split image

[Lenka Polaskova]

Hello, please is there any possibility how to split one image into several independent parts (i.e. to halfs, quaters) ? Thank for answer

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[ctrueden]

Hi Lenka,

> how to split one image into several independent parts

Here is a macro that chops an image into NxN tiles, where N is the number
of divisions you choose:

n = getNumber("How many divisions (e.g., 2 means quarters)?", 2);
id = getImageID();
title = getTitle();
getLocationAndSize(locX, locY, sizeW, sizeH);
width = getWidth();
height = getHeight();
tileWidth = width / n;
tileHeight = height / n;
for (y = 0; y < n; y++) {
offsetY = y * height / n;
 for (x = 0; x < n; x++) {
offsetX = x * width / n;
selectImage(id);
 call("ij.gui.ImageWindow.setNextLocation", locX + offsetX, locY + offsetY);
tileTitle = title + " [" + x + "," + y + "]";
 run("Duplicate...", "title=" + tileTitle);
makeRectangle(offsetX, offsetY, tileWidth, tileHeight);
 run("Crop");
}
}
selectImage(id);
close();

HTH,
Curtis


On Mon, Jan 14, 2013 at 2:56 PM, Lenka Polaskova <[hidden email]
> wrote:

> Hello, please is there any possibility how to split one image into several
> independent parts (i.e. to halfs, quaters) ? Thank for answer
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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[Cammer, Michael]

There are a lot of ways to do this.

Look at the command Image > Stacks > Tools > Montage To Stack...


Or for more flexibility, macros like this can be written.

macro "split horizontally" {
  original = getImageID;
  title = getTitle;
  height = getHeight;
  width = getWidth;
  halfWidth = width / 2;
  makeRectangle(0, 0, halfWidth, height);
  run("Duplicate...", "title=left_"+title+" duplicate");
  selectImage(original);
  makeRectangle(halfWidth+1, 0, halfWidth, height);
  run("Crop");
  rename("right_"+title);
}
________________________________________________________
Michael Cammer, Assistant Research Scientist
Skirball Institute of Biomolecular Medicine
Lab: [phone]  Cell: [phone]




-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Lenka Polaskova
Sent: Monday, January 14, 2013 3:57 PM
To: [hidden email]
Subject: split image

Hello, please is there any possibility how to split one image into several independent parts (i.e. to halfs, quaters) ? Thank for answer

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[Antoinette]

The answer is positive, for that Ive been using a image spliting dll control in my image developing, using image spliting function, users can split multi-page image into one single pages, users also split a image into different parts.

[lucywill]

it would be easy to split large image files into small and separate parts as long as you have releveant image splitting control.
here is a tiff splitting control, give a try.

[ALR]

Dear Curtis, I am taking 4x4 confocal tiles with a 40x/1.4NA objective with 2x oversampling (following nyquist criterion); meaning, my slices are rather thin. Because of mounting and/or uneven illumination, the images in the tile are not in the same focal plane. To solve this, I have borrowed your code to split the titles into 16 images (thank you very much for the code, by the way), I then find the bottom of the cells in each image and crop stacks to the same dimensions for reassembly with all images in the same focal plane. Now I want to put the tile back together. In my splitting I named each image with coordinates _x{x}_y{y} so I could reassemble them using Preibisch's Grid/Collection Stitching Plugin. The problem is my slices are rather thin (0.33um) and after reassembling the image I obtain jumbled channels. I do not want to copy each slice several times to do the stitching (as recommended), just to have to remove them later. Each original tile is a bit shy of 1Gb as it is. If at all possible, I would rather put the tile back together the same way I took it apart. I have been trying to find a solution but it has evaded me. These images have no overlap, but I know how to put them together using the _x{x}_y{y} coordinates, is there a way to reassemble the 4x4 tile without FFT and data jumbling? What would you suggest? Thank you very much in advance!! All best, Andrés

[ALR]

I forgot to add. I have tried the Stack Combiner function and it will not work. Do not know why...

[ALR]

OK

On Apr 20, 2015, at 2:33 PM, ALR [via ImageJ] <[hidden email]> wrote:

I forgot to add. I have tried the Stack Combiner function and it will not work. Do not know why...

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[ctrueden]

Hi Andrés,

> is there a way to reassemble the 4x4 tile without FFT and data jumbling?

The Stitching plugin is one decent way to go. That plugin has two steps,
overlap computation and fusion; my understanding is that Fourier space is
only used for the overlap computation step. The plugin has a "compute
overlap" option you can uncheck to skip that in favor of using coordinates
provided from elsewhere (typically a TileConfiguration.txt file).

But given that you have exactly zero overlap, even that fusion step is
overkill. You might be better served by:

- Creating the new full size image as a blank
- Using ImageJ's copy & paste functionality to paste each tile onto the
proper position of the big image

Unfortunately, I couldn't see a function to control where the paste happens
(it is centered by default). The low-level API is there to do it somewhere
else, though it would take some digging in the IJ1 code [1] to figure it
out.

Regards,
Curtis

[1]
https://github.com/imagej/ImageJA/blob/v1.49r/src/main/java/ij/gui/Roi.java#L1352-L1359


On Mon, Apr 20, 2015 at 2:33 PM, ALR <
[hidden email]> wrote:

> I forgot to add. I have tried the Stack Combiner function and it will not
> work. Do not know why...
>
>
>
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> Sent from the ImageJ mailing list archive at Nabble.com.
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