It won't be counted.
"To be eligible for Canadian citizenship, you must have been physically present in Canada as a permanent resident for at least 1,460 days in the six years immediately before the date of your application. You must also have been physically present in Canada as a permanent resident for 183 days in each of four calendar years that are fully or partially within the six years immediately before the date of your application."
https://eservices.cic.gc.ca/rescalc/resCalcStartNew.do?&lang=en&_ga=1.134664948.487644956.1453081422