Log file monitoring using Loggly

[TirushV]

Hi we have been using loggly since 2 months (Paid) and we are ingesting Log files to loggly using configure-filemontoring.sh script.
This script ingests application logs as well as syslog in which we are not looking for and due to this the daily limit hit is reached as we tried to remove syslogs by removing the cronjob where it runs and creates 22-loggly.conf and ingests syslogs, but we are loosing ingestion of application logs after something. So please suggest us any solution so that we can only ingest application/file logs to loggly without syslogs.