Re: RGB tiff saving as Composite

Posted by Wayne Rasband-2 on Jul 17, 2017; 3:06pm
URL: http://imagej.273.s1.nabble.com/RGB-tiff-saving-as-Composite-tp5019065p5019077.html

> On Jul 14, 2017, at 2:49 PM, Glen MacDonald <[hidden email]> wrote:
>
> My macro stitches z-series confocal images into a montage, all as composite images.  The macro converts the resulting montage into an RGB.
> but, saving the image writes a composite image.  I can pause the montage and verify that it is a RGB montage stack with a header info that says “RGB" , but, manually saving it still creates a composite!  I’m pretty sure this used to work.
> Is this a bug or am I overlooking something?  I”m pretty certain this used to work.

Do you have “Use SCIFIO when opening files (BETA!)” checked in the Edit>Options>ImageJ2 dialog? RGB tiff files open as composite when this option is enabled.

-wayne

>  Create montage code...
> Composite to RGB conversion:
> selectWindow("montage");
> run("Arrange Channels...", "new=321");
> Stack.setDisplayMode("color");
> Stack.setChannel(1);
> run("Red");
> Stack.setChannel(2);
> run("Green");
> Stack.setChannel(3);
> run("Blue");
> //Stack.setChannel(4);
> //run("Grays");
> Stack.setDisplayMode("composite");
> run("Stack to RGB", "slices");
> Save the file:
> saveAs("tiff",target+sep+dirname);
>
> Thanks,
> Glen MacDonald
> Digital Microscopy Center
> Box 357923
> University of Washington
> Seattle, WA 98195-7923  USA
> [phone]
> depts.washington.edu/digmicro
> [hidden email]
>
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