CityMonk,
One should not be drawing correspondences between the chakras and the yamas and niyamas, for the simple reason that it can be seen in a million and one different ways. In some ways, “brahmacharya” may be corresponding to swadissthana, in other ways, it can correspond with manipura, or mooladhara, sahasrara, or ajna, they cannot be fit into fixed and tight categories. And beyond this, everything in our system is interconnected in such a complex way, that it is really impossible for things to function separately from one another. These intellectual models, such as the chakra system, or the yamas and niyamas, are just intended as skillful means which may be useful in the expansion of consciousness, they are simply fingers pointing to the moon. And as one comes closer and closer to one’s awakening, one’s whole understanding of the so called “yamas” and “niyamas” is going to be entirely different depending on your state of being. These models did not simply arise out of intellectual conceptions, they were expressed by those who had come to a certain direct experience, and the transformation that arises out of direct experience.
The problem is that everything in existence can be seen from almost infinite number of angles and perspectives, one should be careful to cling to these models as though they are an accurate representation of the reality. And one who may be following the yamas and niyamas need not necessarily have awakened and penetrated through the energy centers either. And something like being outwardly non-violent is one thing, but one who is outwardly non-violent need not necessarily be compassionate - and non-violence is something which is only possible out of compassion. There are many yogis who think they are non-violent simply because they are not harming anybody and mistake this to be non-violent, but authentic non-violence is something which arises once compassion becomes one’s very nature.
It may be far more useful to set aside all of one’s thinking of the matter and focus more on one’s sadhana.