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AlphaFold

  1. INCD Local Installation
    1. Environment
    2. Data Base Location
    3. run_udocker.py
  2. How to Run
  3. 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

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