Pipeline Usage

  • Edit the fields of the pipeline.json file to reflect your inputs and requirements.
  • Run python -m main pipeline.json

JSON Input Documentation

Output Files

  • The commands executed during the workflow are captured in {output_dir}/{run_name}-{timestamp}/commands.sh. This is the shell script generated by the pipeline that is run to generate outputs.
  • The output files generated during the workflow are stored in the folder {output_dir}/{run_name}-{timestamp}/
  • The descriptive analysis files can be found in the folder {output_dir}/{run_name}-{timestamp}/analysis with the *.csv file for each of the resolution values.