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

To create a JSON pipeline that fits your needs, see the following tutorial

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.