This repository provides a set of tools related to the Rfam production pipeline. The collection includes script for data export, database processing, visualisation and validation, as well as detailed Rfam release documentation.
- Export: Data export tools
- Processing: Database processing tools
- View: Rfam family view process related scripts
- Validation: Data validation scripts
- Utils: Support modules/utilities
-
build container
docker build -t rfam-production . -
open bash interactive shell
docker run -v `pwd`:/rfam/rfam-production -it rfam-production bash -
run a command inside the container
docker run -v `pwd`:/rfam/rfam-production -it rfam-production python scripts/export/rfam_xml_dumper.py --out /rfam --type C
# install Python dependencies
pip install -r requirements.txt
# set up Python path
export PYTHONPATH=/path/to/the/project
# create and edit configuration file (excluded from version control)
cp config/rfam_local_template.py config/rfam_local.py
Feel free to submit an issue if you have any questions or suggestions.