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Yes, Best programmers can win against any integration tools. But in real world, it rare to find enough "good programmers", so they can not abstract good components and good layers. So, at this case, the business integration tools will win. Those tools mainly sell best practices and well-tested components, so, although you are limited to what those tools provided, but will solve those tricky small things without your worry.

In the meantime, the business integration tools can learn more concepts from general programming languages, like: version control, unit test, external variables, integrate sub-components into another combined component, shared macros, etc.