General questions

Where do I find documentation?

You can find all documentation pages in the Help menu at the top right.

There are also context-based documentations available if you select a node in the graph. Hover your mouse over a parameter to show documentations for this parameter only.

Does JIPipe have a backup function?

Yes. By default, JIPipe creates a backup every 3 minutes. You can recover it via Project > Restore Backup.

Can I make the startup faster?

Many JIPipe extensions rely on other ImageJ plugins to work. That is why JIPipe always checks if all necessary ImageJ plugins are available. This will only happen during the first startup, or if the ImageJ plugin database is not present/corrupt. If you have persisting issues, run the ImageJ updater from within ImageJ/Fiji or via Plugins > Run ImageJ updater

Can I remember the settings of one or multiple nodes for later re-use?

Yes. Select the nodes of interest, right-click a node and select Create node template. You can save the parameters and even connections if you have multiple nodes into the current project or globally. You can find them in the Node templates list.

Can I bookmark specific nodes?

Yes. Right-click the node and set it as bookmark. The list is available in any project graph editor and in the project info screen.

Can I expose a set of specific parameters for collaborators?

Yes. You can do this via the Project > Project settings > Parameters. They will be available in Project > Project overview, alongside the description that can be set in Project > Project settings > General.

Can I add my author information to a project?

Yes. Go to Project > Project settings > General. Here you can add multiple authors (including affiliation), provide a citation, license, and website, as well as cite other projects.

Where should I place files if I want to make the project portable?

JIPipe automatically relativizes file paths if you place data files in the same folder as the project (or in a subfolder). This allows you to compress the project and share it with other without breaking anything.

This is the recommended way to do share your projects if you have multiple operating systems.

How can I copy / delete the global settings?

JIPipe places a file into your ImageJ directory. You can delete it to reset all settings to their defaults or copy it to another JIPipe instance.