import ij.*;
import ij.gui.*;
import ij.process.*;
import ij.plugin.*;
import ij.io.*;
import java.io.*;
import java.io.RandomAccessFile;
import java.lang.String;

/**
Imports a fid file from Bruker
written by Bertram Manz,
           Arbeitsgruppe Magnetische Resonanz,
           Fraunhofer-Institut für Biomedizinische Technik
           Enheimer Str. 48
           66386 St. Ingbert
           Germany
           bertram dot manz at ibmt dot fraunhofer dot de
Version 29/07/04
*/

public class fidOpener extends ImagePlus implements PlugIn {

    	private static int xsize=1;
    	private static int ysize=1;
    	private static int zsize=1;
    	private static int dimensions=1;
    	private static int ni=1;
    	private static int nr=1;

    public void run(String path) {
        String FileLine;
        int iii;
        int xs=1, ys=1, zs=1;

	File theFile=new File(path);
	String directory = theFile.getParent();
	String fileName = theFile.getName();
	String fileSeparator = (String)System.getProperty("file.separator");
	File acqp = new File(directory, "acqp");
	try {
            RandomAccessFile f = new RandomAccessFile(acqp, "r");
	    while ((FileLine = f.readLine()) != null) {
	      if (FileLine.startsWith("##$ACQ_size=")) {
              	 int index1 = FileLine.indexOf("(");
        	 int index2 = FileLine.indexOf(")");
        	 dimensions = getiValue(FileLine.substring(index1+2, index2-1));
	         FileLine = f.readLine();
      		 switch (dimensions)
		 {
		   case 1:
	    	   	IJ.showMessage("fidOpener", "1D files are not supported.");
	    	   	break;
		   case 2:
      		   	index1 = FileLine.indexOf(" ");
      		   	xsize = getiValue(FileLine.substring(0, index1));
      		   	ys = getiValue(FileLine.substring(index1+1));
      		   	break;
		   case 3:
      		   	index1 = FileLine.indexOf(" ");
      		   	index2 = FileLine.indexOf(" ", index1+1);
      		   	xsize = getiValue(FileLine.substring(0, index1));
      		   	ys = getiValue(FileLine.substring(index1+1, index2));
      		   	zs = getiValue(FileLine.substring(index2+1));
      		   	break;
		   default:
	    	   	IJ.showMessage("fidOpener", "File type not supported.");
	    	   	break;
      		 }
	      }
	      if (FileLine.startsWith("##$NI=")) {
 	      	 ni = getiValue(FileLine.substring(6, FileLine.length()));
	      }
	      if (FileLine.startsWith("##$NR=")) {
 	      	 nr = getiValue(FileLine.substring(6, FileLine.length()));
	      }
	    }
	    f.close();
      	    if (dimensions == 2)
      	    {
	      if (ni == 1) {ysize = ys; zsize = nr;}
	      else {ysize = ni; zsize = ys*nr;}
	    }
      	    if (dimensions == 3)
	    {
	      ysize = ni*ys;
	      zsize = nr*zs;
	    }
	    if (xsize < 256) xsize = 256;
	    IJ.log("ni, nr = " +ni +", " + nr);
	    IJ.log("dimensions = " +dimensions);
	    IJ.log("xsize, ysize, zsize = " +xsize +", " +ysize +", " +zsize);
	}
	catch (IOException e) {
	    IJ.showMessage("fidOpener", "File acqp not found.");
	    xsize = 0;
	}


	String titledirectory = directory + fileSeparator +"pdata" +fileSeparator +"1";
	File titlefile = new File(titledirectory, "title");
	try {
            RandomAccessFile f = new RandomAccessFile(titlefile, "r");
	    FileLine = f.readLine();
	    f.close();
	}
	catch (IOException e) {
	    FileLine = fileName;
	}

	if (xsize == 0) {
	    ImportDialog id = new ImportDialog(fileName, directory);
	    id.openImage();
	} else {
	    IJ.run("Raw...", "open='" +path +"' image='32-bit Signed' width=" +xsize +" height=" + ysize +" offset=0 number=" +zsize +" gap=0");
	}
	IJ.run("Rename...", "title='" +FileLine +"'");
    }

    double getdValue(String theText) {
        Double d;
        try {d = new Double(theText);}
        catch (NumberFormatException e){
	    IJ.showMessage("fidOpener", "Cannot convert " +theText +" to double.");
            d = null;
        }
        return d.doubleValue();
    }

    int getiValue(String theText) {
        Integer d;
        try {d = new Integer(theText);}
        catch (NumberFormatException e){
	    IJ.showMessage("fidOpener", "Cannot convert " +theText +" to int.");
            d = null;
        }
        return d.intValue();
    }

}