genenetwork3/scripts, branch migrate-to-python3.10 GeneNetwork3 REST API for data science and machine learning http://git.genenetwork.org/genenetwork3/atom?h=migrate-to-python3.10 2023-06-02T11:16:11+00:00 auth: Increase limit to 100K records 2023-06-02T11:16:11+00:00 Frederick Muriuki Muriithi 2023-06-02T11:15:40+00:00 urn:sha1:dfc43506047d9fbb25f5ce5328f6743da891ca97 auth: Add delay between DB inserts 2023-06-02T11:16:11+00:00 Frederick Muriuki Muriithi 2023-06-02T11:14:14+00:00 urn:sha1:c25b148eabdd836920614eacfe345af9ea1d2fe7 Add delays to avoid overwhelming the DB server. Auth: Bug: Display all admins before taking choice 2023-06-02T11:16:11+00:00 Frederick Muriuki Muriithi 2023-06-02T11:13:29+00:00 urn:sha1:f0763bc2e0b65796d28b737f72f97c53602e1468 scripts: Write table checksums into index. 2023-05-31T19:28:46+00:00 Arun Isaac 2023-05-31T18:23:17+00:00 urn:sha1:78d641b1490b8b0d2b4a5437d6af90742f3011f8 * scripts/index-genenetwork (main): Write table checksums into index. scripts: Introduce SQLTableClause. 2023-05-31T18:21:14+00:00 Arun Isaac 2023-05-31T18:21:14+00:00 urn:sha1:400cc9d9c5fa0f1db92679e7ea8d936272029e14 * scripts/index-genenetwork (SQLTableClause): New variable. (genes_query, phenotypes_query): Express tables using SQLTableClause. (serialize_sql): Serialize SQLTableClause. scripts: Fold long lines. 2023-05-31T14:21:30+00:00 Arun Isaac 2023-05-31T14:21:30+00:00 urn:sha1:082e169ca6676b61935604756c0c7c63e19eeb4a * scripts/index-genenetwork (write_document, index_query): Fold long lines. scripts: Ensure only one indexing job may run at a time. 2023-05-31T14:19:13+00:00 Arun Isaac 2023-05-31T14:19:13+00:00 urn:sha1:7855758c7f17c32cad3c73f5a5677fb87146e32a * scripts/index-genenetwork (main): Ensure no other indexing job is running. Fix linting errors and failing tests 2023-05-30T10:04:27+00:00 Frederick Muriuki Muriithi 2023-05-30T10:04:27+00:00 urn:sha1:4e572eba5fa89a0ae4c5c732babe8c4bc011d435 * scripts/register_sys_admin.py: fix linting error * tests/unit/auth/fixtures/oauth2_client_fixtures.py: hash client secret in database. The code expects it hashed in the database. Enable registering sys-admin on CLI 2023-05-30T09:39:54+00:00 Frederick Muriuki Muriithi 2023-05-30T09:39:54+00:00 urn:sha1:0ade65915a247c4ae151e83850ab2be341d6815e To ease registration of system-admin user, provide a CLI script to register the user and mark them as sys admin in one go. Document CLI Utility Commands 2023-05-26T10:21:33+00:00 Frederick Muriuki Muriithi 2023-05-26T10:21:33+00:00 urn:sha1:fe075ee5c8852fddc0a229d1b90d77bff9dca003 Document some CLI utility commands useful for development and for supporting the operation of the GN3 app.