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Can we set a lower configuration value for the pipeline than that is set by the Cloudera Manager?

when data collector is configured with Cloudera Manager,what is the impact of setting a property manually? I have seen in the document that "Manual changes to Data Collector configuration files can be overwritten by Cloudera Manager" . So if I set property value less than that in the cloudera manager which will be actually taken by the pipeline ? for example my max batch size is set to 10000 in cloudera manager and I try to run the pipeline with batch size set to 100 in streamsets UI, in this case what will be the actual batch size of the pipeline when it runs?