Merge pull request #402 from psadil/fix/reverse-skull-strip-check

FIX: invert result of skull-strip check in auto mode
nipreps · Nov 29, 2023 · 3b0dcdb · 3b0dcdb
2 parents e460f6d + 8b46a77
commit 3b0dcdb
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/smriprep/workflows/anatomical.py b/smriprep/workflows/anatomical.py
@@ -795,7 +795,7 @@ def init_anat_fit_wf(
     if not have_mask:
         LOGGER.info("ANAT Stage 2: Preparing brain extraction workflow")
         if skull_strip_mode == "auto":
-            run_skull_strip = all(_is_skull_stripped(img) for img in t1w)
+            run_skull_strip = not all(_is_skull_stripped(img) for img in t1w)
         else:
             run_skull_strip = {"force": True, "skip": False}[skull_strip_mode]