Protofilament Refinement is a software package to further refine microtubule structures, by aligning individual protofilaments rather than full microtubule segements. Currently, this program assumes that you have already refined your microtubule structures to a moderately high resolution. A full microtubule refinement suite may be further developed in the future.

• Protofilament Refinement Main Site
• Tutorial

This application requires a graphical connection using NX

• Module Name: pf_refinement (see the modules page for more information)
• Multithreaded

Allocate an interactive session and run the program.
Sample session (user input in bold):

[user@biowulf]$ sinteractive --cpus-per-task=16
salloc.exe: Pending job allocation 46116226
salloc.exe: job 46116226 queued and waiting for resources
salloc.exe: job 46116226 has been allocated resources
salloc.exe: Granted job allocation 46116226
salloc.exe: Waiting for resource configuration
salloc.exe: Nodes cn3144 are ready for job
[user@cn3144 ~]$ module load pf_refinement
[user@cn3144 ~]$ cd /data/user
[user@cn3144 user]$ mkdir MyNewProject && cd $_
[user@cn3144 MyNewProject]$ pf_init_project

This will create a graphical window:

After initializing the project in your /data directory and running through the additional steps, the interactive session is ended like so:

[user@cn3144 MyNewProject]$ exit
salloc.exe: Relinquishing job allocation 46116226
[user@biowulf ~]$