genenetwork3 - GeneNetwork3 REST API for data science and machine learning

Age	Commit message (Collapse)	Author
2023-05-31	scripts: Write table checksums into index.	Arun Isaac
	* scripts/index-genenetwork (main): Write table checksums into index.
2023-05-31	scripts: Introduce SQLTableClause.	Arun Isaac
	* scripts/index-genenetwork (SQLTableClause): New variable. (genes_query, phenotypes_query): Express tables using SQLTableClause. (serialize_sql): Serialize SQLTableClause.
2023-05-31	scripts: Fold long lines.	Arun Isaac
	* scripts/index-genenetwork (write_document, index_query): Fold long lines.
2023-05-31	scripts: Ensure only one indexing job may run at a time.	Arun Isaac
	* scripts/index-genenetwork (main): Ensure no other indexing job is running.
2023-05-22	Make directory at "path" and all intermediate ones.	Frederick Muriuki Muriithi
	Make the directory at the given path, and any intermediate ones to avoid errors in the indexing code when the directory, or its parent(s) do not exist.
2023-04-05	Enable use of `database_connection` in scripts without current_app	Frederick Muriuki Muriithi
	There is need to run external scripts using the same configurations as the application but without the need to couple the script to the application. In this case, we provide the needed configuration directly in the CLI, and modify the existing `gn3.db_utils.database_connection` function to allow it to work coupled to the app or otherwise.
2023-02-13	scripts: Fallback to 1 worker when indexing.	Arun Isaac
	* scripts/index-genenetwork (worker_queue): Set default number of workers to 1 if the number of CPUs cannot be determined.
2023-02-13	scripts: Type hint xapian indexing script.	Arun Isaac
	* scripts/index-genenetwork: Import Callable, Generator, Iterable and List from typing. Type hint all functions.
2022-10-18	Add xapian indexing script.	Arun Isaac
	* scripts/index-genenetwork: New file. * setup.py (install_requires): Add click, pymonad and xapian-bindings. (scripts): Add scripts/index-genenetwork.