COMP: Update BRAINSTools - Remove ITKv3 compatibility / Tweak BRAINSFit.xml

See #3829

$ git shortlog slicer-2014-08-27-6b15c2b..slicer-2014-09-15-411dee9
David Welch (2):
      ENH: Modified atlas xml name
      ENH: Added print statement to diagnose missing sentinal file

Hans Johnson (6):
      BUG: Uniformly apply modify_qsub_args for configuring qsub_args.
      BUG: Fixed logic for set notation.
      PERF: Fixed job submission logic to speed job start.
      BUG: Add consistent use-sentinal file.
      ENH: Added missing __init__.py file for SEMTools module.
      ENH: Per requests of the slicer community, defaults changed.

Jean-Christophe Fillion-Robin (2):
      Revert "COMP: fine-tune VTK dependencies"
      Revert "COMP: move find_package(VTK) down to individual project directories"

Kent Williams (3):
      COMP: Allow BRAINSTransformConvert without output transform file
      COMP: Remove global declarations from GenericTransformImage.h
      COMP: remove ITKV3_COMPATIBILITY entireley

Regina Kim (3):
      ENH: Allow template building to only do new files
      ENH: Add code for identifying the brain stem
      BUG: ATLAS_DIRECTORY to ATLAS_INSTALLING_DIRECTORY

git-svn-id: http://svn.slicer.org/Slicer4/trunk@23678 3bd1e089-480b-0410-8dfb-8563597acbee