BUG: 3447. Added .nrrd extension to grid transform IO

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22617 3bd1e089-480b-0410-8dfb-8563597acbee
ENH: Changed type of mrb file loading log messages from error to debug

The messages were logged as errors, while they are actually debug messages.

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22618 3bd1e089-480b-0410-8dfb-8563597acbee
COMP: Revert r22484 - Fix already integrated in ITK release branch.

Corresponding fixes in ITK release branch is InsightSoftwareConsortium/ITK@35000ead738c6

Fixes #3421

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22633 3bd1e089-480b-0410-8dfb-8563597acbee
ENH: Contribution from Albert Montillo to paint in 3D

Adds a Sphere option to the PaintEffect to make it quicker to segment
large anatomical regions that are somewhat spherical.

Powerful when used with ThresholdPaint.

Cleanup code.

Remove debug comments.

Clean up variable names.

STYLE: fix small typo

From: Jim Miller <millerjv@ge.com>

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22635 3bd1e089-480b-0410-8dfb-8563597acbee
COMP: Do not install teem development files.

Fixes #2397

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22636 3bd1e089-480b-0410-8dfb-8563597acbee
ENH: add node attributes describing the currently active manipulation

Tell which slice viewer is manipulating which fiducial in the
markup node.

Markups.MovingInSliceView holds the LayoutName of the sliceNode associated
with the viewer where the widget is being manipulated.

Markups.MovingSeedNumber holds the seed number being manipulated.

Both are cleared when the seed is not being manipulated by a widget.

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22637 3bd1e089-480b-0410-8dfb-8563597acbee
ENH: Update ITKv4.

Bump ITKv4 this fixes some MetaIO issues:

Stephen Aylward (3):
   BUG: Fixed bugs in Form and hidden virtual funcs in Image
   COMP: Fixed unused variable warnings in tests
   COMP: Disable tests since paths are set wrong in VTK

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22638 3bd1e089-480b-0410-8dfb-8563597acbee
COMP: Fix check in midas_api_upload_extension macro

Since the variable ${var} were defined in the parent scope, no warning
were displayed.

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22639 3bd1e089-480b-0410-8dfb-8563597acbee
COMP: Tweak midas_api_upload_extension macro test case

Add link to existing screenshot and also add a svn example.

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22640 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: Attempt to fix font issue related to webkit performance on MacOSX 10.9

Associated message in the system log:
CoreText performance note: Client called CTFontCreateWithName() using name "Lucida Grande" and got font with PostScript name "LucidaGrande". For best performance, only use PostScript names when calling this API.

See https://bugreports.qt-project.org/browse/QTBUG-32789 and
http://successfulsoftware.net/2013/10/23/fixing-qt-4-for-mac-os-x-10-9-mavericks/

Fixes #3460

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22641 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: Ensure ROI worked as expected. Fixes #3459

Fix bug introduced by r22539 when updating code to use vtkNew where
possible.

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22642 3bd1e089-480b-0410-8dfb-8563597acbee
COMP: UpdateITKv4 - Fix unused typedefs warnings specific to gcc >= 4.8

$ git shortlog 4c1d191ceac136b920dbb13564c419fc821dd848..ee6472628dcbb12d2723f04dbf3b14764de2b4ff
Matthew McCormick (1):
      COMP: Do not warn about unused typedefs

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22651 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: Fix "No LookupTable" error in qMRMLSliceWidget test

Full name of the test is: qMRMLSliceWidgetEventTranslatorPlayerTest1

The following error was reported:

//----------------------
ERROR: In /path/to/VTK/Imaging/vtkImageMapToColors.cxx, line 153
vtkImageMapToColors (0x268f190): RequestInformation: No LookupTable was set but number of components in input doesn't match OutputFormat, therefore input can't be passed through!

ERROR: In /path/to/VTK/Imaging/vtkImageExtractComponents.cxx, line 239
vtkImageExtractComponents (0x26947e0): Execute: Component 1 is not in input.

ERROR: In /path/to/VTK/Imaging/vtkImageExtractComponents.cxx, line 239
vtkImageExtractComponents (0x26947e0): Execute: Component 1 is not in input.
//----------------------

It is fixed by adding colorNodeRef attribute to VolumeDisplay element.

Also documented in the FAQ: http://wiki.slicer.org/slicerWiki/index.php?title=Documentation/Nightly/Developers/FAQ#Developer_FAQ:_MRML

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22654 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: Fix missing (Interaction|Selection)Node in qMRMLSliceWidget test

Full name of the test is: qMRMLSliceWidgetEventTranslatorPlayerTest1

The following warning was reported:
//-----------
Warning: In /path/to/Slicer/Libs/MRML/DisplayableManager/vtkMRMLAbstractDisplayableManager.cxx, line 817
vtkMRMLVolumeGlyphSliceDisplayableManager (0x1548450): SetAndObserveMRMLDisplayableNode - MRMLScene does NOT contain any InteractionNode

Warning: In /path/to/Slicer/Libs/MRML/DisplayableManager/vtkMRMLAbstractDisplayableManager.cxx, line 583
vtkMRMLVolumeGlyphSliceDisplayableManager (0x1548450): CreateIfPossible - MRMLScene does NOT contain any InteractionNode

Warning: In /path/to/Slicer/Libs/MRML/DisplayableManager/vtkMRMLAbstractDisplayableManager.cxx, line 591
vtkMRMLVolumeGlyphSliceDisplayableManager (0x1548450): CreateIfPossible - MRMLScene does NOT contain any SelectionNode
//-----------

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22655 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: Simplify logic in (Start|End)SliceNodeInteraction method

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22656 3bd1e089-480b-0410-8dfb-8563597acbee
COMP: Fix MacOSX build issue when building against Qt 4.7.4. Fixes #3471

Since "QSysInfo::MV_10_8" has been first introduced in Qt 4.8.3,
exclude the fix for issue #3460 introduced in commit r22641.

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22657 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: Ensure python script argument are not loaded as image. Fixes #3463

Co-authored-by: Jean-Christophe Fillion-Robin <jchris.fillionr@kitware.com>

From: Felix Veysseyre <felix.veysseyre@kitware.com>

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22658 3bd1e089-480b-0410-8dfb-8563597acbee
BUG: update link to LiverData.mrb

Fixed the scene file to show the model hierarchies and uploaded
a new mrb file to midas at 
http://slicer.kitware.com/midas3/download?items=117033

Issue #3469



git-svn-id: http://svn.slicer.org/Slicer4/trunk@22659 3bd1e089-480b-0410-8dfb-8563597acbee
ENH: Update vtkMRMLNodeTest1 to display error on standard error.

From: Jean-Christophe Fillion-Robin <jchris.fillionr@kitware.com>

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22660 3bd1e089-480b-0410-8dfb-8563597acbee
ENH: Update CTK to integrate Andras Lasso VTK connection optimization.

Andras Lasso (3):
      ENH: Use a hashmap to avoid linear search for existing vtk connections
      BUG: Fixed ctkVTKObjectEventsObserverPrivate::findConnection behavior for wildcards
      ENH: qvtkConnect and qvtkDisconnect performance improvement

Jean-Christophe Fillion-Robin (1):
      Merge branch 'vtkconnect-performance-improvement-consolidated'

From: Jean-Christophe Fillion-Robin <jchris.fillionr@kitware.com>

git-svn-id: http://svn.slicer.org/Slicer4/trunk@22661 3bd1e089-480b-0410-8dfb-8563597acbee