fix: fixed some tests

bbglab · Aug 2, 2022 · ac72bf4 · ac72bf4
1 parent 2bbbf3e
commit ac72bf4
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Showing 13 changed files with 27,555 additions and 27,554 deletions.
diff --git a/main.py b/main.py
@@ -18,6 +18,6 @@
 
 for file, ann in findfiles(f"{getcwd()}/tests/data/dataset/sample3"):
     result = Variant(file, ann)
-    for line in result.read():
+    for line in result.read(where="REF != 'A',REF != 'G'"):
         print(f"Line in a dict: {line}")
         break
diff --git a/openvariant/find_files/find_files.py b/openvariant/find_files/find_files.py
@@ -26,6 +26,9 @@ def _get_annotation(file_path, annotation):
 def _scan_files(base_path: str, annotation: Annotation, fix: bool):
     """Recursive exploration from a base path"""
     if isdir(base_path):
+        if not fix:
+            for annotation_file in glob.iglob(join(base_path, "*.{}".format(ANNOTATION_EXTENSION))):
+                annotation = Annotation(annotation_file)
         for file_name in listdir(base_path):
             file_path = join(base_path, file_name)
             try: