Arthur Le Bars authored 3 years ago and Loraine Gueguen committed 3 years ago

Throw a critical error while parsing the supplied config file when a parameter is not configured or configured incorrectly (empty value) in the config file

add phaeoexplorer_constants.py. Add constants. Add SpeciesData attributes. Update run_tool_and_download_single_output_dataset(). Move install_repository_revision() to utilities.py. Refactor run_wf (WIP)

Throw a critical error while parsing the supplied config file when a parameter is not configured or configured incorrectly (empty value) in the config file

Sync analyses and organism in run_workflow_phaeoexplorer.py, added organism picture for tripal pages

Move constants to file constants.py. Change config root to dict and update parse_config(). Change some config parameters name (galaxy_persist_data, tripal_banner_path, jbrowse_menu_url), update example config file and compose templates. Remove apollo config variables (webapollo_user, webapollo_password) in config file and in gspecies compose template, because apollo service not deployed here. Factorize parse_input() et parse_config(). Update description of scripts in main. Set default config file in scripts. Remove useless variable datasets_to_get in gga_get_data.py. Update README.md.