Merge pull request #148 from draeger-lab/GwennyGit-patch-3

Fixed documentation
draeger-lab · Nov 11, 2024 · 4a17b1f · 4a17b1f
2 parents 655261a + f28bba0
commit 4a17b1f
Show file tree

Hide file tree

Showing 2 changed files with 3 additions and 4 deletions.
diff --git a/docs/source/conf.py b/docs/source/conf.py
@@ -82,7 +82,6 @@
 html_logo = str(Path('images','refineGEMs_logo.png'))
 html_theme_options = {
     'logo_only': True,
-    'display_version': False,
 	'flyout_display': 'attached'
 }
 

diff --git a/src/refinegems/utility/databases.py b/src/refinegems/utility/databases.py
@@ -114,9 +114,9 @@ def is_valid_database(db_cursor: sqlite3.Cursor) -> int:
    db_cursor.execute("SELECT name FROM sqlite_master WHERE type='table';")
    tables = [string[0] for string in db_cursor.fetchall()]
 
-   bigg_tables_contained = len([s for s in tables if re.match('^bigg_(?!to)(.*?)', s, re.IGNORECASE)]) == 2
-   sbo_tables_contained = len([s for s in tables if re.match('(.*?)_sbo$', s, re.IGNORECASE)]) == 2
-   media_tables_contained = len([s for s in tables if re.match('^medium(.*?)|^substance(.*?)|^subset(.*?)', s, re.IGNORECASE)]) == 6
+   bigg_tables_contained = len([s for s in tables if re.match(r'^bigg_(?!to)(.*?)', s, re.IGNORECASE)]) == 2
+   sbo_tables_contained = len([s for s in tables if re.match(r'(.*?)_sbo$', s, re.IGNORECASE)]) == 2
+   media_tables_contained = len([s for s in tables if re.match(r'^medium(.*?)|^substance(.*?)|^subset(.*?)', s, re.IGNORECASE)]) == 6
    sbo_media_tables_contained = sbo_tables_contained and media_tables_contained  # These can only occur together
    modelseed_cmpd_tbl_contained = len([s for s in tables if s == 'modelseed_compounds']) == 1