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

FIX: invert result of skull-strip check in auto mode

Author: effigies

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]