We give an algorithm that computes exact maximum flows and minimum-cost flows on directed graphs with $m$ edges and polynomially bounded integral demands, costs, and capacities in $m^{1+o(1)}$ time. Our algorithm builds the flow through a sequence of $m^{1+o(1)}$ approximate undirected minimum-ratio cycles, each of which is computed and processed in amortized $m^{o(1)}$ time using a new dynamic graph data structure. Our framework extends to algorithms running in $m^{1+o(1)}$ time for computing flows that minimize general edge-separable convex functions to high accuracy. This gives almost-linear time algorithms for several problems including entropy-regularized optimal transport, matrix scaling, $p$-norm flows, and $p$-norm isotonic regression on arbitrary directed acyclic graphs.