The fundamental group of a directed graph admits a natural sequence of quotient groups called $r$-fundamental groups, and the $r$-fundamental groups can capture properties of a directed graph that the fundamental group cannot capture. The fundamental group of a directed graph is related to path homology through the Hurewicz theorem. The magnitude-path spectral sequence connects magnitude homology and path homology of a directed graph, and it may be thought of as a sequence of homology of a directed graph, including path homology. In this paper, we study relations of the $r$-fundamental groups and the magnitude-path spectral sequence through the Hurewicz theorem and the Seifert-van Kampen theorem.