Franken Plot API

• Install

    - cd franken_api
    - python setup.py  install
    - pip install -r requirements.txt
    - pip install .

• Run application

    - franken_api -p 8090

• Run DB Migration script:

sudo docker exec -it probio_ui_docker_postgress_1 bash
su postgres
psql
CREATE USER referral_writer WITH ENCRYPTED PASSWORD '<password: this should match with password in flask app settings.py>';
CREATE DATABASE referrals;
CREATE DATABASE curation;
GRANT ALL PRIVILEGES ON DATABASE referrals TO referral_writer;
GRANT ALL PRIVILEGES ON DATABASE curation TO referral_writer;
exit

python franken_api/migrate.py db init --multidb
python franken_api/migrate.py db migrate
python franken_api/migrate.py db upgrade

• Generate Profile Summary for Project

    - cd franken_api/genomic_profile_lookup/
    - python read_curation_info_store_postgresql_final.py '<nfs-autoseq-path>' '<project-name>

• Export MTBP json format

    export MTBP_SCRIPT_PATH="<MTBP_Script_path>"