Microfluidic networks is a powerful tool for aligning one-dimensional materials over a large area on solid substrates. Here we show that lipid nano- and microtubules can be assembled into two-dimensional (2-D) parallel arrays with controlled separations by combining fluidic alignment with dewetting, which occurs within microchannels. We also demonstrate that lipid tubules can be bent into a well-defined shape at the entrance of the channels by the capillary force. Atomic force microscopy is used to study the structure and stability of the aligned lipid tubules on substrates. The deposition experiments with silica colloidal particles show that the 2-D parallel-aligned tubules can be used as a template to synthesize silica films with controlled morphologies and patterns on substrates in a single-step process.