You could make use of APScheduler
in your Flask application and run your jobs via its interface:
import atexit
# v2.x version - see https://stackoverflow.com/a/38501429/135978
# for the 3.x version
from apscheduler.scheduler import Scheduler
from flask import Flask
app = Flask(__name__)
cron = Scheduler(daemon=True)
# Explicitly kick off the background thread
cron.start()
@cron.interval_schedule(hours=1)
def job_function():
# Do your work here
# Shutdown your cron thread if the web process is stopped
atexit.register(lambda: cron.shutdown(wait=False))
if __name__ == '__main__':
app.run()