Measurements in napari plugin about partseg

[fjorka]

Hi Grzegorz, no need for debugging - the setting 'Per component' is specific to a measurement and not a set of measurements (which is probably as you intended) and is not possible to change after a measurement is added. That was a source of my confusion. Thanks for your help!

[Czaki]

At this moment I'm writing exactly this. There are multiple scenarios where we measure part things per component and part globally or even proportion to globally for each component.

[Czaki]

During definine measurement set you need to set Per Component to yes (above list of selected measurements)

https://partseg.readthedocs.io/en/latest/interface-overview/interface-overview.html#measurements-settings - documentation for standalone version but may help.

(I'm writing from phone but if you cannot find it I could prepare more detailed description when reach the PC)

[fjorka]

Unfortunately, I don't think it's working for me at the moment. I created a measurement profile as follows:

Setting the 'per component' parameter, saving the measurement profile and recalculating doesn't seem to change the result.

[Czaki]

I will debug this on Monday. Bur it will be helpful if you could provide me with PartSeg and napari versions. It also be nice if you could attach measurement set (export button in measurements settings).

[Czaki]

@fjorka I see also that you use Volume in Measurements. This measurement is measured in physical units assuming that the layer scale is in nanometers (PartSeg reader plugin read voxel size from metadata). Not all other napari plugins respect scale parameters or store it using different units (unfortunately, napari does not yet have a unit backend).

There is also "Voxels" measurement which is unitless. For other measurements (like diameter), there is no alternative.

Maybe this is clear for you, but I would like to point it.