feat: allow varfish case resubmission (#224)

bihealth · Feb 8, 2024 · 964bcac · 964bcac
1 parent cb10dbb
commit 964bcac
Showing 1 changed file with 8 additions and 0 deletions.
diff --git a/cubi_tk/snappy/varfish_upload.py b/cubi_tk/snappy/varfish_upload.py
@@ -142,6 +142,13 @@ def setup_argparse(cls, parser: argparse.ArgumentParser) -> None:
             required=False,
             help="Assume yes to all answers",
         )
+        parser.add_argument(
+            "--force-resubmit",
+            "-f",
+            action="store_true",
+            required=False,
+            help="Force re-submission of exitsing cases in varfish.",
+        )
         parser.add_argument(
             "--samples",
             help=(
@@ -271,6 +278,7 @@ def _process_dataset(self, ds: DataSet):
                 "--verbose",
                 "importer",
                 "caseimportinfo-create",
+                "--resubmit" if self.args.force_resubmit else "",
                 sodar_uuid,
                 *sorted(found.values()),
             ]