iPPI-DB project repository

Refactoring and update of iPPIDB database

Description of the repository:

• ansible
  • ansible recipes to deploy ippidb web site automatically
• ichem_module
  • module for IChem private tool. INFO: to use IChem on TARS:
    #module load /pasteur/projets/policy01/IPPI-DB/sources/iPPIDB/ichem_module/5.2.8
• ippidb_backend
  • java codes a bit optimized and refactored by Hélenes Borges (a full refactoring is not mandatory but needed (can be done later) (brainstorming and documentation available at https://docs.google.com/presentation/d/1-HZZiRmEtipNkKLxKpmAhNHmuBbsjCQ7jmcTdgmf88g/edit?usp=sharing)
• ippidb_binaries
  • binaries used for the ippidb website backend calculations
  • the galaxy subdirectory contains Galaxy XML for galaxy-dev.web.pasteur.fr instance
  • the lib_lib subdirectory contains the jar dependancies for the Java Chemaxon based program (sources are in ippidb_backend dir)
• ippidb_files
  • files mandatory for the binaries execution:
    • the Chemaxon licenses (update here and with the same name of the license is updated in 2018)
• ippidb_module
  • module for Chemaxon based private tools. INFO: to use Chemaxon tools on TARS:
    #module load /pasteur/projets/policy01/IPPI-DB/sources/iPPIDB/ippidb_module/0.1
• ippidb_targetbased_binaries
  • python scripts for the tarbased based ippidb approach
  • galaxy directory with the XMLs for the python scripts + gromacs protonation tools + IChem Volsite XML (not fonctional yet)
• ippisite (HM, and RT don't hesitate to fill this description)
  • django web interface for ippidb
  • front-end web interface