Posted by
ChrisW on
URL: http://imagej.273.s1.nabble.com/Finding-files-based-on-a-substring-tp5020882.html
Hi,
Apologies if this is a dumb question, I am completely new to programming,
but I am enjoying what I have learnt so far.
I have several thousand images that are either background or stained images.
I am trying to write a batch macro that will match the stained image with
the correct background image. Ultimately, I want to subtract the background
from the stain.
I thought this could be done by defining a substring of the file name that
is shared between the background and stained images, and then opening all
the images that match with file names that match the substring (which should
only be two. For example, all the file names follow the same format:
[marker name or background(bg)]_[fluorochrome]_[timepoint]_[position].tiff
I have worked out how to define the substring I want, using:
inputFolder=getDirectory("Choose input folder");
bglist=getFileList(inputFolder);
for (i=0; i<bglist.length; i++) {
if(startsWith(bglist[i],"bg")) { // I use the background images to define
the string as they all start with bg.
str = bglist[i];
sx = indexOf(str, "_");
dotx= indexOf(str, ".");
sub = substring(str, sx, dotx);
However, I have no idea how to then open files based on the substring.
Everything I have tried just returns the first background image. Any help
would be greatly appreciated!
Many thanks,
ChrisW
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