(no subject)

[verified.human]

CONTENTS DELETED

The author has deleted this message.

[Mohamed Tleis]

Thank you Tom,
Can you help me in setting the parameters?

Here is what I tried,
       ParticleAnalyzer pa = new ParticleAnalyzer();
        pa.analyze(imp);
        drawIm = pa.getOutputImage();
        drawIm.show();
But still getting Null Pointer Exception, I couldn't find any function to
set the parameters as I used to do in the run command:

IJ.run(imp, "Analyze Particles...", "size=250-Infinity pixel
circularity=0.00-1.00 show=Outlines add");

Best Regards,
Mohamed Tleis

On Wed, Jan 18, 2012 at 3:55 PM, Tom Runia <[hidden email]> wrote:

> I think you are better off using the ParticleAnalyzer class:
>
> http://rsbweb.nih.gov/ij/developer/api/ij/plugin/filter/ParticleAnalyzer.html
>
> First you set all the parameters and use the analyze() method to analyze
> your image. Afterwards you can use the getOutputImage() method to get an
> ImagePlus object of the image containing the outlines. Then you can simple
> save this image. Hopefully it helps!
>
> Best,
>
> Tom
>
>
> 2012/1/18 Mohammed Tlais <[hidden email]>
>
> > Dear Folks,
> >
> > I want to save the outlines of my particles, but not succeeding in that.
> >
> > The following code is supposed to show the Outlines of my particles
> >
> > IJ.run(finIm, "Analyze Particles...", "size=250-Infinity pixel
> > circularity=0.00-1.00 show=Outlines add");
> >
> > Now how can I save it?
> > I was trying the following (since the outlines are automatically named
> > Drawing Of Title )
> >
> >        ImagePlus imp = new ImagePlus();
> >        imp = WindowManager.getImage("Drawing Of " + title );
> >        IJ.save(imp, imDir\\Drawing Of "+ title +".tif" );
> >
> > But this is saving the original images!!
> > trying to do imp.show(); gives a null pointer exception error !!
> >
> > Can you provide me with help or suggestions please?
> >
> > Best Regards,
> > Mohamed Tleis
> >
>

[Olivier Burri]

Hello,
You need to use the
ParticleAnalyzer(int options, int measurements, ResultsTable rt, double minSize, double maxSize)
constructor

int options = ParticleAnalyzer.OUTLINES;
int measurements = ParticleAnalyzer.MEAN + ParticleAnalyzer.AREA; // Maybe you can put "0" or Analyzer.getMeasurements() to get the current measurement options;
ResultsTable rt = new ResultsTable();

ParticleAnalyzer pa = new ParticleAnalyzer(options, measurements, rt, 250, Double.MAX_VALUE );

And then followed by your code.

Let me know if this helps.

Best

Oli

Olivier Burri
Engineer, Development in Image Processing
BioImaging and Optics platform (PTBIOP)
Tel: [+4121 69] 39629

________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of Mohammed Tlais [[hidden email]]
Sent: Thursday, January 19, 2012 10:12 AM
To: [hidden email]
Subject:

Thank you Tom,
Can you help me in setting the parameters?

Here is what I tried,
       ParticleAnalyzer pa = new ParticleAnalyzer();
        pa.analyze(imp);
        drawIm = pa.getOutputImage();
        drawIm.show();
But still getting Null Pointer Exception, I couldn't find any function to
set the parameters as I used to do in the run command:

IJ.run(imp, "Analyze Particles...", "size=250-Infinity pixel
circularity=0.00-1.00 show=Outlines add");

Best Regards,
Mohamed Tleis

On Wed, Jan 18, 2012 at 3:55 PM, Tom Runia <[hidden email]> wrote:

> I think you are better off using the ParticleAnalyzer class:
>
> http://rsbweb.nih.gov/ij/developer/api/ij/plugin/filter/ParticleAnalyzer.html
>
> First you set all the parameters and use the analyze() method to analyze
> your image. Afterwards you can use the getOutputImage() method to get an
> ImagePlus object of the image containing the outlines. Then you can simple
> save this image. Hopefully it helps!
>
> Best,
>
> Tom
>
>
> 2012/1/18 Mohammed Tlais <[hidden email]>
>
> > Dear Folks,
> >
> > I want to save the outlines of my particles, but not succeeding in that.
> >
> > The following code is supposed to show the Outlines of my particles
> >
> > IJ.run(finIm, "Analyze Particles...", "size=250-Infinity pixel
> > circularity=0.00-1.00 show=Outlines add");
> >
> > Now how can I save it?
> > I was trying the following (since the outlines are automatically named
> > Drawing Of Title )
> >
> >        ImagePlus imp = new ImagePlus();
> >        imp = WindowManager.getImage("Drawing Of " + title );
> >        IJ.save(imp, imDir\\Drawing Of "+ title +".tif" );
> >
> > But this is saving the original images!!
> > trying to do imp.show(); gives a null pointer exception error !!
> >
> > Can you provide me with help or suggestions please?
> >
> > Best Regards,
> > Mohamed Tleis
> >
>