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package ij.plugin;
import ij.*;
import ij.process.*;
import ij.gui.*;
import ij.io.*;
import ij.util.Tools;
import java.awt.*;
import java.io.*;
import java.util.*;
/** This plugin opens images specified by list of file paths as a virtual stack.
It implements the File/Import/Stack From List command. */
public class ListVirtualStack extends VirtualStack implements PlugIn {
private static boolean virtual;
private String[] list;
private String[] labels;
private int nImages;
private int imageWidth, imageHeight;
public void run(String arg) {
OpenDialog od = new OpenDialog("Open Image List", arg);
String name = od.getFileName();
if (name==null) return;
String dir = od.getDirectory();
//IJ.log("ListVirtualStack: "+dir+" "+name);
list = open(dir+name);
if (list==null) return;
nImages = list.length;
labels = new String[nImages];
//for (int i=0; i<list.length; i++)
// IJ.log(i+" "+list[i]);
if (list.length==0) {
IJ.error("Stack From List", "The file path list is empty");
return;
}
if (!list[0].startsWith("http://")) {
File f = new File(list[0]);
if (!f.exists()) {
IJ.error("Stack From List", "The first file on the list does not exist:\n \n"+list[0]);
return;
}
}
ImagePlus imp = IJ.openImage(list[0]);
if (imp==null) return;
imageWidth = imp.getWidth();
imageHeight = imp.getHeight();
setBitDepth(imp.getBitDepth());
ImageStack stack = this;
if (!showDialog(imp)) return;
if (!virtual)
stack = convertToRealStack(imp);
ImagePlus imp2 = new ImagePlus(name, stack);
imp2.setCalibration(imp.getCalibration());
imp2.show();
}
boolean showDialog(ImagePlus imp) {
double bytesPerPixel = 1;
switch (imp.getType()) {
case ImagePlus.GRAY16:
bytesPerPixel=2; break;
case ImagePlus.COLOR_RGB:
case ImagePlus.GRAY32:
bytesPerPixel=4; break;
}
double size = (imageWidth*imageHeight*bytesPerPixel)/(1024.0*1024.0);
int digits = size*getSize()<10.0?1:0;
String size1 = IJ.d2s(size*getSize(), digits)+" MB";
String size2 = IJ.d2s(size,1)+" MB";
GenericDialog gd = new GenericDialog("Open Stack From List");
gd.addCheckbox("Use Virtual Stack", virtual);
gd.addMessage("This "+imageWidth+"x"+imageHeight+"x"+getSize()+" stack will require "+size1+",\n or "+size2+" if opened as a virtual stack.");
gd.showDialog();
if (gd.wasCanceled()) return false;
virtual = gd.getNextBoolean();
return true;
}
ImageStack convertToRealStack(ImagePlus imp) {
ImageStack stack2 = new ImageStack(imageWidth, imageHeight, imp.getProcessor().getColorModel());
int n = this.getSize();
for (int i=1; i<=this.getSize(); i++) {
IJ.showProgress(i, n);
IJ.showStatus("Opening: "+i+"/"+n);
ImageProcessor ip2 = this.getProcessor(i);
if (ip2!=null)
stack2.addSlice(this.getSliceLabel(i), ip2);
}
return stack2;
}
String[] open(String path) {
if (path.startsWith("http://"))
return openUrl(path);
Vector v = new Vector();
File file = new File(path);
try {
BufferedReader r = new BufferedReader(new FileReader(file));
while (true) {
String s=r.readLine();
if (s==null || s.equals("") || s.startsWith(" "))
break;
else
v.addElement(s);
}
r.close();
String[] list = new String[v.size()];
v.copyInto((String[])list);
return list;
}
catch (Exception e) {
IJ.error("Open List Error \n\""+e.getMessage()+"\"\n");
}
return null;
}
String[] openUrl(String url) {
String str = IJ.openUrlAsString(url);
if (str.startsWith("<Error: ")) {
IJ.error("Stack From List", str);
return null;
} else
return Tools.split(str, "\n");
}
/** Deletes the specified image, were 1<=n<=nslices. */
public void deleteSlice(int n) {
if (n<1 || n>nImages)
throw new IllegalArgumentException("Argument out of range: "+n);
if (nImages<1) return;
for (int i=n; i<nImages; i++)
list[i-1] = list[i];
list[nImages-1] = null;
nImages--;
}
/** Returns an ImageProcessor for the specified slice,
were 1<=n<=nslices. Returns null if the stack is empty.
*/
public ImageProcessor getProcessor(int n) {
if (n<1 || n>nImages)
throw new IllegalArgumentException("Argument out of range: "+n);
IJ.redirectErrorMessages();
String url = list[n-1];
ImagePlus imp = null;
if (url.length()>0)
imp = IJ.openImage(url);
if (imp!=null) {
labels[n-1] = (new File(list[n-1])).getName()+"\n"+(String)imp.getProperty("Info");
ImageProcessor ip = imp.getProcessor();
int bitDepth = getBitDepth();
if (imp.getBitDepth()!=bitDepth) {
switch (bitDepth) {
case 8: ip=ip.convertToByte(true); break;
case 16: ip=ip.convertToShort(true); break;
case 24: ip=ip.convertToRGB(); break;
case 32: ip=ip.convertToFloat(); break;
}
}
if (ip.getWidth()!=imageWidth || ip.getHeight()!=imageHeight)
ip = ip.resize(imageWidth, imageHeight);
return ip;
} else {
ImageProcessor ip = null;
switch (getBitDepth()) {
case 8: ip=new ByteProcessor(imageWidth,imageHeight); break;
case 16: ip=new ShortProcessor(imageWidth,imageHeight); break;
case 24: ip=new ColorProcessor(imageWidth,imageHeight); break;
case 32: ip=new FloatProcessor(imageWidth,imageHeight); break;
}
return ip;
}
}
/** Returns the number of images in this stack. */
public int getSize() {
return nImages;
}
/** Returns the name of the specified image. */
public String getSliceLabel(int n) {
if (n<1 || n>nImages)
throw new IllegalArgumentException("Argument out of range: "+n);
if (labels[n-1]!=null)
return labels[n-1];
else
return (new File(list[n-1])).getName();
}
public int getWidth() {
return imageWidth;
}
public int getHeight() {
return imageHeight;
}
}
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