Correct Env to run ExampleScript_1.py

[SVBPE]

Hallo,

I am trying to run your script "ExampleScript_1.py", but I cannot manage to make the header with the imports work.

For prior automation of Fiji Tasks I used the Python wrapper for ImageJ2 (https://github.com/imagej/pyimagej), where you initialize Fiji with the following: import imagej ij = imagej.init(...)

The Error I get when I want to run your example is: "could not find javascript engine" "No module named 'ij"

Which env do you use?

In general I want to run a script that loops over a dataset of stained nuclei with fixed Trackmate settings. Since the Fiji recorder is not giving out any specific settings made during the setup in the GUI, I want to access the developer mode.

Thank you very much for your help!

Best, Stefan

[tinevez]

Hello @SVBPE

Actually these scripts only work within the Jython interpreter of Fiji. They are not expected to work in another env, yet.