When reading the profiling status, profiling will be disabled afterwards.
Reproduce:
Turn on profiling: db.setProfilingLevel(1,3000)
PRIMARY> db.setProfilingLevel(1,3000)

Execute Java code to read out status:

final CommandResult cr = offerStoreDb.command("profile");

or even:

DBObject command = new BasicDBObject();
command.put("profile", "1");//may be -1 as well
final CommandResult cr = offerStoreDb.command(command);

When re-checking in console, profiling is OFF:
PRIMARY> db.getProfilingLevel()
0