Closed jackn11 closed 12 months ago
When running python migrator.py -n 4 --force True I get the following error.
python migrator.py -n 4 --force True
Opening DGIdb... Downloading dataset 100% [..........................................................................] 2809387 / 2809387 Finished downloading Starting with drugs. Drugs inserted! (57497 entries) Downloading drug-gene interactions dataset 100% [..........................................................................] 9512574 / 9512574 Finished downloading Traceback (most recent call last): File "C:\Users\jackn\TypeDBBio\typedb-bio\migrator.py", line 60, in <module> migrate_dgibd(session, NUM_DR, NUM_INT, args.num_threads, args.commit_batch) File "C:\Users\jackn\TypeDBBio\typedb-bio\Migrators\DGIdb\DGIdbMigrator.py", line 18, in migrate_dgibd insert_interactions(session, num_int, num_threads, batch_size) File "C:\Users\jackn\TypeDBBio\typedb-bio\Migrators\DGIdb\DGIdbMigrator.py", line 68, in insert_interactions raw_file = openFile(file, num_int) File "C:\Users\jackn\TypeDBBio\typedb-bio\Migrators\Helpers\open_file.py", line 9, in openFile for row in csvreader: File "C:\Users\jackn\AppData\Local\Programs\Python\Python310\lib\encodings\cp1252.py", line 23, in decode return codecs.charmap_decode(input,self.errors,decoding_table)[0] UnicodeDecodeError: 'charmap' codec can't decode byte 0x90 in position 4295: character maps to <undefined> (.venv) PS C:\Users\jackn\TypeDBBio\typedb-bio>
Should be fixed following review.
When running
python migrator.py -n 4 --force True
I get the following error.