Dear Sean,
The code below might do what you want (not fully tested).
dirS = getDirectory("Select directory which contains the image files");
dirA = getDirectory("Select directory to save resulting text file");
list = getFileList(dirS);
print("filename\tChannel\twell");
for (i=0; i<list.length; i++) {
path = dirS+list[i];
name = File.getName(path);
n = lengthOf(name);
if (startsWith(name, "Channel1"))
Channel = 1;
else{
if (startsWith(name, "Channel2")) Channel = 2;
else exit("file name incorrect");
}
for (j=(n-4);j>0;j--){
char = substring(name, j, (j+1));
if (matches(char, "-")){
well = substring(name,(j+1), (n-4));
j=0;
}
}
print(path+"\t"+Channel+"\t"+well);
}
selectWindow("Log")
saveAs("txt",dirA+"list.csv");
run("Close");
It expects only tif files in the directory
Best wishes
Kees
Dr Ir K.R. Straatman
Senior Experimental Officer
Centre for Core Biotechnology Services
College of Medicine, Biological Sciences and Psychology
University of Leicester
http://www.le.ac.uk/biochem/microscopy/home.html-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of Sean Burke
Sent: 28 March 2012 00:38
To:
[hidden email]
Subject: using regular expression and creating a csv file from image file names
Hello Everyone,
I am trying to find out if it is possible to get information/annotation from my image file name (and path) and write that to a .csv file in ImageJ. Specifically I want to create a csv or text file with 3 column headers: File name, Channel, and Well. I have a folder with a bunch of files from a 96 well plate and each well has two channel images. I would like to organize the image names from the folder in this fashion automatically so the resulting csv table would look like the one below. I have read that this may be possible with regular expressions in ImageJ but I have no idea where to start with a macro for this. Does anyone have any advice where to get more information about doing something like this or a macro that does something similar for me to start from?
Four images in the folder:
Filename
Channel
Well
c:\full path\image experiment\Channel1-05-min-A01.tif
1
A01
c:\full path\image experiment\Channel2-05-min-A01.tif
2
A01
c:\full path\image experiment\Channel1-05-min-A02.tif
1
A02
c:\full path\image experiment\Channel2-05-min-A02.tif
2
A02
Sincerely,
Sean Burke
Locked
