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fiji / Trainable_Segmentation

Fiji library to perform image segmentation based on the Weka learning schemes
https://imagej.net/Trainable_Weka_Segmentation
GNU General Public License v3.0
106 stars 60 forks source link

Tried to install and use this with imageJ v 1.50h, but it complains it cannot find it #43

Open zimonth opened 6 years ago

zimonth commented 6 years ago

I have Trainable_Segmentation-Trainable_Segmentation-3.2.12.jar in /usr/share/imagej/plugins, where also other installed plugins (jars) are and are working, ie. "Volume Viewer" and "3d Viewer"

It shows in the ImageJ menu: Plugins > Segmentation > Trainable Wega Segmentation

But when tried to use it: "Plugin or class not found: "trainableSegmentation.Weka_Segmentation" (java.lang.ClassNotFoundException: trainableSegmentation.Weka_Segmentation)

The content of the jar is:

$ unzip -v /usr/share/imagej/plugins/Trainable_Segmentation-Trainable_Segmentation-3.2.12.jar 

Archive:  /usr/share/imagej/plugins/Trainable_Segmentation-Trainable_Segmentation-3.2.12.jar
2e61e42e06e80f537c40e9dde2231cc669f219a3
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       0  Stored        0   0% 05-25-2017 21:28 00000000  Trainable_Segmentation-Trainable_Segmentation-3.2.12/
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       0  Stored        0   0% 05-25-2017 21:28 00000000  Trainable_Segmentation-Trainable_Segmentation-3.2.12/.travis/
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       0  Stored        0   0% 05-25-2017 21:28 00000000  Trainable_Segmentation-Trainable_Segmentation-3.2.12/src/main/
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  200542  Defl:N    30650  85% 05-25-2017 21:28 432f6f0f  Trainable_Segmentation-Trainable_Segmentation-3.2.12/src/main/java/trainableSegmentation/WekaSegmentation.java
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iarganda commented 6 years ago

Hello @zimonth, The Trainable Segmentation has many dependencies, namely:

jars/ij.jar,
jars/fiji-lib.jar,
plugins/Anisotropic_Diffusion_2D.jar,
jars/VIB-lib.jar,
jars/commons-math3.jar,
jars/weka-dev.jar,
jars/imglib2-algorithm.jar,
jars/imglib2-algorithm-gpl.jar,
jars/imglib2-ij.jar,
jars/imglib2.jar,
plugins/Stitching_.jar

The recommended way to have everything correctly installed is to use Fiji instead of plain ImageJ.

I hope this helps!

PS: the latest release of project is 3.2.15. You have it here. But again, it is just simpler to use Fiji and get the automatic updates of all plugins and dependencies.