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AgeCommit message (Expand)Author
2024-08-26refactor: split out utlities into their modules and change api to use metadataJohn Nduli
2024-08-26refactor: clean up wiki edit implementation...* Add better error messages * Create more modular functions John Nduli
2024-08-26feat: add support for categories in edit query and clearer errorsJohn Nduli
2024-08-26feat: support for edit wiki entryJohn Nduli
2024-08-09Use correct stemming strategy when searching....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-08-09Add RIF/WIKI as search prefixes for XRF/XWK....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-08-01Stem group field regardless of case....* gn3/api/search.py (parse_boolean_prefixed_field): New function. (parse_query): Use parse_boolean_prefixed_field for the group field. Arun Isaac
2024-08-01Stem all the time....With the STEM_SOME, xapian does not stem query words that start with a capital letter. Hence, we switch to the STEM_ALL strategy. * gn3/api/search.py (parse_query): Set stemming strategy to STEM_ALL. Arun Isaac
2024-07-08Pass output directory to R/qtl script instead of pulling it from the...environment Also fixes issue where the control marker keyword was wrong zsloan
2024-07-05fix: return query error message from xapianJohn Nduli
2024-07-03fix: use correct prefix and index key; group wiki cache queryJohn Nduli
2024-07-03feat: add wikidata prefix to search apiJohn Nduli
2024-06-26Increase max number of results to 50000 for Xapian search...This change needs to be accompanied by a change in GN2! If it's lower than the GN2 MAX_SEARCH_RESULTS value, searches will throw an error. zsloan
2024-06-12fix: use current_app's logger to log db errorsJohn Nduli
2024-06-01Add geneRIF prefix....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-05-20Delete search endpoints for datasets/publications....* gn3/api/metadata.py: Delete "query_and_frame" import. (search_datasets): Delete. (search_publications): Ditto. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-05-09Improve error messaging for use of invalid fahamu token.Alexander_Kabui
2024-05-01pep8 formattingAlexander_Kabui
2024-05-01Delete debug codeAlexander_Kabui
2024-05-01Debug: check for if config is loaded in gn3.Alexander_Kabui
2024-05-01Fix: fix string formatting error and remove unused imports.Alexander_Kabui
2024-05-01Refactoring... *general cleanup for debug code * improve error messaging for successful rating Alexander_Kabui
2024-05-01Debug:fix issue use current_app to fetch configAlexander_Kabui
2024-05-01Debug Process for LLM_DB_PATH... * this commit is a debugging process for llm_path on cd * issue: writes to db but not correct path Alexander_Kabui
2024-05-01Add more error info for Database Open error raisedAlexander_Kabui
2024-04-30Add a general Exception for the /rating apiAlexander_Kabui
2024-04-30Replace SQLITE_DB_PATH with LLM_DB_PATH for llm db path.Alexander_Kabui
2024-04-30Add docstring to view_history function....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-04-30Use JWT tokens from gn-auth....* gn3/api/metadata.py: Import time, jwt, AUthorisationError. (edit_dataset): Use JWT tokens from gn-auth and validate them. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-04-30Add an endpoint to query a dataset's git history from it's id....* gn3/api/metadata.py: Import get_history. (view_history): New endpoint. * gn3/db/datasets.py (get_history): New function. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-04-30Rename retrieve_dataset_metadata to retrieve_metadata....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-04-15Delete unused imports....* gn3/api/llm.py: (rate_document, logging): Remove unused imports. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-03-26add sqlite-db-path configAlexander_Kabui
2024-03-26fetch pubmed file from /gn-meta/litAlexander_Kabui
2024-03-25pep8 formattingAlexander_Kabui
2024-03-25save db data on SQLITE_PATH file pathAlexander_Kabui
2024-03-25fix user_id typeAlexander_Kabui
2024-03-25enable logigng info for api <rating>Alexander_Kabui
2024-03-25match user id to type strAlexander_Kabui
2024-03-25fetch tmpdir from current app connfigAlexander_Kabui
2024-03-25fix db path issue for lllmAlexander_Kabui
2024-03-25use data dir for filesAlexander_Kabui
2024-03-22dump gnqa rating data to dbAlexander_Kabui
2024-02-15Use correct names for dataset entries in json result....Since we are appending to an already flattened json-ld file, we don't need to add the prefixes. * gn3/api/metadata.py (DATASET_CONTEXT): Add missing "experimentType" key. * gn3/db/datasets.py (retrieve_dataset_metadata): Match the __subject dict with entries from DATASET_CONTEXT. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-02-14Remove try ... except clauses around RDF endpoints....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-02-14Stem the dataset's id before constructing the path....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-02-13Use correct path for dataset metadata files....* gn3/api/metadata.py (datasets): Use "gn-docs/general/datasets". Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-02-13Update "dataset/<name>" API endpoint to fetch metadata from files....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2024-01-26centralize common errorsAlexander_Kabui
2024-01-26Feature/gn llm caching (#148)...* add logic for querying user gnqa search result * add api endpoints for querying users:qnqa-search-terms,gnqa-resultsAlexander Kabui