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| author | Alexander_Kabui | 2024-03-25 16:27:37 +0300 |
|---|---|---|
| committer | Alexander_Kabui | 2024-03-25 16:27:37 +0300 |
| commit | 6796e81483b30fac99410170a3abd1e8120fae6b (patch) | |
| tree | 1865d08438af45bdd8f6a45a079d944aea1e39cb /gn3 | |
| parent | d797efb7c71e001e50830c10f30a89f1642cafd7 (diff) | |
| download | genenetwork3-6796e81483b30fac99410170a3abd1e8120fae6b.tar.gz | |
pep8 formatting
Diffstat (limited to 'gn3')
| -rw-r--r-- | gn3/llms/process.py | 6 |
1 files changed, 4 insertions, 2 deletions
diff --git a/gn3/llms/process.py b/gn3/llms/process.py index e33d3bc..b29d4c9 100644 --- a/gn3/llms/process.py +++ b/gn3/llms/process.py @@ -7,11 +7,11 @@ import json from urllib.parse import urljoin from urllib.parse import quote +import logging import requests from gn3.llms.client import GeneNetworkQAClient from gn3.llms.response import DocIDs -from gn3.settings import TMPDIR BASE_URL = 'https://genenetwork.fahamuai.com/api/tasks' @@ -82,13 +82,15 @@ def fetch_pubmed(references, file_name, tmp_dir=""): """method to fetch and populate references with pubmed""" try: - pubmed = load_file(file_name) + pubmed = load_file(file_name, tmp_dir) for reference in references: if pubmed.get(reference["doc_id"]): reference["pubmed"] = pubmed.get(reference["doc_id"]) return references except FileNotFoundError: + logging.debug("failed to find pubmed_path for %s/%s", + tmp_dir, file_name) return references |