Phenix

A software package for macromolecular structure determination using crystallographic and electron cryo-microscopy data.

Homepage Version(s): 2.0.5885

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Phenix requires an environment module

In order to use Phenix, you must first load the appropriate environment module:

module load phenix

This application is available in Open OnDemand.

Running Phenix on RCC

Because Phenix is a graphical application, it should be run using the RCC Desktop via Open OnDemand (OOD). Running Phenix directly on login nodes without a graphical session is not supported.

Launch an RCC Desktop Session

1. Log into Open OnDemand
2. In the top navigation bar, select "Interactive Apps" and then from the drop down, "RCC Desktop".
3. Select the Slurm Account/partition that you want to use for your job. If you leave this blank, the app will run in our genacc_q account.
4. Fill out the rest of the job submission form.
   • Phenix will perform best if run on a GPU node. Though it has a CPU version, the GPU version will be faster.
5. Click "Launch" to queue your job.
6. When your interactive job has started, click Launch.
7. A new tab will open, and the RCC Desktop will launch shortly after.

Once the session starts, a Linux desktop environment will open in your browser.

Start Phenix

Open a terminal within the OOD Desktop and run:

$ module load phenix
$ phenix

The Phenix GUI will launch in a new window.