במדבר לא:יד פירוש: רש״י, טור הארוך, רבנו בחיי וRav Hirsch

ויקצף משה על פקודי החיל AND MOSES WAS ANGRY WITH THE פקודי החיל — WITH THOSE APPOINTED OVER THE ARMY — This serves to teach you that every misdeed of a generation is attributed to the leaders since these have the power to protest (Sifrei Bamidbar 157:5).

ויקצוף על פקודי החיל, “He was angry at the commanders of the troops.” He did not display anger at Pinchas seeing that Hashem Himself had granted him the covenant of peace.