IJ-openCV version of Update site vs github

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#1

Hi,

I have a question about IJ-openCV, specifically the version of the update site and the github repository. Both provide version 1.2.1 of IJ-OpenCV-1.2.1.jar but in the one from the update site some converter modules seem to be missing.
In Eclipse using the dependency

		<dependency>
			<groupId>io.github.joheras</groupId>
			<artifactId>IJ-OpenCV</artifactId>
			<version>1.2.1</version>
		</dependency>

in the pom.xml the converters are available.
In FIJI via the update site of IJ-openCV the methods are missing:
Exception in thread "Run$_Thread-5" java.lang.NoSuchMethodError: ijopencv.opencv.MatImagePlusConverter.toImagePlus(Lorg/bytedeco/javacpp/opencv_core$Mat;)Lij/ImagePlus;

Manually replacing the jar with the one from the github release solves that.

Will the version on github migrate to the update site eventually? Or is there a better way to convert from openCV mat to ImagePlus I’m not aware of jet?

Any help or info is much appreciated.
Many thanks,
Manuel

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#2

… also regarding the IJ-openCV update site: it deliveres javacpp and javacv jars in version 1.4.2. I stumbled upon a bug fixed from javacpp 1.4.4 on. Can I make a request to include at least these versions, or does that breake a whole lot of other things /other reasons to stick with the included versions?
I just found out on the IJ-openCV Github pages that issues should be reported there or to @joheras and/or @LThomas. Since I started here in the forum I hope it’s ok if I continue to post this here. Otherwise I’ll open an issue over there, whatever is more approriate.

Regards,
Manuel

#3

Hi Manuel,

I remember adding this conversion method in a PR, apparently I did a release on GitHub stating that it’s the same as the Fiji version but I don’t actually have the update rights on this site, so it might not have been the case sorry :sweat_smile:

@joheras could you upload the latest release version from GitHub to the update site as suggested ?

Not that I know, but before the PR I mentioned above one had to first do Mat > ImageProcessor and then ImageProcessor > ImagePlus, so this should work with the current version on the update site.

It does not seem to be a code-breaking update if the versioning is correct (minor version change right?).
We could give it a try, testing plugins we know to use javacpp/javacv.
I know @Christian_Tischer also uses it for some stuff.

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#4

Hi Laurent,

great, many thanks! I’ll try to first convert to ImageProcessor and then to ImagePlus, if that works out that’s solved.

The bug in javacpp/javacv occurs for me only in Win7, but unfortunately we’re stuck on a microscope PC with that currently.

Again, thank you & best regards,
Manuel

#5

Thanks for thinking about me, but don’t worry as my code for this is not really in use.

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#6

Sure, I will upload the latest release version from GitHub to the update site.
Best,
Jónathan

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#7

Thanks @joheras.

@manugu I wanted to test with version 1.4.4, I could find javacpp and javacv 1.4.4 on Maven central but not the corresponding opencv artifacts from bytedeco.

Like currently the update site ships opencv-3.4.2-1.4.2.jar and a bunch of platform specific jars, and I believe the version should match javacpp, so I was looking for opencv-x.x.x-1.4.4.jar but I could not find it anywhere. Any clues ?

#8

Hi @lthomas,

I could find this:
https://maven.scijava.org/#nexus-search;gav~org.bytedeco.javacpp-presets~opencv~~~~kw,versionexpand
But I have not tested that yet!

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#9

Great, however it means changing the opencv major version from 3 to 4.
Hopefully it wont be much of an issue…
I will test that, I put here a link to the artifacts to replace in Fiji.app/jars to test this version 1.4.4/4.0.1
I could not upload directly the zip on the forum (too heavy maybe ?)

Feel free to try it too @joheras with your plugins :wink:
https://hs2670-my.sharepoint.com/:u:/g/personal/l_thomas_acquifer_de/EQX-3kVHeENDlnq8S3ns10MBMSF3KAaV7W712z-k93qhIQ?e=Yq7fC0

#10

Great thank you @LThomas!
Putting the jars in works, at least on my end. Hopefully for you all too :wink:
Your collection of jars is really helpful.

I just noticed that core FIJI also comes with javacv1.4.4 and IJ-openCV replaces that with 1.4.2 at the moment, but that just as a side remark.

Best regards,
Manu

#11

Works for me too ! And I also tested the template matching plugin from Tseng with this new version and it works too.

Interesting, I think you mean javacpp though no ?
This means the IJ-OpenCV update site wouldn’t need to ship that dependency :slight_smile:

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#12

yes, I meant javacpp1.4.4 :sweat_smile: