Some installation notes on https://github.com/kevin-keraudren/example-motion-correction

motion_correction_notes.md

Notes for MacOSX

• Anaconda installer:

    wget http://09c8d0b2229f813c1b93-c95ac804525aac4b6dba79b00b39d1d3.r79.cf1.rackcdn.com/Anaconda-2.1.0-MacOSX-x86_64.sh
  

• When installing opencv:

    conda install opencv
  

  you get:

    numpy:     1.9.0-py27_0 --> 1.7.1-py27_2
  

  you can safely run:

    conda install numpy=1.9.0
  

  once OpenCV is installed

• Edit CMakeCache.txt and ensure that PYTHON_EXECUTABLE, PYTHON_INCLUDE_DIR and PYTHON_LIBRARY point to the Anaconda environment

• If you get:

    ImportError: dlopen(irtk/_irtk.so, 2): Library not loaded: libpng15.15.dylib
      Referenced from: /Users/kevin/Prachi/irtk/build/lib/irtk/_irtk.so
      Reason: image not found
  

  Then add the missing library to your path:

    export ANACONDA_HOME=$HOME/anacondaIRTK
    export DYLD_FALLBACK_LIBRARY_PATH=$ANACONDA_HOME/lib
  

• If you get:

    TypeError: copy() got an unexpected keyword argument 'order'
  

  Add a dummy argument order='C' in ~/Prachi/irtk/build/lib/irtk/image.py:Image.copy:

  def copy( self, dtype=None, order='C' ):       
      return Image( self.get_data(dtype), self.get_header(), squeeze=False )