[ImageJ-devel] Performing convolution using ImageJ2

[Thorsten Wagner]

Dear Brian,
thank you for your efforts! Your example works perfectly! 
Thank you very much.
Cheers,
Thorsten
Am Dienstag, den 21.04.2015, 11:56 -0400 schrieb Brian Northan:
> Hi Thorsten
> 
> Your code looks fine.  It is a problem in my convolution ops code.
> 
> I updated the convolution branch in tutorials to work with your use
> -case.  
> 
> https://github.com/imagej/imagej-tutorials/blob/convolution/using
> -ops/src/main/java/ConvolutionOps.java
> 
> The problem was that the ops framework did not correctly choose
> 'NaiveConvolution' (direct convolution with small kernel).  Then
> even when I forced it to (by referring to NaiveConvolution.class
> directly) it did not extend the images properly (see 
> https://github.com/imagej/imagej-ops/issues/98)
> 
> If you get a chance let me know if this new example works.  The
> example is now too complicated, but if it works for you I can spend
> some time this week integrating this logic into the op (so you can
> write nice concise code). 
> 
> Brian
> 
> On Tue, Apr 21, 2015 at 9:35 AM, Thorsten Wagner <
> wagner at biomedical-imaging.de> wrote:
> > Dear Brian,
> > 
> > thank you for the link! I'm approaching to a solution. However, I
> > followed your tutorial but I stell get a exception:
> > http://pastebin.com/vn84LCXx
> > 
> > That's my code:
> > http://pastebin.com/jeuXaycN
> > 
> > What I'm doing wrong?
> > 
> > Cheers,
> > Thorsten
> > 
> > 
> > > 
> > > On Mon, Apr 20, 2015 at 4:25 PM, Curtis Rueden <ctrueden at wisc.edu
> > > > wrote:
> > > > Hi Thorsten,
> > > > 
> > > > > I try to perform a simple convolution using imagej2.
> > > > Unfortunately, it
> > > > > failed!
> > > > 
> > > > The exception you receive is because you are creating a new
> > > > ImageJ application context, rather than reusing the existing
> > > > one. This happens because you write:
> > > > 
> > > >    final ImageJ ij = new ImageJ();
> > > > 
> > > > The handle to the existing context can be obtained in one of
> > > > two ways:
> > > > 
> > > > 1) If you are writing an ImageJ1 plugin (e.g., an
> > > > ij.plugin.Plugin), then you can write:
> > > > 
> > > >     // retrieve the ImageJ application context
> > > >     final Context context = (Context)
> > > > IJ.runPlugIn("org.scijava.Context", "");
> > > >     final ImageJ ij = new ImageJ(context);
> > > > 
> > > > 2) If you are writing an ImageJ2 plugin, then you can write:
> > > > 
> > > >     @Parameter
> > > >     private OpService ops
> > > > 
> > > > And just call "ops.convolve(...)" in your code.
> > > > 
> > > > Or if you really want the "ImageJ" object, you can write:
> > > > 
> > > >     @Parameter
> > > >     private ImageJ ij;
> > > > 
> > > > See also:
> > > > https://github.com/imagej/imagej-tutorials/
> > > > 
> > > > Regards,
> > > > Curtis
> > > > 
> > > > On Mon, Apr 20, 2015 at 4:53 AM, Thorsten Wagner <
> > > > wagner at biomedical-imaging.de> wrote:
> > > > > Dear list,
> > > > > 
> > > > > I try to perform a simple convolution using imagej2.
> > > > > Unfortunately, it
> > > > > failed!
> > > > > 
> > > > > This is my code:
> > > > > http://pastebin.com/CqBgcLXd
> > > > > 
> > > > > This is the exception:
> > > > > http://pastebin.com/KHkeGGAJ
> > > > > 
> > > > > I would be grateful for any help.
> > > > > 
> > > > > Regards,
> > > > > Thorsten
> > > > > 
> > > > > _______________________________________________
> > > > > ImageJ-devel mailing list
> > > > > ImageJ-devel at imagej.net
> > > > > http://imagej.net/mailman/listinfo/imagej-devel
> > > > > 
> > > > 
> > > > _______________________________________________
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> > > > http://imagej.net/mailman/listinfo/imagej-devel
> > > > 
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