Add PyPI registry correctly to pool depending on other sources (#3406)
In the event where we defined sources that were set as secondary = True, we would end up with PyPI being after this source when it should have acted as default in that case. The main issue stems from the fact that it's not because you have sources configured that PyPI should not be a default. Instead, PyPI should be default if there are no sources with secondary = False and not default if there are sources with secondary = True.
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