Here, you will submit and start a simulation. The details
of the simulation and how you will analyze it will be explained
in a later section. Since the
simulation will take some time to finish, you need to submit it
now so that when you reach analysis of the results,
your simulation will be completed.
The following files will be used for your NAMD job
1. Run the NAMD job. In a Terminal window type:
|namd2 sim_short.conf > sim_short.log|
Now let's move to the next section while your job is
running. You will
come back to this job and analyze the results later.