[pre-commit.ci] pre-commit autoupdate (#5909)

<!--pre-commit.ci start-->
updates:
- [github.com/astral-sh/ruff-pre-commit: v0.15.22 →
v0.16.0](astral-sh/ruff-pre-commit@v0.15.22...v0.16.0)
<!--pre-commit.ci end-->

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: njzjz-bot <njzjz-bot@users.noreply.github.com>

Author: pre-commit-ci[bot]

.pre-commit-config.yaml

@@ -30,7 +30,7 @@ repos:
         exclude: ^source/3rdparty
   - repo: https://github.com/astral-sh/ruff-pre-commit
     # Ruff version.
-    rev: v0.15.22
+    rev: v0.16.0
     hooks:
       - id: ruff
         args: ["--fix"]

deepmd/jax/jax_md/__init__.py

@@ -81,10 +81,10 @@ def apply(
         *,
         neighbor: Any | None = None,
         atom_types: Sequence[int | str] | Array | None = None,
-        box: Array | Sequence[float] | None | object = _JAX_MD_SENTINEL,
-        fparam: Array | Sequence[float] | None | object = _JAX_MD_SENTINEL,
-        aparam: Array | Sequence[float] | None | object = _JAX_MD_SENTINEL,
-        charge_spin: Array | Sequence[float] | None | object = _JAX_MD_SENTINEL,
+        box: Array | Sequence[float] | object | None = _JAX_MD_SENTINEL,
+        fparam: Array | Sequence[float] | object | None = _JAX_MD_SENTINEL,
+        aparam: Array | Sequence[float] | object | None = _JAX_MD_SENTINEL,
+        charge_spin: Array | Sequence[float] | object | None = _JAX_MD_SENTINEL,
         **kwargs: Any,
     ) -> Array:
         """Evaluate a single-frame total energy in the JAX-MD call convention."""

deepmd/tf/entrypoints/__init__.py

@@ -41,7 +41,6 @@
     "compress",
     "convert",
     "doc_train_input",
-    "doc_train_input",
     "freeze",
     "make_model_devi",
     "neighbor_stat",