diff --git a/hepdata/cli.py b/hepdata/cli.py
index df6aa806..712b88ee 100644
--- a/hepdata/cli.py
+++ b/hepdata/cli.py
@@ -269,7 +269,8 @@ def execute(query):
     """Execute a SQL query via SQLAlchemy Engine."""
     print("Executing query: {}".format(query))
     if query:
-        result = db.session.execute(query)
+        from sqlalchemy import text
+        result = db.session.execute(text(query))
         if result.returns_rows:
             for i, row in enumerate(result):
                 print('Row {}:'.format(i + 1), row)
diff --git a/hepdata/ext/opensearch/query_builder.py b/hepdata/ext/opensearch/query_builder.py
index bb928d6b..dc4b6239 100644
--- a/hepdata/ext/opensearch/query_builder.py
+++ b/hepdata/ext/opensearch/query_builder.py
@@ -79,7 +79,7 @@ def parse_query(query_string):
     def _quote_phrase(phrase):
         # Match phrases containing a reaction (including "-->") or a doi (word
         # chars with / in the middle) and quote them
-        pattern = re.compile("(.*-->.*|[\w\.]+\/[\w\.]+)")
+        pattern = re.compile(r"(.*-->.*|[\w\.]+\/[\w\.]+)")
 
         if '"' not in phrase and pattern.fullmatch(phrase):
             return f'"{phrase}"'
diff --git a/hepdata/modules/records/utils/data_files.py b/hepdata/modules/records/utils/data_files.py
index df000032..f3f8122e 100644
--- a/hepdata/modules/records/utils/data_files.py
+++ b/hepdata/modules/records/utils/data_files.py
@@ -29,6 +29,7 @@
 from celery import shared_task
 from flask import current_app
 from invenio_db import db
+from sqlalchemy import text
 
 from hepdata.modules.email.utils import create_send_email_task
 from hepdata.modules.records.utils.common import allowed_file
@@ -254,7 +255,7 @@ def _delete_all_orphan_file_resources():  # pragma: no cover
     # ~196k rows in datafile_identifier - explain analyse on QA takes 92ms
     # Produces ~300k orphans on QA.
     result = db.session.execute(
-        """
+        text("""
         CREATE TEMP TABLE valid_resource_ids(id INT);
         LOCK TABLE data_resource_link IN EXCLUSIVE MODE;
         INSERT INTO valid_resource_ids
@@ -270,7 +271,7 @@ def _delete_all_orphan_file_resources():  # pragma: no cover
                  SELECT id from valid_resource_ids
                     WHERE valid_resource_ids.id = dataresource.id
             );
-        """
+        """)
     )
 
     ids_to_delete = [x[0] for x in result]