Image properties

Hi guys!

Thanks for the KNIP 1.1.0! I really like it that one can assign color models to labelings now. I discovered though that the image properties node does not read out the image calibration data correctly. I attached an example image. Instead of the correct calibration (which is 0.33... microns for X, Y and Z voxel size) the image properties node just gives 1.0 for every dimension.

Another nasty thing is that all the ImageJ1 Macro nodes are missing from my workflows with the new version. When I try to use ImageJ Macro nodes I get the error: The selected node could not be created due to the following reason: net/imglib2/meta/Metadata

Maybe there is  a way to fix it.

Thanks for your help!

Christian

Hi Christian,

about the image properties: we will take care about that as soon as possible. In general: We want to have many more bug-fix releases (like 1.1.1 etc) in the future. So this fix (and any further fix) should be available in a stable version soon.

About the second problem: I guess you updated you KNIP using the update-mechanism and you had the nightly build installed before? We had a minor problem at the nightly build, so this may be the reason.

How to fix that option A: Try to replace the ImageJ Macro nodes with a freshly dragged/dropped ImageJ Macro Node from the node repository.

How to fix that option B: Try to uninstall each KNIME Image Processing Plugins (Help-> About KNIME -> Installation Details) and afterwards go into the KNIME Folder/plugins and delete any folder starting with "org.knime.knip.". Afterwards reinstall KNIP 1.1.0.

How to fix that option C: Set-up a fresh KNIME 2.9 with KNIP 1.1.0 stable!

If neither A nor B nor C help, let us know. Then something strange must be going on ;-)

I hope this helps!

Christian

 

Hi Christian,

Thanks for your advice. At least the ImageJ Macro nodes are working again after option C.

Christian

Hi Christian,

finally I found some time to have a look at the calibration problem. There is a problem with the calibration and tiff format in the SCIFIO Library (scif.io, pretty cool) which we use since 1.1.0. I reported the bug to the maintainer and usually it gets fixed pretty fast. This fix will then be part of our KNIME Image Processing 1.1.1 bug-fix-release release mid janurary. Anyway, I will also let you know in the forum topic, as soon as it is available in our nightly build.

Thank you for reporting, we appreciate it a lot!


Christian

 

Hi Christian,

we were able to fix the calibration issue (thanks to mark hiner). The fix will be available in approx. 1 hour on our nightly build.


Cheers,

Christian

 

That's great! Thanks for fixing that so fast.

Christian