Skip to main content

AlphaFold

  1. [ INCD Local Installation](#INCDInstallation Local
      Installation)
    1. Environment
    2. [Data Base Location
    3. run_udocker.py
  2. How to Run](#HowRun
    3. to
  3. Run Run)Examples
  4. References

1. INCD Local Installation 

The INCD team prepare a local installation of AlphaPhold using a container based on UDOCKER (instead of DOCKER) and includes the Genetic Database.

The local installation provide the AlphaFold version 2.1.1 over a container based on Ubuntu 18.04 distribution with cuda-11.0 and cudnn-8.

1.1 Environment 

The environment is activate with command

$ module load udocker/alphaphold/2.1.1

this will activate automatically a virtual environment ready to start the AlphaFold container throught the python script run_udocker.py.

1.2 Data Base Location 

The Genetic Database is installed bellow the filesystem directory /users3/data/alphafold on read-only mode, upgrades may be requested using the helpdesk@incd.pt address.

1.3 run_udocker.py Script 

2. How to Run 

3. Run Examples 

4. References 

Back to top