Bazel: properly fix lfs smudge script

.lfsconfig

@@ -1,2 +1,2 @@
 [lfs]
-fetchinclude = nothing
+fetchinclude = /nothing

misc/bazel/internal/git_lfs_smudge.py

@@ -7,6 +7,8 @@ import os
 
 sources = [pathlib.Path(arg).resolve() for arg in sys.argv[1:]]
 source_dir = pathlib.Path(os.path.commonpath(src.parent for src in sources))
+source_dir = subprocess.check_output(["git", "rev-parse", "--show-toplevel"], cwd=source_dir, text=True).strip()
+
 
 def is_lfs_pointer(fileobj):
     lfs_header = "version https://git-lfs.github.com/spec".encode()
@@ -14,10 +16,14 @@ def is_lfs_pointer(fileobj):
     fileobj.seek(0)
     return lfs_header == actual_header
 
+
 for src in sources:
     with open(src, 'rb') as input:
         if is_lfs_pointer(input):
+            lfs_pointer = input.read()
+            rel_src = src.relative_to(source_dir).as_posix()
             with open(src.name, 'wb') as output:
-                subprocess.run(["git", "lfs", "smudge", "--", src], stdin=input, stdout=output, check=True, cwd=source_dir)
+                subprocess.run(["git", "-c", f"lfs.fetchinclude={rel_src}", "lfs", "smudge", "--", rel_src],
+                               input=lfs_pointer, stdout=output, check=True, cwd=source_dir)
             continue
     pathlib.Path(src.name).symlink_to(src)