Dear Curtis,
> there is nothing "wrong" per se with calling "imagej.Main.launch()"
if what you really want is for the ImageJ application to pop up. So no
worries there.
That is good news, it is exactly what I am trying to do.
I wrote previously :
"If I use this instance to open an lsm image with 2 channels, the image
isn't loaded properly, only one channel is visable and trying to split
channels will ask me for arguments and won't be done."
When I was trying to regenerate the problem with minimal code, I figured
out that the problem was due to wrong loading of imageJ in the following
way:
public class launchij2 {
launchij2()
{
ImageJ ij = new ImageJ();
ij = imagej.Main.launch();
}
public static void main(String args[])
{
new launchij2();
}
}
I learned that <ij = mageJ.Main.launch();> doesn't replace the <ij = new
ImageJ();>; but somehow mix things together. Is this an expected behaviour?
Best Regards,
Mohamed Tleis
On 06/25/2013 09:03 PM, Curtis Rueden wrote:
Hi Mohamed and everyone,
I agree with Johannes that using "new ImageJ()" is better for
programmatic use, in that it is more flexible. That said, there is
nothing "wrong" per se with calling "imagej.Main.launch()" if what you
really want is for the ImageJ application to pop up. So no worries there.
As for your reported problem, I have a couple of questions:
> If I use this instance to open an lsm image with 2 channels
Please note that ImageJ2 does not support LSM out of the box. You need
either Bio-Formats or LSM_Reader for that (which at the moment are
ImageJ1 plugins, and will be run using the IJ2's legacy layer). If you
open an LSM with File > Open right now, I believe it will open as a
vanilla TIFF file, which may not read all the metadata, and may
misinterpret some Zeiss-specific image parameters.
> Note that opening the imageJ from the provided executable works fine.
Hmm, you mean if you launch ImageJ2 from the launcher, then open your
LSM file, it behaves as expected? Then there may indeed be a bug
lurking here somewhere. Do you have a sample non-working image file
you can upload via the Help > Upload Sample Image command? That, along
with specific brief instructions about what doesn't work, would be
very helpful to diagnose and fix the problem.
Thanks,
Curtis
On Mon, Jun 24, 2013 at 9:54 AM, Mohamed Tleis
<mohammedtl...@hotmail.com <mailto:mohammedtl...@hotmail.com>> wrote:
Dear Developers,
from inside my code I am calling imageJ through
ImageJ ij = new ImageJ.Main.launch();
If I use this instance to open an lsm image with 2 channels, the
image isn't loaded properly, only one channel is visable and
trying to split channels will ask me for arguments and won't be done.
Note that opening the imageJ from the provided executable works
fine. I suppose the launch method needs some arguments to be
passed. Can you please show me an example to how to do this?
Best Regards,
M. Tleis
_______________________________________________
ImageJ-devel mailing list
ImageJ-devel@imagej.net <mailto:ImageJ-devel@imagej.net>
http://imagej.net/mailman/listinfo/imagej-devel
_______________________________________________
ImageJ-devel mailing list
ImageJ-devel@imagej.net
http://imagej.net/mailman/listinfo/imagej-devel
