Posted by
Krs5 on
May 20, 2015; 9:51am
URL: http://imagej.273.s1.nabble.com/Problems-running-Versatile-Wand-in-batch-mode-tp5012873p5012884.html
Sorry, cannot reproduce the problem. An image is saved with a selection included.
Running Fiji on Windows 7
Kees
-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of Avital Steinberg
Sent: 20 May 2015 10:36
To:
[hidden email]
Subject: Re: Problems running Versatile Wand in batch mode
Thanks, but the problem isn't solved. Can anyone else check if they're having similar problems running this code? Does this code create a selection in the saved image also for you?
setBatchMode(true);
open();
image1ID = getImageID();
open();
image2ID = getImageID();
selectImage(image1ID);
if(isActive(image1ID)){
print("The first image is active");
}
else {
print("The first image isn't active"); }
if(isActive(image2ID)){
print("The second image is active"); } else {
print("The second image isn't active"); } makePoint(1854, 726); run("Gaussian Blur...", "sigma=2"); run("Set Scale...", "distance=0"); run("Versatile Wand", "value=60 color=-100 gradient=10 connectedness=8-connected x=2 y=2 do"); run("ROI Manager..."); roiManager("Add"); saveAs("Tiff");
I am using ImageJ 1.49t7, which came with Java 1.6.0_065 (64 bit). I am running it on a mac, but I had the same problems also on a Linux machine with ImageJ 1.49s and java 1.6.0_24.
MakePoint isn't needed, but it's besides the point, since the bug has nothing to do with it and exists also without it.
Thanks,
Avital
On Tue, May 19, 2015 at 6:25 PM, Michael Schmid <
[hidden email]>
wrote:
> Hi Avital,
>
> sorry, I can't reproduce the problem. Your macro works; it blurs the
> first image and does the wand selection on it. I also get the
> selection in the ROI Manager.
> I tried with both 8-bit grayscale as well as RGB images.
>
> What I don't understand is the "makePoint(1854, 726)" command;
> Gaussian Blur does not care about point selections. So it blurs the whole image.
>
> I am using ImageJ 1.49u4, Java 1.6.0_45.
>
> Michael
> ________________________________________________________________
> On May 19, 2015, at 17:01, Avital Steinberg wrote:
>
> > Hi,
> > I'm trying to use Versatile Wand in batch mode. The following macro
> > works well in batch mode:
> >
> > setBatchMode(true);
> > open();
> > makePoint(1854, 726);
> > run("Gaussian Blur...", "sigma=2");
> > run("Set Scale...", "distance=0");
> > run("Versatile Wand", "value=60 color=-100 gradient=10
> > connectedness=8-connected x=2 y=2 do"); run("ROI Manager...");
> > roiManager("Add"); saveAs("Tiff");
> >
> > However - when I try to work with multiple images, select the active
> image
> > and then use the Versatile Wand, no selection is created:
> >
> > setBatchMode(true);
> > open();
> > image1ID = getImageID();
> > open();
> > image2ID = getImageID();
> > selectImage(image1ID);
> > if(isActive(image1ID)){
> > print("The first image is active"); } else {
> > print("The first image isn't active"); }
> >
> > if(isActive(image2ID)){
> > print("The second image is active"); } else {
> > print("The second image isn't active"); } makePoint(1854, 726);
> > run("Gaussian Blur...", "sigma=2"); run("Set Scale...",
> > "distance=0"); run("Versatile Wand", "value=60 color=-100
> > gradient=10
> connectedness=8-connected x=2 y=2 do");
> > run("ROI Manager...");
> > roiManager("Add");
> > saveAs("Tiff");
> >
> > Why wouldn't this script work? Only one image is active.
> >
> > Thank you,
> > Avital
>
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