Race condition in Javascript

[Avital Steinberg]

Hi,
I am experiencing a problem with ImageJ: I open a few images. Then I select
an image and I want to run a command on it. The problem is that the command
is executed before the previous command (opening the image) is completed.
So - I get an error message saying that imageA is not open, and when I
click OK, imageA opens.

I didn't have this problem when I was running the same script in the macro
language.

Does anyone have a suggestion how to fix it?

Thanks,
Avital

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[Rasband, Wayne (NIH/NIMH) [E]]

> On Aug 29, 2015, at 2:48 AM, Avital Steinberg <[hidden email]> wrote:
>
> Hi,
> I am experiencing a problem with ImageJ: I open a few images. Then I select
> an image and I want to run a command on it. The problem is that the command
> is executed before the previous command (opening the image) is completed.
> So - I get an error message saying that imageA is not open, and when I
> click OK, imageA opens.
>
> I didn't have this problem when I was running the same script in the macro
> language.
>
> Does anyone have a suggestion how to fix it?

Always use versions of IJ.run() that include an ImagePlus argument, as in the following example. Note that the image is never displayed.

  img = IJ.openImage("http://imagej.nih.gov/ij/images/Cell_Colony.jpg");
  IJ.run(img, "Invert", "");
  IJ.run(img, "Gaussian Blur...", "sigma=2");
  IJ.run(img, "Subtract Background...", "rolling=25");
  IJ.setAutoThreshold(img, "IsoData dark");
  IJ.run(img, "Analyze Particles...", "size=10 show=[Overlay Outlines] exclude");
  print("count="+ img.getOverlay().size());

-wayne

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[Avital Steinberg]

Hi Wayne,
Thanks - initially, I was translating my code from the macro language to
Javascript, so I used IJ.selectWindow instead of selectWindow, but I will
change that. It makes much more sense to always use the ImagePlus,

Avital

On Sat, Aug 29, 2015 at 6:44 PM, Rasband, Wayne (NIH/NIMH) [E] <
[hidden email]> wrote:

> > On Aug 29, 2015, at 2:48 AM, Avital Steinberg <[hidden email]>
> wrote:
> >
> > Hi,
> > I am experiencing a problem with ImageJ: I open a few images. Then I
> select
> > an image and I want to run a command on it. The problem is that the
> command
> > is executed before the previous command (opening the image) is completed.
> > So - I get an error message saying that imageA is not open, and when I
> > click OK, imageA opens.
> >
> > I didn't have this problem when I was running the same script in the
> macro
> > language.
> >
> > Does anyone have a suggestion how to fix it?
>
> Always use versions of IJ.run() that include an ImagePlus argument, as in
> the following example. Note that the image is never displayed.
>
>   img = IJ.openImage("http://imagej.nih.gov/ij/images/Cell_Colony.jpg");
>   IJ.run(img, "Invert", "");
>   IJ.run(img, "Gaussian Blur...", "sigma=2");
>   IJ.run(img, "Subtract Background...", "rolling=25");
>   IJ.setAutoThreshold(img, "IsoData dark");
>   IJ.run(img, "Analyze Particles...", "size=10 show=[Overlay Outlines]
> exclude");
>   print("count="+ img.getOverlay().size());
>
> -wayne
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

... [show rest of quote]

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