From c8f2d449e6461e9a44c151fac1450119fdfbe6c9 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Mon, 2 Nov 2026 22:01:07 +0000
Subject: [PATCH 1/2] [pre-commit.ci] pre-commit autoupdate
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

updates:
- [github.com/PyCQA/isort: 9.0.0b1 → 10.0.0b2](https://github.com/PyCQA/isort/compare/9.0.0b1...10.0.0b2)
- [github.com/astral-sh/ruff-pre-commit: v0.16.0 → v0.17.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.16.0...v0.17.3)
- [github.com/pre-commit/mirrors-clang-format: v22.1.8 → v23.1.3](https://github.com/pre-commit/mirrors-clang-format/compare/v22.1.8...v23.1.3)
- [github.com/scop/pre-commit-shfmt: v3.13.1-1 → v3.14.1-1](https://github.com/scop/pre-commit-shfmt/compare/v3.13.1-1...v3.14.1-1)
- https://github.com/pylint-dev/pylint/: v4.0.6 → v4.1.3
---
 .pre-commit-config.yaml | 10 +++++-----
 1 file changed, 5 insertions(+), 5 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index d6f784c422..0c185dc326 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -23,14 +23,14 @@ repos:
       - id: check-toml
   # Python
   - repo: https://github.com/PyCQA/isort
-    rev: 9.0.0b1
+    rev: 10.0.0b2
     hooks:
       - id: isort
         files: \.py$
         exclude: ^source/3rdparty
   - repo: https://github.com/astral-sh/ruff-pre-commit
     # Ruff version.
-    rev: v0.16.0
+    rev: v0.17.3
     hooks:
       - id: ruff
         args: ["--fix"]
@@ -62,7 +62,7 @@ repos:
           - mdformat-gfm-alerts==2.0.0
   # C++
   - repo: https://github.com/pre-commit/mirrors-clang-format
-    rev: v22.1.8
+    rev: v23.1.3
     hooks:
       - id: clang-format
         exclude: ^(source/3rdparty|source/lib/src/gpu/cudart/.+\.inc|.+\.ipynb$|source/tests/infer/.+\.json$)
@@ -76,7 +76,7 @@ repos:
         exclude: ^(source/3rdparty|\.clang-format)
   # Shell
   - repo: https://github.com/scop/pre-commit-shfmt
-    rev: v3.13.1-1
+    rev: v3.14.1-1
     hooks:
       - id: shfmt
   # CMake
@@ -156,7 +156,7 @@ repos:
         exclude: .pre-commit-config.yaml|source/lmp
   # customized pylint rules
   - repo: https://github.com/pylint-dev/pylint/
-    rev: v4.0.6
+    rev: v4.1.3
     hooks:
       - id: pylint
         entry: env PYTHONPATH=source/checker pylint

From e6fc44a4af4a432b2ff08fda760a29589bb4e976 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Mon, 2 Nov 2026 22:03:36 +0000
Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci
---
 deepmd/_vendors/ndtensorflow/linalg.py        |  4 +---
 deepmd/dpmodel/common.py                      |  4 +++-
 deepmd/dpmodel/utils/neighbor_graph/angles.py |  4 +++-
 deepmd/pd/model/network/mlp.py                |  4 +---
 deepmd/pd/utils/finetune.py                   |  4 +---
 deepmd/pd/utils/utils.py                      |  4 +++-
 deepmd/pt/model/descriptor/se_a.py            |  4 +++-
 deepmd/pt/model/descriptor/se_t.py            |  4 +++-
 deepmd/pt/model/model/sezm_model.py           | 19 +++++++++++++++----
 deepmd/pt/model/network/mlp.py                |  4 +---
 deepmd/pt/utils/finetune.py                   |  4 +---
 deepmd/pt_expt/common.py                      |  4 +++-
 .../pt_expt/kernels/dpa4c/graph_compress.py   |  4 +---
 deepmd/pt_expt/train/training.py              |  4 +---
 deepmd/pt_expt/utils/finetune.py              |  4 +---
 deepmd/pt_expt/utils/type_embed.py            |  4 +++-
 deepmd/pt_expt/utils/vesin_neighbor_list.py   |  5 ++++-
 deepmd/tf/env.py                              |  8 ++------
 deepmd/tf/model/model_stat.py                 |  4 +---
 deepmd/tf/train/trainer.py                    |  4 +++-
 deepmd/utils/data_system.py                   |  6 ++----
 source/tests/pt_expt/model/test_unimol.py     |  4 +---
 22 files changed, 57 insertions(+), 53 deletions(-)

diff --git a/deepmd/_vendors/ndtensorflow/linalg.py b/deepmd/_vendors/ndtensorflow/linalg.py
index 9b5c4222aa..0d6066aa69 100644
--- a/deepmd/_vendors/ndtensorflow/linalg.py
+++ b/deepmd/_vendors/ndtensorflow/linalg.py
@@ -24,12 +24,10 @@
     finfo,
     matmul,
     matrix_transpose,
-)
-from ._namespace import sum as xp_sum
-from ._namespace import (
     tensordot,
     vecdot,
 )
+from ._namespace import sum as xp_sum
 
