Hi Alexandre,
The pyem command should look more like this:
csparc2star.py --swapxy jXXX_particles.cs jXXX_passthrough_particles.cs from_cryosparc.star
The particles.cs and passthrough_particles.cs should be in a directory called Exports that was generated when you ran “export job” in cryosparc.
but I suspect even if you get it to work you will run into this issue which is why copy micrograph coordinates isn’t working. Retain particle data when importing star file
Best,
Ryan