diff options
Diffstat (limited to 'gn3/db/traits.py')
| -rw-r--r-- | gn3/db/traits.py | 14 |
1 files changed, 8 insertions, 6 deletions
diff --git a/gn3/db/traits.py b/gn3/db/traits.py index 3c62df8..f18e16a 100644 --- a/gn3/db/traits.py +++ b/gn3/db/traits.py @@ -91,7 +91,8 @@ def insert_publication(pubmed_id: int, publication: Optional[Dict], with conn.cursor() as cursor: cursor.execute(insert_query, tuple(publication.values())) -def retrieve_trait_dataset_name(trait_type, threshold, name, connection): +def retrieve_trait_dataset_name( + trait_type: str, threshold: int, name: str, connection: Any): """ Retrieve the name of a trait given the trait's name @@ -136,7 +137,7 @@ PUBLISH_TRAIT_INFO_QUERY = ( "PublishXRef.InbredSetId = PublishFreeze.InbredSetId AND " "PublishFreeze.Id =%(trait_dataset_id)s") -def retrieve_publish_trait_info(trait_data_source, conn): +def retrieve_publish_trait_info(trait_data_source: Dict[str, Any], conn: Any): """Retrieve trait information for type `Publish` traits. https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/base/webqtlTrait.py#L399-L421""" @@ -170,7 +171,7 @@ PROBESET_TRAIT_INFO_QUERY = ( "ProbeSetFreeze.Name = %(trait_dataset_name)s AND " "ProbeSet.Name = %(trait_name)s") -def retrieve_probeset_trait_info(trait_data_source, conn): +def retrieve_probeset_trait_info(trait_data_source: Dict[str, Any], conn: Any): """Retrieve trait information for type `ProbeSet` traits. https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/base/webqtlTrait.py#L424-L435""" @@ -192,7 +193,7 @@ GENO_TRAIT_INFO_QUERY = ( "GenoXRef.GenoFreezeId = GenoFreeze.Id AND GenoXRef.GenoId = Geno.Id AND " "GenoFreeze.Name = %(trait_dataset_name)s AND Geno.Name = %(trait_name)s") -def retrieve_geno_trait_info(trait_data_source, conn): +def retrieve_geno_trait_info(trait_data_source: Dict[str, Any], conn: Any): """Retrieve trait information for type `Geno` traits. https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/base/webqtlTrait.py#L438-L449""" @@ -209,7 +210,7 @@ TEMP_TRAIT_INFO_QUERY = ( "SELECT name, description FROM Temp " "WHERE Name = %(trait_name)s") -def retrieve_temp_trait_info(trait_data_source, conn): +def retrieve_temp_trait_info(trait_data_source: Dict[str, Any], conn: Any): """Retrieve trait information for type `Temp` traits. https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/base/webqtlTrait.py#L450-452""" @@ -223,7 +224,8 @@ def retrieve_temp_trait_info(trait_data_source, conn): return cursor.fetchone() def retrieve_trait_info( - trait_type, trait_name, trait_dataset_id, trait_dataset_name, conn): + trait_type: str, trait_name: str, trait_dataset_id: int, + trait_dataset_name: str, conn: Any): """Retrieves the trait information. https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/base/webqtlTrait.py#L397-L456 |