Dear Sebi06,
A few quick elements of answer here:
It is possible to run an Icy protocol or a JavaScript via the command line:
– protocols: https://icy.bioimageanalysis.org/plugin/protocols/
– JavaScript: https://icy.bioimageanalysis.org/plugin/command-line-script-runner/
It is possible to include a Docker container in an Icy plugin https://icy.bioimageanalysis.org/plugin/docker-for-icy/
And there seems to be a Docker container for Icy: https://icy.bioimageanalysis.org/plugin/icyhlplugininstaller/
The Icy development team is eager to help you converting Icy plugins or protocols to APEER modules and document this procedure for Icy/Zeiss users. I would suggest that we discuss this further by chat. Could you contact me by email to set a chat appointment?
Best regards,
Marion
