text: # -*- coding: utf-8 -*-
  
  """
  Definition of the values for each parameter of the hcp_pipeline.
  
  """
  
  ## Location of the folder for the data of a single subject
  dir_hcp_subj = '/Users/paolo/Datasets/HCP/RAW_DATA/100307/'
  dir_hcp_subj = '/Users/paolo/Datasets/HCP/TEST/124422/'
  # 100307 124422 161731 199655 201111 239944 245333 366446 528446 856766
  
  ## Location of the subfolder for structural MRI data
  dir_hcp_t1 = 'T1w'
  
  ## Location of subfolder for diffusion MRI data
  dir_hcp_dwi = 'T1w/Diffusion'
  
  ## Location of folder for results of hcp_pipeline
  dir_hcp_out = 'Tractography'
  
  ## b value for shell extraction from multishell diffusion data
  par_b_shell = 1000
  
  ## file name tag for denotation of single shell extraction
  par_b_tag = 'b1k'
  
  ## b value threshold for single shell ectraction
  par_b0_threshold = 10
  
  ## Resampling resolution of target diffusion data
  par_dim_vox = 2.0
  
  ## file name tag for resampling resolution
  par_dim_tag = '2mm'
  
  ##
  par_fa_tag = 'FA'
  
  ##
  par_md_tag = 'MD'
  
  ##
  par_wmfa_tag = 'fa'
  
  ##
  par_wmp_tag = 'parc'
  
  ## Auto response radius
  par_ar_radius = 10
  
  ## Auto response FA threshold
  par_ar_fa_th = 0.7
  
  ## Sh order for constrained spherical deconvolution
  par_csd_sh_order = 8
  
  ## Relative peak threshold for constrained spherical deconvolution
  par_csd_peak_th = 0.5
  
  ## Minimum angle for constrained spherical deconvolution
  par_csd_min_angle = 25.0
  
  ## Number of peaks for constrained spherical deconvolution
  par_csd_num_peak = 5
  
  ## Parallel computation of constrained spherical deconvolution
  par_csd_parallel = False
  
  ##
  par_csd_tag = 'csd'
  ##
  par_eudx_seeds = 1000000
  
  ##
  par_eudx_threshold = 0.2
  
  ##
  par_eudx_tag = 'eudx1M'
  
  ##
  par_rec_tag = 'dti'
  
  ##
  par_trk_density = [2, 2, 2]
  
  ##
  par_trk_fa_th = 0.1
  
  ##
  par_trk_max_angle = 30.0
  
  ##
  par_trk_step_size = 0.5
  
  ##
  par_trk_odf_tag = 'odf'
  
  ##
  par_trk_prob_tag = 'prob'
  
  ##
  par_trk_fa_tag = 'fa'
  
  ##
  par_trk_tag = 'eudx'
  
  ##
  par_wmql_dir = 'wmql_tracts'
  
  ##
  par_wmql_opt = ''
  