Configuring your environment

Now that you have logged onto Blanca, you can start computing. *If you plan on doing a lot of computing, consider purchasing an SBGrid license. Technically, each lab needs their own license.

  1. The first time you log onto blanca, run the following command to enable our environment at login:

    echo 'source /projects/biokem/software/biokem/users/src/biokem_environment.src' >> ~/.bashrc

  2. If you ran the command above, close your terminal and open a new one.

  3. Run the biokem-interactive or blanca-interactive commands to start an interactive node that will allow you to use software.

  4. Run sbgrid to start the environment.

  5. All SBGrid install programs should now be accessible by simply executing the desired executable.

  6. To access RC installed programs use the module avail to show all available modules and module load <name> to load them.

  7. Please submit your jobs through the SLURM manager using sbatch (RELION and other programs handle this through the GUI).