Add per label remark, post correction

copienator/commands/reading_annotations.py

@@ -25,6 +25,7 @@ from copienator.annotation_data import AnnotationData, load_annotation_data
 from copienator.annotation_documents import copy_documents
 from copienator.annotation_layout import legacy_layout
 from copienator.annotation_read_cache import AnnotationReadCache
+from copienator.custom_remarks import apply_custom_remarks
 from copienator.annotation_modifications import (
     BASELINE,
     output_removals,
@@ -175,6 +176,7 @@ def apply_actions_and_regenerate(
 
     labels_data = data[student_id]
     apply_checkbox_actions(labels_data, actions, print)
+    apply_custom_remarks(workspace.root, student_id, labels_data)
     score_path = output_dir / "score.json"
     preserve_score_file = update_score and score_path.is_file()
     if update_score:
@@ -381,7 +383,7 @@ def run(
             status = ExitCode.PARTIAL
         else:
             regenerated.add(student_id)
-    if update_named_return_answers(workspace, "Bnot", copy_ids=regenerated) != ExitCode.SUCCESS:
+    if update_named_return_answers(workspace, "Bnot", copy_ids=regenerated, refresh_named=True) != ExitCode.SUCCESS:
         status = ExitCode.PARTIAL
     elif cache is not None:
         cache.remember(regenerated)