Re: Substack and composite

Posted by Wayne Rasband-2 on Oct 06, 2018; 4:36am
URL: http://imagej.273.s1.nabble.com/Substack-and-composite-tp5021285p5021287.html

> On Oct 5, 2018, at 6:57 PM, Houssin, Nathalie Samantha Laetitia <[hidden email]> wrote:
>
> Hello,
>
> It might seem a very basic thing to do but I would like some advice on generating a composite from a stack :
> I tried to make it like this:
>
>  1.  Open .oir file in FIJI (using Pluging > OlympusViewer>Viewer)
>  2.  Select z-section
>     *   Image>Stacks>Tools>Make Substack
>     *   Enter section number (z-value)
> When I do this, an exception message appears :

Please provide a MWE (https://en.wikipedia.org/wiki/Minimal_working_example) that reproduces the problem. The following example macro works as expected.

  newImage("HyperStack","16-bit composite-mode label",256,256,3,100,1);
  run("Make Substack...","channels=1-3 slices=50”);

-wayne

> java.lang.IllegalArgumentException: Channel out of range
>                at ij.CompositeImage.setChannelLut(CompositeImage.java:538)
>                at ij.plugin.SubHyperstackMaker.makeSubhyperstack(SubHyperstackMaker.java:121)
>                at ij.plugin.SubHyperstackMaker.makeSubhyperstack(SubHyperstackMaker.java:60)
>                at ij.plugin.SubHyperstackMaker.run(SubHyperstackMaker.java:50)
>                at ij.plugin.SubstackMaker.run(SubstackMaker.java:33)
>                at ij.IJ.runPlugIn(IJ.java:198)
>                at ij.Executer.runCommand(Executer.java:137)
>                at ij.Executer.run(Executer.java:66)
>                at java.lang.Thread.run(Thread.java:745)
>
> And I can't generate a composite file. Any tip on how to proceed will be welcome
>
> Thank you for your time,
>
> Bests,
>
> Nathalie
>
> Nathalie HOUSSIN

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