http://imagej.273.s1.nabble.com/Help-writing-a-macro-to-merge-channels-save-with-sequential-names-tp5024674p5024677.html
> Hi fiji-newbie
>
> - getDirectory will prompt for a folder, you can simply use:
> dir = "M:/Confocal/20210507/NewStitch";
>
> - you never use your ids array, so you could remove that code.
>
> - a closing curly brace is missing at the end of you code, which could
> explain why your loop runs only once.
>
> - you could add
> Stack.setDisplayMode("composite");
> before your save command to show both channels overlaid.
>
> Jerome.
>
>
>
>
>
> On Tue, 1 Jun 2021 at 14:12, fiji-newbie <
[hidden email]> wrote:
>
> > First of all, I wanted to say I ahve searched this question in the group
> > before and I have copy-pasted the answers I have seen so far. However,
> this
> > does not seem to work for me and I am pretty sure that it has to do with
> my
> > ineptitude for understanding code.
> > I set up a 20x20 stitching of my sample for the 1st time and the
> microscope
> > software returned a single .czi file which, when opened with ImageJ,
> > prompts
> > 400 windows to open at the same time. I would like to save each of these
> as
> > an independent tiff "merged" file with sequential names so that I can
> > stitch
> > them later using a tutorial I saw on YouTube.
> > But right now I have tried the snippets of code that I have seen in the
> > forum with no luck. I go to Plugins>New>Macro and write the code, save it
> > in
> > a folder, and then go to Plugins>Run>Macro and click on it. It just
> saves a
> > single channel of the most recent image (number 400) in the output folder
> > and calls it a day.
> > This is the code I've tried so far:
> > dir = getDirectory("M:\Confocal\20210507\NewStitch");
> > ids=newArray(nImages);
> > for (i=0;i<nImages;i++) {
> > selectImage(i+1);
> > title = getTitle;
> > print(title);
> > ids[i]=getImageID;
> >
> > saveAs("tiff", dir+title);
> > And I am not sure
> > 1. Why it doesn't save 400 images in the output folder
> > 2. How to add a line of code that merges both channels. In my case,
> channel
> > 1 = red color & channel 2 = grey color.
> > Any help would be greatly appreciated!
> > <nabble_img src="Capture-ImageJ.png" border="0"
> > alt="Screenshot of ImageJ with 400 opened images and copy-pasted
> > code"/>
> >
> >
> >
> > --
> > Sent from:
http://imagej.1557.x6.nabble.com/> >
> > --
> > ImageJ mailing list:
http://imagej.nih.gov/ij/list.html> >
>
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