Build bilayers based on number of lipids not size
Unless otherwise stated make sure the number of lipids is equal for each leaflet (total and individual)
The minimum number of waters per lipid should be 30 waters
Only add neutralizing ions. This is done in Step 3 by setting the KCl concentration to zero and clicking on “Calculate Solvent Composition”
Setup a NPT system with P=1bar and T the desired temperature
Select NAMD, OpenMM, and GROMACs input file generation for potential use with these programs
Download the entire TGZ file and place this on the cluster (do not delete files as needed later)