Posted by
Russell_Ligon on
Feb 26, 2018; 5:07pm
URL: http://imagej.273.s1.nabble.com/importing-Text-Image-files-tp3690802p5020160.html
FWIW, I found a solution. Here is Jay Unruh's original modification plus some
tweaks to make it work on a files that are ';' delimited:
import ij.*;
import ij.process.*;
import ij.gui.*;
import java.awt.*;
import ij.plugin.*;
import java.awt.image.*;
import java.io.*;
import ij.io.*;
import ij.util.Tools;
//here is a csv reader. This is just a copy of text_reader.java with the
tokenizer changed to accept commas as delimiters
//changes made 4/22/08 by Jay Unruh, Research Specialist, Stowers Institute
for Medical Research
//Addition that allows semicolon (;) separated files to be read, based on
code found here:
//
http://javaprogramming.language-tutorial.com/2012/01/use-streamtokenizer-object-to-parse.html// by Russell Ligon on Feb 26,2018
//new file is named 'readplease' (clearly containing hints of my
desperation)
public class readplease implements PlugIn {
int words = 0, chars = 0, lines = 0, width=1;;
String directory, name, path;
boolean hideErrorMessages;
public void run(String arg) {
if (showDialog()) {
IJ.showStatus("Opening: " + path);
ImageProcessor ip = open(path);
if (ip!=null)
new ImagePlus(name, ip).show();
}
}
boolean showDialog() {
OpenDialog od = new OpenDialog("Open Text Image...", null);
directory = od.getDirectory();
name = od.getFileName();
if (name!=null)
path = directory + name;
return name!=null;
}
/** Displays a file open dialog and opens the specified text file as a
float image. */
public ImageProcessor open(){
if (showDialog())
return open(path);
else
return null;
}
/** Opens the specified text file as a float image. */
public ImageProcessor open(String path){
ImageProcessor ip = null;
try {
words = chars = lines = 0;
Reader r = new BufferedReader(new FileReader(path));
countLines(r);
r.close();
r = new BufferedReader(new FileReader(path));
//int width = words/lines;
float[] pixels = new float[width*lines];
ip = new FloatProcessor(width, lines, pixels, null);
read(r, width*lines, pixels);
r.close();
ip.resetMinAndMax();
}
catch (IOException e) {
String msg = e.getMessage();
if (msg==null || msg.equals(""))
msg = ""+e;
if (!hideErrorMessages)
IJ.error("TextReader", msg);
ip = null;
}
return ip;
}
public void hideErrorMessages() {
hideErrorMessages = true;
}
/** Returns the file name. */
public String getName() {
return name;
}
void countLines(Reader r) throws IOException {
char separator = ';'; //defines separator
StreamTokenizer tok = new StreamTokenizer(r);
int wordsPerLine=0, wordsInPreviousLine=0;
tok.resetSyntax();
// tok.wordChars(46, 127);
// tok.whitespaceChars(0, 45);
// tok.whitespaceChars(128, 255);
//NEW LINES TO ENABLE ; DELIMITED TEXT FILES TO BE READ AS IMAGES
// from:
http://javaprogramming.language-tutorial.com/2012/01/use-streamtokenizer-object-to-parse.html tok.wordChars('\u0000', (char)(separator - 1)); //
Everything is a word character
tok.wordChars((char)(separator + 1), '\u00ff'); // except
for the separator
tok.whitespaceChars('\n', '\n'); // Make
end-of-line whitespace(and therefore a word delimiter)
tok.whitespaceChars(separator, separator); //
Delimiter separates words
tok.eolIsSignificant(true);
while (tok.nextToken() != StreamTokenizer.TT_EOF) {
switch (tok.ttype) {
case StreamTokenizer.TT_EOL:
lines++;
if (wordsPerLine==0)
lines--; // ignore empty lines
if (lines==1)
width = wordsPerLine;
else if (wordsPerLine!=0 &&
wordsPerLine!=wordsInPreviousLine)
throw new IOException("Line "+lines+ " is not the
same length as the first line.");
if (wordsPerLine!=0)
wordsInPreviousLine = wordsPerLine;
wordsPerLine = 0;
if (lines%20==0 && width>1 && lines<=width)
IJ.showProgress(((double)lines/width)/2.0);
break;
case StreamTokenizer.TT_WORD:
words++;
wordsPerLine++;
break;
}
}
if (wordsPerLine==width)
lines++; // last line does not end with EOL
}
void read(Reader r, int size, float[] pixels) throws IOException {
char separator = ';'; //defines separator
StreamTokenizer tok = new StreamTokenizer(r);
tok.resetSyntax();
//NEW LINES TO ENABLE ; DELIMITED TEXT FILES TO BE READ AS IMAGES
// from:
http://javaprogramming.language-tutorial.com/2012/01/use-streamtokenizer-object-to-parse.html tok.wordChars('\u0000', (char)(separator - 1)); //
Everything is a word character
tok.wordChars((char)(separator + 1), '\u00ff'); // except
for the separator
tok.whitespaceChars('\n', '\n'); // Make
end-of-line whitespace(and therefore a word delimiter)
tok.whitespaceChars(separator, separator); //
Delimiter separates words
//the next two lines were changed by JU to allow for comma delimiters
// tok.wordChars(46, 127);
// tok.whitespaceChars(0, 45);
// tok.whitespaceChars(128, 255);
// tok.parseNumbers();
int i = 0;
int inc = size/20;
if (inc<1)
inc = 1;
while (tok.nextToken() != StreamTokenizer.TT_EOF) {
if (tok.ttype==StreamTokenizer.TT_WORD) {
pixels[i++] = (float)Tools.parseDouble(tok.sval, 0.0);
if (i==size)
break;
if (i%inc==0)
IJ.showProgress(0.5+((double)i/size)/2.0);
}
}
IJ.showProgress(1.0);
}
}
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