EMAN2 (Under Construction)

(Under construction)

EMAN is a broadly based greyscale scientific image processing suite with a primary focus on processing data from transmission electron microscopes.1

IMPORTANT! If you have set a personal folder for site-packages for Python, you should deactivate them before running EMAN2.

Installed Versions

All the installed versions of EMAN2 for use can be viewed by issuing the following command. This applies for other applications as well. The follow is an example only, and updates to software may lead to different output. Check for yourself in a terminal session before proceeding.

module spider EMAN2

  EMAN2: EMAN2/2.2

-----------------------------------------------------------------------------------------

    Description:

      EMAN is a broadly based greyscale scientific image processing suite with a primary focus on processing data from transmission electron microscopes.


    You will need to load all module(s) on any one of the lines below before the "EMAN2/2.2" module is available to load.

      gcc/6.3.0  openmpi/2.0.1


The default version is identified by "(default)" behind the module name and can be loaded as:

module load EMAN2

Running EMAN2

Iteractive Session With GUI

Establish a graphical desktop session, and then request a compute node:

srun --x11 -t 2:00:00 --mem=16gb -c 4 --pty /bin/bash 

For testing purposes, we have requested the default resources. If you need a different setting for memory, cpus and time, mpi tasks, etc., please visit our HPC Batch & Interactive Job guide.

Then load the corresponding EMAN2 module:

module load EMAN2

Source the EMAN2_BASHRC variable:

source $EMAN2_BASHRC

And EMAN2 is now ready to work. To test the GUI execute the following command:

e2projectmanager.py