diff --git a/log_evaluator_migration_tool/annotationless_perception_migration.py b/log_evaluator_migration_tool/annotationless_perception_migration.py
deleted file mode 100644
index 736ffcfd..00000000
--- a/log_evaluator_migration_tool/annotationless_perception_migration.py
+++ /dev/null
@@ -1,72 +0,0 @@
-import argparse
-from pathlib import Path
-
-import yaml
-
-
-def convert_scenario(scenario_path: Path) -> None:
-    scenario_file = scenario_path.open("r+")
-    yaml_obj = yaml.safe_load(scenario_file)
-
-    if yaml_obj["Evaluation"]["UseCaseName"] != "annotationless_perception":
-        print(f"{scenario_path} does not require conversion")  # noqa
-        scenario_file.close()
-        return
-
-    if (
-        yaml_obj["ScenarioFormatVersion"] != "3.0.0"
-        or yaml_obj["Evaluation"]["UseCaseFormatVersion"] != "1.0.0"
-    ):
-        print(f"{scenario_path} does not match format version")  # noqa
-        scenario_file.close()
-        return
-
-    yaml_obj["Evaluation"]["UseCaseFormatVersion"] = "2.0.0"
-
-    class_cond = yaml_obj["Evaluation"]["Conditions"]["ClassConditions"]
-
-    for k, v in class_cond.items():
-        pass_range_dict = expand_pass_range(v["PassRange"])
-        for name, value in v["Threshold"].items():
-            threshold_values = {}
-            for m_k, m_v in value.items():
-                threshold_values[m_k] = {
-                    "lower": m_v * pass_range_dict[m_k][0],
-                    "upper": m_v * pass_range_dict[m_k][1],
-                }
-            class_cond[k] |= {name: threshold_values}
-        class_cond[k].pop("Threshold")
-        class_cond[k].pop("PassRange")
-
-    # 既存の内容を消す
-    scenario_file.seek(0)
-    scenario_file.truncate()
-
-    # 更新済みの内容を書き込む
-    yaml.safe_dump(yaml_obj, scenario_file, sort_keys=False)
-    scenario_file.close()
-
-
-def expand_pass_range(pass_range_dict: dict) -> dict:
-    rtn_dict = {}
-    for k, v in pass_range_dict.items():
-        s_lower, s_upper = v.split("-")
-        rtn_dict[k] = [float(s_lower), float(s_upper)]
-    return rtn_dict
-
-
-def main() -> None:
-    parser = argparse.ArgumentParser()
-    parser.add_argument(
-        "data_directory",
-        help="data_directory of log_evaluator",
-    )
-    args = parser.parse_args()
-    scenario_paths = Path(args.data_directory).resolve().glob("**/scenario*.y*ml")  # yaml or yml
-    for scenario_path in sorted(scenario_paths):
-        print(f"convert {scenario_path}")  # noqa
-        convert_scenario(scenario_path)
-
-
-if __name__ == "__main__":
-    main()
diff --git a/log_evaluator_migration_tool/log_evaluator_migration_tool.py b/log_evaluator_migration_tool/log_evaluator_migration_tool.py
index 7011d882..c49a0bd1 100644
--- a/log_evaluator_migration_tool/log_evaluator_migration_tool.py
+++ b/log_evaluator_migration_tool/log_evaluator_migration_tool.py
@@ -57,6 +57,56 @@ def convert_scenario(scenario_path: Path) -> None:
     scenario_file.close()
 
 
+def update_annotationless_1_to_2(scenario_path: Path) -> None:
+    scenario_file = scenario_path.open("r+")
+    yaml_obj = yaml.safe_load(scenario_file)
+
+    if yaml_obj["Evaluation"]["UseCaseName"] != "annotationless_perception":
+        scenario_file.close()
+        return
+
+    if (
+        yaml_obj["ScenarioFormatVersion"] != "3.0.0"
+        or yaml_obj["Evaluation"]["UseCaseFormatVersion"] != "1.0.0"
+    ):
+        print(f"{scenario_path} does not match format version")  # noqa
+        scenario_file.close()
+        return
+
+    yaml_obj["Evaluation"]["UseCaseFormatVersion"] = "2.0.0"
+
+    class_cond = yaml_obj["Evaluation"]["Conditions"]["ClassConditions"]
+
+    for k, v in class_cond.items():
+        pass_range_dict = expand_pass_range(v["PassRange"])
+        for name, value in v["Threshold"].items():
+            threshold_values = {}
+            for m_k, m_v in value.items():
+                threshold_values[m_k] = {
+                    "lower": m_v * pass_range_dict[m_k][0],
+                    "upper": m_v * pass_range_dict[m_k][1],
+                }
+            class_cond[k] |= {name: threshold_values}
+        class_cond[k].pop("Threshold")
+        class_cond[k].pop("PassRange")
+
+    # 既存の内容を消す
+    scenario_file.seek(0)
+    scenario_file.truncate()
+
+    # 更新済みの内容を書き込む
+    yaml.safe_dump(yaml_obj, scenario_file, sort_keys=False)
+    scenario_file.close()
+
+
+def expand_pass_range(pass_range_dict: dict) -> dict:
+    rtn_dict = {}
+    for k, v in pass_range_dict.items():
+        s_lower, s_upper = v.split("-")
+        rtn_dict[k] = [float(s_lower), float(s_upper)]
+    return rtn_dict
+
+
 def move_dataset_and_map(scenario_path: Path) -> None:
     scenario_file = scenario_path.open("r+")
     yaml_obj = yaml.safe_load(scenario_file)  # scenario file is 3.0.0 format
@@ -119,6 +169,7 @@ def main() -> None:
     for scenario_path in sorted(scenario_paths):
         print(f"convert {scenario_path}")  # noqa
         convert_scenario(scenario_path)
+        update_annotationless_1_to_2(scenario_path)
         move_dataset_and_map(scenario_path)
 
 
diff --git a/sample/annotationless_perception/scenario.ja.yaml b/sample/annotationless_perception/scenario.ja.yaml
index 0e2d81b8..ace0cbc5 100644
--- a/sample/annotationless_perception/scenario.ja.yaml
+++ b/sample/annotationless_perception/scenario.ja.yaml
@@ -20,4 +20,3 @@ Evaluation:
   Datasets:
     - sample_dataset:
         VehicleId: default
-