default to denoising and using patch 4

brisvag · Aug 31, 2023 · 19f75dd · 19f75dd
1 parent e5e69ef
commit 19f75dd
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/src/waretomo/main.py b/src/waretomo/main.py
@@ -89,6 +89,7 @@ def __str__(self):
     "-p",
     "--patches",
     type=int,
+    default=4,
     help="number of patches for local alignment in aretomo (NxN), if any",
 )
 @click.option(
@@ -135,7 +136,7 @@ def __str__(self):
 @click.option(
     "--stop-at",
     type=click.Choice(ProcessingStep.__members__),
-    default="reconstruct",
+    default="denoise",
     help="terminate processing after this step",
 )
 @click.option("--ccderaser", type=str, default="ccderaser", help="ccderaser executable")