Re: Recorder not always working in java

Posted by CARL Philippe (LBP) on Jun 27, 2016; 7:08am
URL: http://imagej.273.s1.nabble.com/Recorder-not-always-working-in-java-tp5016723p5016732.html

Dear Wayne,
I thank you very much for your answer and apologize really for making you work so hard in the week-end.
I have updated ImageJ to the Daily build version, but the stacks I want to concatenete don't have a similar size, and thus I get the following error: "Cannot create 4D image because stack sizes are not equal." when I use the code "imp = Concatenator.run(imp1, imp2);".
I even tried to fix the problem by doing:
                                Concatenator concatenator = new Concatenator();
                                concatenator .setIm5D(false);
                                imp = concatenator.concatenate(imp1, imp2, false);
But this didn't make it either.
It seems there is no access (unless I missed it) in the plugin to turn off the "Open as 4D image" option which I would need.
Kindest regards,
Philippe

Le Dimanche 26 Juin 2016 18:25 CEST, "Rasband, Wayne (NIH/NIMH) [E]" <[hidden email]> a écrit:

> > On Jun 24, 2016, at 6:08 AM, Philippe CARL <[hidden email]> wrote:
> >
> > Dear all,
> >
> > I would like to perform something quite easy, which is namelly :
> >
> > -          Open 2 stack pictures
> >
> > -          Concatenate them
> >
> > -          Transform them into an hyperstack
>
> Use code similar to this JavaScript example (requires 1.51e13 or later):
>
>   img1 = IJ.createImage("stack1","8-bit ramp",500,500,50);
>   img2 = IJ.createImage("stack2","8-bit random",500,500,50);
>   img3 = Concatenator.run(img1,img2);
>   img3.show();
>
> The output stack is automatically transformed into an hyperstack. Use
>
>     IJ.run(img3,"Hyperstack to Stack", "”);
>
> to convert it to a normal stack.
>
> The Recorder in 1.51e13 or later generates code similar to the example above.
>
> -wayne
>
> > And I would like to perform all this in java, thus I launched the macro
> > recorder (set to java) and I obtained the following plugin:
> >
> > import ij.*;
> >
> > import ij.process.*;
> >
> > import ij.gui.*;
> >
> > import java.awt.*;
> >
> > import ij.plugin.*;
> >
> >
> > public class My_Plugin implements PlugIn {
> >
> >                public void run(String arg) {
> >
> >                               ImagePlus imp = IJ.openImage("Z:\\p1.tif");
> >
> >                               imp = IJ.openImage("Z:\\p2.tif");
> >
> >                               IJ.run("Concatenate...", "
> > title=[Concatenated Stacks] image1=[p1.tif] image2=[p2.tif] image3=[-- None
> > --]");
> >
> >                                imp2 = HyperStackConverter.toHyperStack(imp,
> > 1, 14, 60, "default", "Grayscale");
> >
> >                               imp.show();
> >
> >                }
> >
> > }
> >
> > Which once compiled wasn't working.:(
> >
> > Thus I made some corrections to fix some of the found errors to finally
> > obtain the following code:
> >
> >                               ImagePlus imp = IJ.openImage("Z:\\p1.tif");
> >
> >                               imp.show();
> >
> >                               imp = IJ.openImage("Z:\\p2.tif");
> >
> >                               imp.show();
> >
> >                               IJ.run("Concatenate...", "
> > title=[Concatenated Stacks] image1=[p1.tif] image2=[p2.tif] image3=[-- None
> > --]");
> >
> >                               imp = IJ.getImage();
> >
> >                               ImagePlus imp2 =
> > HyperStackConverter.toHyperStack(imp, 1, 14, 60, "default", "Grayscale");
> >
> >                               imp2.show();
> >
> > But as this code isn't giving any more errors it is not making the

> > HyperStack conversion either.
> >
> > Thus how should I need to write the code in order to perform the HyperStack
> > conversion?
> >
> > I thank you very much in advance for your help.
> >
> > My best regards,
> >
> > Philippe
>
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