--apl-by-type only affects the .xvg output but only a general summary is given by the output (ie. no details per lipid type).
This means that, in order to get the APL grouped by lipid type, you need to add "--plot-apl" to specify an .xvg where the APL for each lipid will be saved.
The cumbersome side effect is that you need to compute the average from the .xvg file if want the trajectory-averaged values.
--apl-by-type only affects the .xvg output but only a general summary is given by the output (ie. no details per lipid type). This means that, in order to get the APL grouped by lipid type, you need to add "--plot-apl" to specify an .xvg where the APL for each lipid will be saved. The cumbersome side effect is that you need to compute the average from the .xvg file if want the trajectory-averaged values.
Cheers,
Bart