Running a serial of pipelines automatically on a PC

Hi, Everyone,

I have several sets of pictures to be analyzed and I set up a pipeline for each set of pictures. I am wondering if I could program the CP so that all the saved pipelines could be loaded and run automatically.

Thank you for your help.



The latest versions of CellProfiler (5811 and above) have the ability to run multiple pipelines serially. Go to File > Run Multiple Pipelines and it will ask you to provide a directory where the pipelines are located. The function assumes that the pipelines are either located all in a root directory or in subdirectories under the root, so you’ll have to organize your pipelines/folders accordingly. After that it will show a list of all the pipelines it found and give you the choice of running any or all of them.

Hope this helps!