It is not for lack of trying. In some cases, microbiologists have ditched the Petri dish altogether, using microfluidics for manipulating and growing cells. However, these approaches aren’t likely to be adopted at scale as they require less common, less practical, and more expensive devices. So, what about other growth media?
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The obvious lesson is: always provide your agents with design hints and extensive documentation about what they are going to do. Such documentation can be obtained by the agent itself. And, also, make sure the agent has a markdown file with the rules of how to perform the coding tasks, and a trace of what it is doing, that is updated and read again quite often.