Remove textpresso API token argument and update cron job

Author: valearna

src/backend/pipeline/crontab

@@ -1,6 +1,6 @@
 SHELL=/bin/bash
 BASH_ENV=/container.env
 
-45 23 * * 3 /usr/local/bin/python3 /usr/src/app/src/backend/pipeline/process_papers.py -L INFO -n $NUM_PAPERS_PER_RUN -p $EMAIL_PASSWD -N $DB_NAME -U $DB_USER -P $DB_PASSWD -H $DB_HOST -a $ADMINS -t $TPC_TOKEN -u $AFP_BASE_URL >> /var/log/afp_pipeline 2>&1
+45 23 * * 3 /usr/local/bin/python3 /usr/src/app/src/backend/pipeline/process_papers.py -L INFO -n $NUM_PAPERS_PER_RUN -p $EMAIL_PASSWD -N $DB_NAME -U $DB_USER -P $DB_PASSWD -H $DB_HOST -a $ADMINS -u $AFP_BASE_URL >> /var/log/afp_pipeline 2>&1
 0 19 * * 4 /usr/local/bin/python3 /usr/src/app/src/backend/pipeline/submissions_datatype_digests.py -L INFO -p $EMAIL_PASSWD -N $DB_NAME -U $DB_USER -P $DB_PASSWD -H $DB_HOST -w $TAZENDRA_USER -z $TAZENDRA_PASSWD >> /var/log/afp_monthly_digest.log 2>&1
 0 20 * * 4 [ $(expr $(date +\%W) \% 2) -eq 0 ] && /usr/local/bin/python3 /usr/src/app/src/backend/pipeline/reminder_email.py -L INFO -p $EMAIL_PASSWD -N $DB_NAME -U $DB_USER -P $DB_PASSWD -H $DB_HOST -u $AFP_BASE_URL >> /var/log/afp_reminder_email.log 2>&1

src/backend/pipeline/process_papers.py

@@ -36,7 +36,6 @@ def main():
     parser.add_argument("-u", "--afp-base-url", metavar="afp_base_url", dest="afp_base_url", type=str)
     parser.add_argument("-d", "--dev-mode", dest="dev_mode", action="store_true")
     parser.add_argument("-s", "--stats", dest="print_stats", action="store_true")
-    parser.add_argument("-t", "--textpresso-apitoken", metavar="tpc_token", dest="tpc_token", type=str)
     parser.add_argument("-i", "--paper-ids", metavar="paper_ids", dest="paper_ids", type=str, nargs="+",
                         help="process the provided list of papers instead of reading them from db")
     args = parser.parse_args()
@@ -48,7 +47,7 @@ def main():
     db_manager = WBDBManager(dbname=args.db_name, user=args.db_user, password=args.db_password, host=args.db_host)
     ntt_extractor = NttExtractor(db_manager=db_manager.generic)
     textpresso_lit_index = TextpressoLiteratureIndex(
-        api_url="https://www.alliancegenome.org/textpresso/wb/v1/textpresso/api/", api_token=args.tpc_token,
+        api_url="https://www.alliancegenome.org/textpresso/wb/v1/textpresso/api/", api_token="",
         use_cache=True, corpora=["C. elegans"])
     cm = CorpusManager()
     if args.paper_ids: