Naïve Networking 2

The following note explains how to deploy a high-performance VPN using WireGuard on VPP with DPDK. This lets lab members connect to computation servers from anywhere on the campus network with minimal overhead.

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Naïve Networking

The following note outlines how to set up a VPN so that lab members can connect to the computation servers from anywhere on the campus network.

1) Requirements

  • Goal: Allow remote VPN clients to access lab servers on a different subnet.
  • VPN software: SoftEther VPN Server (L2-bridge mode) + SoftEther VPN Client.
  • Network device: Layer-3 switch that supports SVIs and inter-VLAN routing.
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Unwrap big molecules & self-assemblies in PBC

Periodic boundary conditions (PBC) are ubiquitous in molecular simulations. However, when visualizing results, one often prefers to see whole molecules rather than fragments cut by the simulation box. If the molecule percolates through the box, minimizing artificial cuts becomes essential. Below are two methods for reconstructing intact structures under PBC:

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Good night 04-20-2025

The Moon HDR 04-09-2025

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