Increase net.java.dev.jna:jna version ?

[NicoKiaru]

Hello,

Do you think it would be possible to update net.java.dev.jna:jna to version 5.6.0 (or above) ?

Best,

Nicolas

[imagejan]

What are the breaking changes with major version 5? @NicoKiaru what functionality do you require?

The following components (and maybe more) currently use jna in their pom.xml:

• https://github.com/fiji/CPU_Meter
• https://github.com/fiji/SPIM_Registration (deprecated)
• https://github.com/preibischLab/multiview-reconstruction

Some changes possibly required:

• https://java.libhunt.com/jna-latest-version#breaking-changes

Edit:
Also, some of the above usage of JNA can maybe be replaced by https://github.com/scijava/native-lib-loader ? Don't know enough about it to judge though...

[NicoKiaru]

Ah! I need it for a CPU meter also:

https://github.com/BIOP/ijp-imagetoatlas/blob/master/src/main/java/ch/epfl/biop/ResourcesMonitor.java
I tested and jna is required if you want a cpu meter that (really) works on all platform. I didn't know there was already one.

However, thanks to your links, I see that jna is used in SPIM_registration to connect to CUDA. I don't know how much this function is used and how involved is the update, but for sure it's more important than a CPU meter.

So I think updating jna should be tested/done by @StephanPreibisch first in SPIM_registration, because its use of jna is more important than a CPU meter. But I'm not @StephanPreibisch has time to put in this, and since my use case is not super important, we'll probably stay this way until something more important comes up.

Thanks a lot @imagejan !

[ctrueden]

Here are the components using jna I found in a quick search:

• clij/clij-coremem
• fiji/CPU_Meter
• fiji/SPIM_Registration
• uw-loci/curvelets-imagej
• deepimagej/deepimagej-plugin
• PreibischLab/multiview-reconstruction

I would love to update this across the board, but I don't have the bandwidth to do it right now unfortunately.

[mkitti]

@mzouink, do you want to tackle this check list with me?

[mkitti]

We need JNA 5.7 or 5.8 for upstream aarch64 support.

JNA 5.7 introduced a lipoed fat darwin binary:
java-native-access/jna#1297

JNA 5.8 split the darwin binaries into x86_64 and aarch64 versions
java-native-access/jna#1316

We should target JNA 5.8 at minimum for stable aarch64 support.

[ctrueden]

I would substantially prefer to target the latest version, as long as we might be needing to update downstream projects anyway.

[mzouink]

Here are the components using jna I found in a quick search:

• clij/clij-coremem
• fiji/CPU_Meter
• fiji/SPIM_Registration
• uw-loci/curvelets-imagej
• deepimagej/deepimagej-plugin
• PreibischLab/multiview-reconstruction

I would love to update this across the board, but I don't have the bandwidth to do it right now unfortunately.

I tested PreibischLab/multiview-reconstruction with JNA 5.11.0 and it is working well. jna is used for cuda computing. So hopefully if other projects needs JNA for cuda it should be ok.

[mkitti]

List of breaking changes in JNA 5:
https://github.com/java-native-access/jna/blob/master/CHANGES.md#breaking-changes-1

[mkitti]

I just checked clij/clij-coremem, and it works with JNA 5.11.0. All tests passing. cc: @haesleinhuepf

<jna.version>5.11.0</jna.version>

[mkitti]

Native.loadLibrary is deprecated but still functional. Use Native.load instead.

[mkitti]

fiji/CPU_Meter#1

[mkitti]

I cannot locate a public uw-loci/curvelets-imagej repo. Is it private?

[mkitti]

I have checked compatibility with the following repositories.

• clij/clij-coremem
• fiji/CPU_Meter
• fiji/SPIM_Registration
• uw-loci/curvelets-imagej (repository not found)
• deepimagej/deepimagej-plugin
• PreibischLab/multiview-reconstruction

[imagesc-bot]

This issue has been mentioned on Image.sc Forum. There might be relevant details there:

https://forum.image.sc/t/timeline-for-the-next-fiji-update/69640/3

[ctrueden]

Ahh, in all the dust surrounding the pom-scijava 32.0.0 release, I forgot to upgrade jna. 🤦

The good news is: I ran the mega-melt just now with the latest pom-scijava plus jna 5.12.1, and there are no failures caused by the update! 🎉 So I updated it.

[imagejan]

I noticed that the FFMPEG update site (https://fiji.sc/~schindelin/ffmpeg-plugins/) still ships jna-3.2.7.jar and therefore possibly breaks other uses of JNA in Fiji. How involved is it to update that legacy site, i.e. the code on https://github.com/scifio/scifio-javacv/tree/ffmpeg/plugin/src/main/java/fiji/ffmpeg?

Also, there is https://sites.imagej.net/FFMPEG-javacv/, but it isn't listed on the list of update sites (yet). Is that site supposed to replace the old FFMPEG site?

/cc @ctrueden

(See this forum topic that triggered my post here.)