package cquest.utils;

import java.io.*;


/** class MrsiTxtReader.
 * to read/ write the selection of voxel to a text file.
 * @author Michael Sdika 
 */
public class MrsiTxtReader
{

/** exception when the text file has not the good format. */  
public static class WrongFormatException extends Exception
{ public WrongFormatException(String message)
    { super(message);
    }
}

/** read the next meaningful line. */
private static String nextLine(BufferedReader reader)throws IOException
{ String line;
  do
    { line = reader.readLine();
    }
  while ( line!=null && ( line.trim().length()==0 || line.charAt(0)=='#') );
  return(line);	
  
}
  
/** read the text file that contains the selected voxels. */
public static boolean[][] read(File file) throws FileNotFoundException, IOException, WrongFormatException
{
  BufferedReader reader = new BufferedReader(new FileReader(file));
  
  boolean[][] mrsiSel;
  try
    { String line = nextLine(reader);
      String[] dims = line.split("\\s");
      int d0 = Integer.valueOf(dims[0]).intValue(); 
      int d1 = Integer.valueOf(dims[1]).intValue(); 
      
      mrsiSel = new boolean[d1][d0];
      for (int i=0;i<d0;i++)
	{ for (int j=0;j<d1;j++)
	    { mrsiSel[j][i] = false;
	    }
	}
      System.out.println("nbRow nbCol "+d0+" "+d1) ;
      line = nextLine(reader);
      
      while (line!=null)
	{ // parse line
	  dims = line.split(",");
	  String[] dim0 = dims[0].split(":");
	  String[] dim1 = dims[1].split(":");


	  // inverse row dimension so that the first lign is top (by default in jMRUI it is in the bottom but most
	  // soft do the inverse)
	  int d0_b = d0 -Integer.valueOf(dim0[0].trim()).intValue();
	  int d1_b = Integer.valueOf(dim1[0].trim()).intValue()-1;
	  int d0_e = dim0.length==1 ? d0_b : d0-Integer.valueOf(dim0[1].trim()).intValue();
	  int d1_e = dim1.length==1 ? d1_b : Integer.valueOf(dim1[1].trim()).intValue()-1;
	  
	  // fill values
	  for (int i=d0_e;i<=d0_b;i++)
	    { for (int j=d1_b;j<=d1_e;j++)
		{ mrsiSel[j][i] = true;
		}
	    }
	  
	  // read next line
	  line = nextLine(reader);
	}
    }
  catch (Exception e)
    { System.out.println("ERROR");
      e.printStackTrace();
      throw new WrongFormatException("Error when reading mrsi file\n"+e.getMessage());
    }
  
  reader.close();
  
  return (mrsiSel);
} 

/** write the text file that contains the selected voxels from a boolean[][]. */
public static void write(boolean[][] mrsiSel, File file) throws IOException
{
  PrintWriter out = new PrintWriter(new BufferedWriter(new FileWriter(file)));
  
  out.println(mrsiSel.length+" "+mrsiSel[0].length);
  for (int i=0;i<mrsiSel.length;i++)
    { for (int j=0;j<mrsiSel[0].length;j++)
	{ if (mrsiSel[i][j])
	    { out.println(i+", "+j);
	    }
	}
    }

  out.close();
  
} 


}