added examples to clarify how to submit args (#1282)

* added examples to clarify how to submit args

* Update micro_sam/automatic_segmentation.py

* Update micro_sam/automatic_segmentation.py

* Fix graph edge dtype for latest bioimage-cpp

---------

Co-authored-by: Anwai Archit <anwai.archit@gmail.com>

Author: lufre1

micro_sam/automatic_segmentation.py

@@ -399,10 +399,12 @@ def main():
         "-c", "--checkpoint", default=None, type=str, help="Checkpoint from which the SAM model will be loaded."
     )
     parser.add_argument(
-        "--tile_shape", nargs="+", type=int, help="The tile shape for using tiled prediction.", default=None
+        "--tile_shape", nargs="+", type=int,
+        help="The tile shape for using tiled prediction. Example: --tile_shape 384 384.", default=None
     )
     parser.add_argument(
-        "--halo", nargs="+", type=int, help="The halo for using tiled prediction.", default=None
+        "--halo", nargs="+", type=int,
+        help="The halo for using tiled prediction. Example: --tile_shape 64 64.", default=None
     )
     parser.add_argument(
         "-n", "--ndim", default=None, type=int,

micro_sam/multi_dimensional_segmentation.py

@@ -357,7 +357,7 @@ def merge_instance_segmentation_3d(
     if len(edges) == 0:  # Nothing to merge.
         return slice_segmentation
 
-    uv_ids = np.array([[edge["source"], edge["target"]] for edge in edges])
+    uv_ids = np.array([[edge["source"], edge["target"]] for edge in edges], dtype=np.uint64)
     overlaps = np.array([edge["score"] for edge in edges])
 
     n_nodes = int(slice_segmentation.max() + 1)