Smaller clashes also took place at two other West Bank locations Qalandiya and Kadom also without injuries or arrests, the army said.
Meanwhile two Israelis were lightly wounded in a fight with Palestinians in east Jerusalem, police say, and five Hamas activists were arrested by the Palestinian Authority yesterday in the West Bank, according to the Islamic militant group.
Hamas spokesman Husam Badran said the Palestinian Authority is "trying to kill the Jerusalem uprising."
The West Bank clashes came amid roiling tensions, mostly over Palestinian claims that Israel wants to change the status quo at a contested Jerusalem holy site.
No incidents were reported there by Israeli police during prayers today, which for the second consecutive week were open to all Muslim worshippers regardless of age.
In recent weeks 11 people have been killed by Palestinian attackers in five incidents, mostly in Jerusalem, but also in Tel Aviv and the West Bank. Five of the Palestinian assailants were killed by security forces.
In response, Netanyahu has ordered a revival of punitive home demolitions a practice that had largely been suspended since 2005. Earlier this week Israel demolished the east Jerusalem home of one of the attackers, and yesterday four more demolition notices were issued in east Jerusalem including to the families of two cousins who carried out a grisly attack on a Jerusalem synagogue Tuesday.
Samri added that police were being deployed in the area.