The second-order ($v_2$) and third-order ($v_3$) Fourier coefficients describing the azimuthal anisotropy of prompt and nonprompt (from b-hadron decays) J/$\psi$, as well as prompt $\psi$(2S) mesons are measured in lead-lead collisions at a center-of-mass energy per nucleon pair of $\sqrt{s_\mathrm{NN}}$ = 5.02 TeV. The analysis uses a data set corresponding to an integrated luminosity of 1.61 nb$^{-1}$ recorded with the CMS detector. The J/$\psi$ and $\psi$(2S) mesons are reconstructed using their dimuon decay channel. The $v_2$ and $v_3$ coefficients are extracted using the scalar product method and studied as functions of meson transverse momentum and collision centrality. The measured $v_2$ values for prompt J/$\psi$ mesons are found to be larger than those for nonprompt J/$\psi$ mesons. The prompt J/$\psi$$v_2$ values at high $p_\mathrm{T}$ are found to be underpredicted by a model incorporating only parton energy loss effects in a quark-gluon plasma medium. Prompt and nonprompt J/$\psi$ meson $v_3$ and prompt $\psi$(2S) $v_2$ and $v_3$ values are also reported for the first time, providing new information about heavy quark interactions in the hot and dense medium created in heavy ion collisions.
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