External program call

Dear all,

what is the cleanest way to call external program while staying in CP pipeline GUI? I am not aware of any module, I was thinking about passing via imageJ with a macro file containing an external program call, but I hesitate a bit. I am not sure if it change anything but I would call two different things (in two different places of the pipeline) i) shell macro ii) matlab code processing images. Thanks for any hints or advices.


CP doesn’t directly have a means to make external program calls. However, this could be done using the RunImageJ module, by using some of techniques suggested here.