Date: 201706
Local time of day: 1801-2400
Location: BOS.Tower, MA
Flight conditions: VMC
Light: Daylight
Aircraft: Widebody; Low Wing; 2 Turbojet Eng
Operator: Air Carrier
Operating under: Part 121
Flight plan: IFR
Mission: Passenger
Flight phase: Landing
ATC / advisory: Tower BOS
Second aircraft: Small Transport
Reporter organization: Government
Reporter function: Local
Reporter qualification: Air Traffic Control Fully Certified
Human factors: Situational Awareness; Distraction; Communication Breakdown; Workload; Time Pressure
Second reporter function: Pilot Flying; Captain
Anomaly: ATC Issue All Types; Conflict Ground Conflict; Critical; Deviation / Discrepancy - Procedural Clearance; Deviation / Discrepancy - Procedural Published Material / Policy; Ground Incursion Runway
Detector: Automation Air Traffic Control; Person Air Traffic Control; Person Flight Crew
When detected: In-flight
Result: Air Traffic Control Issued New Clearance; Flight Crew Rejected Takeoff
Contributing factors: Human Factors; Airport; Procedure
Primary problem: Procedure

Narrative: Aircraft X had just landed on runway 15R and was instructed to turn right onto taxiway Delta. Pilot responded will turn right at Delta. I then cleared Aircraft Y for takeoff on runway 9 and the aircraft started his takeoff roll and then Aircraft X went beyond taxiway Delta; I then instructed Aircraft X to hold short of runway 9 and then he acknowledged the hold short. Not knowing if Aircraft X would comply with this instruction I instructed Aircraft Y to abort takeoff which he did. Aircraft X never went onto the runway that Aircraft Y was departing but the ASDE X did go off for converging runways. Aircraft Y exited off runway 9 at taxiway Charlie and Aircraft X eventually was instructed to make a right turn onto runway 9 and exited at taxiway Charlie. This caused two more go-arounds on runway 15R that were initiated by me due to Aircraft X on runway and not moving very fast to exit and another aircraft waiting in position to depart as soon as Aircraft X was off the runway.With the runway construction on runway 4R and multiple vehicle and different configurations for arrival/departure and with the weather that was in the area I can't stress enough that the operation at BOS needs to be slow down and have a miles in trail into BOS and stick with it and not give less than that amount to the final controller.


Second narrative: Cleared for takeoff Rwy 9 at BOS. On takeoff roll; Aircraft X had landed Rwy 15R and specified to tower they would be able to turn off their runway onto taxiway D before reaching the Rwy 9 intersection. They missed the taxiway and even after being instructed to hold short of Rwy 9; Aircraft X did not and incurred onto our runway (Rwy 9). We immediately aborted the takeoff at 80 knots (rotation speed) while ATC was also instructing us to abort due to an 'aircraft on the runway'. We applied max reverse and strong braking to avoid a conflict. We exited the runway and proceeded back to the line for takeoff.Remain alert at busy airports.


Synopsis: BOS Local Controller and departing pilot reported of an arriving aircraft that traversed into a crossing runway causing the departing aircraft to abort their takeoff.