override command line spring properties with bootstrapyml

Command line argument(-Dspring.profiles.active=e2) will always override your properties file, no matter how many hardcoded profiles you specify in your yaml file. I would suggest you to add additional profile to be set programatically at the runtime and keep two property files with -profilename before the .yml extension.

This could be done as follows:

ApplicationMain.java

public static void main(String[] args) {
    SpringApplication app = new SpringApplication(DemoApplication.class);
    app.setAdditionalProfiles("cron");
    app.run(args);
}

bootstrap-e2.yml

// Keep all the properties which is specific to e2 profile.

bootstrap-cron.yml

   // Keep all the properties which is specific to cron profile.

In this way, you can keep both the profiles in use .But, if a property is common in both the bootstrap files, then program will pick the property from that bootstrap file whose profile matches with the runtime args : -Dspring.profiles.active