Polymethines containing an allyl group have been synthesized. Their films are produced by physical vapor deposition (PVD) on glass, silicon (Si), gold (Au), polytetrafluoroethylene (PTFE), and nanostructured plastic substrates. Optical spectra recorded during the deposition showed no decomposition of molecules. The influence of dye structure and substrate on the morphology of the deposits is studied using atomic force microscopy (AFM). Depending on the dye structure and the substrate material, various nanostructures are grown. Dichroic nanowires (NWs) are formed by self‐assembly on Au and Si substrates. On the Si surface, NWs grow between the edges of neighboring Au stripes. Several methods are used for the selective opening of the allyl group. Smooth films are produced with optical spectra similar to those deposited by PVD. The morphology of the films is dependent on the activation conditions. The thermal stability of the films exceeds the stability of those deposited via PVD.