This repository was archived by the owner on Aug 23, 2025. It is now read-only.
This repository was archived by the owner on Aug 23, 2025. It is now read-only.
Error 500 on _entrez response #7
Description
I launched the pubget command according to the readme, but this leads to an error 500 on the _entrez response validator (stacktrace below).
I initially thought this was due to a missing api key so I generated one and passed it to the command:
pubget run ./pubget_data -q "fMRI[title]" --articles_with_coords_only --extract_vocabulary --vectorize_text --n_jobs 20 --api_key XXX
This still leads to an error 500. I don't know if the issue is on the API side or if I'm doing something wrong with pubget?
Stacktrace:
INFO 2023-02-22T13:56:10+0100 pubget._download Downloading data in pubget_data/query_1856490e8aca377ff8e6c38e84a77112/articlesets
INFO 2023-02-22T13:56:10+0100 pubget._download Performing search
ERROR 2023-02-22T13:56:31+0100 pubget._entrez Response failed to validate (reason: Status code 500 != 200) for url https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi
ERROR 2023-02-22T13:56:34+0100 pubget._entrez Response failed to validate (reason: Status code 500 != 200) for url https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi