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CONTRIBUTING.md

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Contributing to Tool recommender system in Galaxy using Transformers

Following steps can be followed to start contributing to this project:

  1. Fork this repository (https://github.com/anuprulez/galaxy_tool_recommendation_transformers).
  2. Create a new branch.
  3. Install the dependencies by executing the following lines:
    • conda env create -f environment.yml
    • conda activate tool_prediction_transformers
  4. The scripts are located at scripts/.
  5. Data files is located at data/.
  6. Add new features/techniques.
  7. Run the project using sh train.sh.
    • To run this project on complete set of workflow, large compute resource is needed (with at least 20-30 GB RAM) and running time is > 24 hours.
    • Details of the parameters in the training script are given in README.md.
  8. Get a recommended model at data/<<file name>>.hdf5.
  9. Open a pull request against the main repository (https://github.com/anuprulez/galaxy_tool_recommendation_transformers).

Contributors

  1. Anup Kumar (https://github.com/anuprulez) (Main contributor).
  2. ...