# -*- coding: utf-8 -*-
#  This software and supporting documentation are distributed by
#      Institut Federatif de Recherche 49
#      CEA/NeuroSpin, Batiment 145,
#      91191 Gif-sur-Yvette cedex
#      France
#
# This software is governed by the CeCILL license version 2 under
# French law and abiding by the rules of distribution of free software.
# You can  use, modify and/or redistribute the software under the 
# terms of the CeCILL license version 2 as circulated by CEA, CNRS
# and INRIA at the following URL "http://www.cecill.info". 
#
# As a counterpart to the access to the source code and  rights to copy,
# modify and redistribute granted by the license, users are provided only
# with a limited warranty  and the software's author,  the holder of the
# economic rights,  and the successive licensors  have only  limited
# liability.
#
# In this respect, the user's attention is drawn to the risks associated
# with loading,  using,  modifying and/or developing or reproducing the
# software by the user in light of its specific status of free software,
# that may mean  that it is complicated to manipulate,  and  that  also
# therefore means  that it is reserved for developers  and  experienced
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# encouraged to load and test the software's suitability as regards their
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# same conditions as regards security.
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# The fact that you are presently reading this means that you have had
# knowledge of the CeCILL license version 2 and that you accept its terms.



from brainvisa.processes import *
from brainvisa import shelltools
import os
from brainvisa.tools import aimsGlobals
name = 'RicSulcalDepth'
roles = ('misc')
userLevel = 0




signature = Signature(
  'SulcalMesh', ReadDiskItem('Mesh', ['MESH mesh', 'GIFTI file'],
                        enableConversion = 0  ),
  'SulcalBottomMesh', ReadDiskItem( 'Mesh', ['MESH mesh', 'GIFTI file'], enableConversion = 0),
  'SulcalTopMesh', ReadDiskItem( 'Mesh', ['MESH mesh', 'GIFTI file'], enableConversion = 0),
'OutputDirectory', ReadDiskItem('Directory', 'Directory'),
  'SubjectName', String(),
  'OutputBaseName', String(),
  'Number_Segs_Split', Integer(),
  'Number_Depth_Incr', Integer(),
    'BrainVisaStandardOutput', Boolean(),
    'Fraction_To_Skip', Float(),
    'Verbose' , Boolean(),
    'Fill_gaps', Boolean(),

)


def initialization( self ):
  self.setOptional( 'SubjectName', 
                    'OutputBaseName',
                    'Number_Segs_Split',
                    'BrainVisaStandardOutput',
                    'Number_Depth_Incr',
                    'Verbose',
                    'Fill_gaps',
                    'Fraction_To_Skip' )
                    
  self.SubjectName = None
  self.OutputBaseName = None
  self.Number_Depth_Incr = None
  self.BrainVisaStandardOutput = False
  self.Fraction_To_Skip = None 
  self.Verbose = False  
  self.Number_Segs_Split = None   
  self.Fill_gaps = False

    
  self.signature[ 'SubjectName' ].userLevel = 2
  self.signature[ 'OutputBaseName' ].userLevel = 2
  self.signature[ 'Fraction_To_Skip' ].userLevel = 2
  self.signature[ 'BrainVisaStandardOutput' ].userLevel = 2
  self.signature[ 'Number_Segs_Split' ].userLevel = 2
  self.signature[ 'Verbose' ].userLevel = 2   
  self.signature[ 'Number_Depth_Incr'].userlevel = 2
  self.signature[ 'Fill_gaps'].userlevel = 2
  
         
                    
                    
  
 



 


def execution( self, context ):
  convert = 0
  command = ['RicSulcalDepth' , '--sm', self.SulcalMesh, '--bm',  self.SulcalBottomMesh, '--tm', self.SulcalTopMesh, '-o', str(self.OutputDirectory) + '/']
  
  
  if self.SubjectName != None:
	  command += ['-s',self.SubjectName]
  
  if self.OutputBaseName != None:
	  command[8] = command[8] + self.OutputBaseName
  
  if self.Fraction_To_Skip != None:
	  command += ['--fs', self.Fraction_To_Skip]
	  
  if self.BrainVisaStandardOutput:
	  command += ['--bv']
	  
  if self.Number_Segs_Split != None:
	  command += ['--ns' , self.Number_Segs_Split]
	  
  if self.Verbose :
	  command += ['-v']	  
	  
  if self.Fill_gaps :
	  command += ['--fg']
	  
  if self.Number_Depth_Incr != None:
	  command += ['--nd' , self.Number_Depth_Incr] 
      
  if apply( context.system, command ):
    raise Exception( _t_('Error while reading <em>%s</em> to <em>%s</em>') % \
                         ( command[ 2 ], command[ 4 ])  )

	

