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That's not the argument against free will. The argument is just that there's a physical process to every thought in your head. When you think of a tree, inside your brain a specific pattern of neurons and chemical messengers activate which is what creates the thought of a tree.
When you're consciously deciding whether to eat a donut or a salad, a specific pattern of neurons and chemical messengers are the mechanism by which that decision process is occurring. The pattern of neurons and chemical messengers happening in your brain is the physical mechanism that is performing the decision making process.
There are no thoughts outside of the ones generated by your neurons and chemical messengers. The pattern of neurons and chemical messengers IS the thought that you're thinking. Your brain (and the thoughts that occur within it) is a physical object that obeys the laws of nature, the same as all physical objects do.