Most systems with secondary pumps do include their electrical consumption too. There’s parts of the form on HPM to document what is and is not included, so no need to exclude it from yours. The goal is to count all of the electricity required for the heating system to function, though there is variety amongst systems for various reasons.
This other recent topic on performance reporting may be of interest:
(one system criticised for not including pump energy, so will have a higher COP)