Not sure if this is a bug but at least an unexpected behavior, to me anyway.
If I take a previously run Downsample job, with “recenter using aligned shifts” on, and clone it, initially the parameters remain as they were for the original job (as expected).
However, if I then remove the particle input (to provide a new one), “recenter using aligned shifts” automatically and silently switches off. This is a bit confusing and can lead to unexpected results, e.g. in the case of using the Downsample tool in order to crop out subparticles after using Volume alignment tools.
Cheers
Oli