diff options
Diffstat (limited to 'gn3')
-rw-r--r-- | gn3/db/species.py | 17 |
1 files changed, 17 insertions, 0 deletions
diff --git a/gn3/db/species.py b/gn3/db/species.py index 702a9a8..20170ba 100644 --- a/gn3/db/species.py +++ b/gn3/db/species.py @@ -57,3 +57,20 @@ def translate_to_mouse_gene_id(species: str, geneid: int, conn: Any) -> int: return translated_gene_id[0] return 0 # default if all else fails + +def species_name(conn: Any, group: str) -> str: + """ + Retrieve the name of the species, given the group (RISet). + + This is a migration of the + `web.webqtl.dbFunction.webqtlDatabaseFunction.retrieveSpecies` function in + GeneNetwork1. + """ + with conn.cursor() as cursor: + cursor.execute( + ("SELECT Species.Name FROM Species, InbredSet " + "WHERE InbredSet.Name = %(group_name)s " + "AND InbredSet.SpeciesId = Species.Id"), + group_name=group_name) + return cursor.fetchone()[0] + return None |