58a765e995e5e42b4bcd67ee
Merge topic 'WindowsBigTiff-release'

c4ded215 BUG: Windows BigTIFF errors: stat failure and lack of COMPRESSION_DEFLATE
Merge topic 'RemovePythonclrLine'

2223a117 COMP: Remove clrLine in itkExtras
ENH: Ignore autocompletion clang helper files

The YouCompleteMe package for vim expansions
requires a file in the source tree to define
how the continous building of source files
for introspection needs to be done.

Change-Id: I221c3812e251752f43e37eafe65b160a73f18d30
COMP: Fix type casting build warning.

This patch fixes the build warning by a gcc compiler in the dashboard over
some implicit type-casting being performed in the
itk::SigmoidTransferFunctionTest. Compiles fine under Windows, Visual
Studio 2010.

Change-Id: Iec248a3683461babc9cf6a5b55c51fd533db339c
COMP: Fix the python import and progress callbacks

I put back the clrLine code removed in my previous commit.
In fact the bug in CDash were the ascii string was appaering was due to a bad comparison
in the auto_progress function. This was due to the changes done during the pep8 clean-up.
Even if you pass 2 as progressType, "if 2" will return True. The python tests used progressType=2,
so the wrong callback was used.

This commit reverts the changes from the previous commit, fixes the bug for progressType=2,
and adds some explanations for the clrLine signification.

Change-Id: Ibb26397650b394882ef52877181b116535cb064d
Merge topic 'YouCompleteMePluginIgnore'

54c973e7 ENH: Ignore autocompletion clang helper files
Merge topic 'SigmoidFix'

455a2918 COMP: Fix type casting build warning.
STYLE: Remove reference to CableSwig

CableSwig was replace by Swig, there were still some references to it in the comments.
The WRAPPER_LIBRARY_SWIG_INPUTS variable was wrongly set as WRAPPER_LIBRARY_CABLESWIG_INPUTS
in TypedefMacros.cmake

Change-Id: Ia4dd934c680b156c3f0bae97092428afd0097945
STYLE: Clean up BinaryThresholdImageFilter (python)

Removed the broken BinaryThresholdImageFilter example, a working version was moved to the ITK examples wiki
Updated the BinaryThresholdImageFilter test to use the same code as the one in the ITK examples wiki

Change-Id: I55fd18a76ed78768b37f28e7252f868fb7241b2e
Merge topic 'RemoveCableSwigReferences'

7090c136 STYLE: Remove reference to CableSwig
Merge topic 'PythonBinaryThresholdExample'

33ed8a80 STYLE: Clean up BinaryThresholdImageFilter (python)
Merge topic 'FixPythonImportProgress'

91aa963a COMP: Fix the python import and progress callbacks
COMP: Fix the Python ResampleImageFilter test

Since SWIG 3.0.0, boolean arguments need to be Python booleans and not integers
(True/False vs 1/0) See https://github.com/swig/swig/blob/master/CHANGES (2014-03-06: wsfulton)

Change-Id: I14c769601a5289883bf71b79dc05b378350d9f76
ENH: Bump SCIFIO for OS X installation

See :
https://github.com/scifio/scifio-imageio/commit/be0b3ecf40a8aaa817ac3ff25edbe2e5ceb36c6c
https://github.com/scifio/scifio-imageio/commit/de3ce1e5c5c6a50ea99817265602c6733aa500ae

Change-Id: Idc6e4aa67ff19a103e68f77b75676ce2b9a47f75
Merge topic 'FixResampleImageFilterPythonTest'

8fc25e23 COMP: Fix the Python ResampleImageFilter test
Merge topic 'Bump-scifio'

6d3c08ff ENH: Bump SCIFIO for OS X installation
COMP: Improved MINCIOTransform tests

Updated to latest  version of libminc and added support
for reading compressed minc1 files (when using latest version of libminc only,
compiled with netcdf)

Change-Id: Ia01d21634d05fac38830c8d426567c40b6bd574e
DOC: No ReferenceImage members in TransformToDisplacementFieldSource.

Note that this class is deprecated in favor of
TransformToDisplacementFieldFilter where these members do exist.

Issue ITK-3247.

Change-Id: Ie30af0e48e0cf318ff05f29fbfefa27d34cc65fa