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from brainvisa.processes import *
import os
from brainvisa import anatomist
import registration

name = 'White Mesh Depth Map'
userLevel = 3

signature = Signature(
  "white_mesh", ReadDiskItem( "Hemisphere White Mesh", "Aims mesh formats" ),
  "hemi_cortex", ReadDiskItem( "CSF+GREY Mask",
      "Aims readable volume formats" ),
  "depth_texture", WriteDiskItem( "White Depth Texture", "Texture" ),
  "closing_size", Float(),
    )

def initialization(self):
  self.linkParameters( "hemi_cortex", "white_mesh" )
  self.linkParameters( "depth_texture", "white_mesh" )
  self.closing_size = 10.

def execution( self, context ):
  white = context.temporary( 'GIS Image' )
  # take a white mask image
  context.system( 'AimsThreshold', self.hemi_cortex, white, '-m', 'eq', '-t',
    0, '-b' )
  closedwhite = context.temporary( 'GIS image' )
  # severely close it to fill every sulcus and ventricle
  context.system( 'AimsClosing', white, closedwhite, self.closing_size )
  # erode it so that the white mesh goes out of it
  context.system( 'AimsErosion', '-i', closedwhite, '-o', closedwhite, '-e',
    2. )
  hulltex = context.temporary( 'Texture' )
  registration.getTransformationManager().copyReferential( self.white_mesh,
    closedwhite )
  a = anatomist.Anatomist()
  # mask the white mesh with the eroded mask
  #fusion = context.runProcess( 'fusion3Dmesh', closedwhite, self.hemi_cortex,
  #  hulltex, 0 )
  fusion = context.runProcess( 'fusion3Dmesh', closedwhite, self.white_mesh,
    hulltex, 0 )
  # wait for synchronous completion from Anatomist
  a = anatomist.Anatomist()
  a.getObjects()
  # change values to get O inside sulci and a positive value outside
  context.system( 'AimsLinearComb', '-i', hulltex, '-o', hulltex, '-a', -1.,
    '-e', 32767 )
  # convert to a label texture (seems to be needed for meshdistance)
  context.system( 'AimsFileConvert', hulltex, hulltex, '-t', 'S16' )
  # get the distance map inside sulci as depth map
  context.system( 'AimsMeshDistance', '-i', self.white_mesh, '-o',
    self.depth_texture, '-t', hulltex )