A home for community-contributed, experimental, and dependency-heavy CellProfiler modules.
Plugins advance the capabilities of CellProfiler but are not officially supported in the same way as modules. A module may be in CellProfiler-plugins instead of CellProfiler itself because:
- it is under active development
- it has a niche audience
- it is not documented to CellProfiler's standards
- it only works with certain version of CellProfiler
- it requires extra libraries or other dependencies we are unable or unwilling to require for CellProfiler
- it has been contributed by a community member
Please see our CellProfiler-plugins documentation for more information about installation, currently supported plugins, and how to contribute.
If CellProfiler won't open after setting the CellProfiler Plugins folder (and it returns error: no commands supplied in the terminal), it is likely because you have set the CellProfiler Plugins folder to the parent folder of the plugins repository (CellProfiler-plugins), not the folder that contains plugins (CellProfiler-plugins/active_plugins).
In order to get CellProfiler to open, remove setup.py from the CellProfiler-plugins folder.
Open CellProfiler.
Change the CellProfiler Plugins path to the correct path and close CellProfiler.
Return setup.py to the parent folder.
OR
Alternatively, you can edit the PluginDirectory line of your config to the correct path and then reload CellProfiler.
On Mac, you can find the config at /Users/{username}/Library/Preferences/CellProfilerLocal.cfg
For other troubleshooting information, please see the Troubleshooting page of our documentation.