 EighResult = namedtuple("EighResult", ["eigenvalues", "eigenvectors"])
 EigResult = namedtuple("EigResult", ["eigenvalues", "eigenvectors"])
diff --git a/deepmd/dpmodel/common.py b/deepmd/dpmodel/common.py
index cf02f2d44f..78d97fc758 100644
--- a/deepmd/dpmodel/common.py
+++ b/deepmd/dpmodel/common.py
@@ -25,7 +25,9 @@
 )
 
 if TYPE_CHECKING:
-    from deepmd.dpmodel.array_api import Array
+    from deepmd.dpmodel.array_api import (
+        Array,
+    )
 
 from deepmd.env import (
     GLOBAL_ENER_FLOAT_PRECISION,
diff --git a/deepmd/dpmodel/utils/neighbor_graph/angles.py b/deepmd/dpmodel/utils/neighbor_graph/angles.py
index d6414c19ff..fc24fe67af 100644
--- a/deepmd/dpmodel/utils/neighbor_graph/angles.py
+++ b/deepmd/dpmodel/utils/neighbor_graph/angles.py
@@ -17,7 +17,9 @@
 import array_api_compat
 
 if TYPE_CHECKING:
-    from deepmd.dpmodel.array_api import Array
+    from deepmd.dpmodel.array_api import (
+        Array,
+    )
 
 import dataclasses
 
diff --git a/deepmd/pd/model/network/mlp.py b/deepmd/pd/model/network/mlp.py
index ebae333d61..8afb90d54c 100644
--- a/deepmd/pd/model/network/mlp.py
+++ b/deepmd/pd/model/network/mlp.py
@@ -20,13 +20,11 @@
 
 from deepmd.dpmodel.utils import (
     NativeLayer,
-)
-from deepmd.dpmodel.utils import NetworkCollection as DPNetworkCollection
-from deepmd.dpmodel.utils import (
     make_embedding_network,
     make_fitting_network,
     make_multilayer_network,
 )
+from deepmd.dpmodel.utils import NetworkCollection as DPNetworkCollection
 from deepmd.pd.model.network.init import (
     PaddleGenerator,
     kaiming_normal_,
diff --git a/deepmd/pd/utils/finetune.py b/deepmd/pd/utils/finetune.py
index 3bd259cc82..ab6743f9ac 100644
--- a/deepmd/pd/utils/finetune.py
+++ b/deepmd/pd/utils/finetune.py
@@ -9,11 +9,9 @@
 
 from deepmd.utils.finetune import (
     FinetuneRuleItem,
-)
-from deepmd.utils.finetune import get_finetune_rule_single as get_finetune_rule_single
-from deepmd.utils.finetune import (
     get_finetune_rules_from_model_params,
 )
+from deepmd.utils.finetune import get_finetune_rule_single as get_finetune_rule_single
 
 __all__ = ["get_finetune_rule_single", "get_finetune_rules"]
 
diff --git a/deepmd/pd/utils/utils.py b/deepmd/pd/utils/utils.py
index 1849a4b2d4..d177422157 100644
--- a/deepmd/pd/utils/utils.py
+++ b/deepmd/pd/utils/utils.py
@@ -13,7 +13,9 @@
 )
 
 if TYPE_CHECKING:
-    from collections.abc import Generator
+    from collections.abc import (
+        Generator,
+    )
 
     from deepmd.pd.model.network.init import (
         PaddleGenerator,
diff --git a/deepmd/pt/model/descriptor/se_a.py b/deepmd/pt/model/descriptor/se_a.py
index 0ba51a42e0..1ec083c342 100644
--- a/deepmd/pt/model/descriptor/se_a.py
+++ b/deepmd/pt/model/descriptor/se_a.py
@@ -50,7 +50,9 @@
         Final,
     )
 except ImportError:
-    from torch.jit import Final
+    from torch.jit import (
+        Final,
+    )
 
 from deepmd.dpmodel.utils import EnvMat as DPEnvMat
 from deepmd.pt.model.network.mlp import (
diff --git a/deepmd/pt/model/descriptor/se_t.py b/deepmd/pt/model/descriptor/se_t.py
index d62a79593e..21acc08da8 100644
--- a/deepmd/pt/model/descriptor/se_t.py
+++ b/deepmd/pt/model/descriptor/se_t.py
@@ -50,7 +50,9 @@
         Final,
     )
 except ImportError:
-    from torch.jit import Final
+    from torch.jit import (
+        Final,
+    )
 
 from deepmd.dpmodel.utils import EnvMat as DPEnvMat
 from deepmd.pt.model.network.mlp import (
diff --git a/deepmd/pt/model/model/sezm_model.py b/deepmd/pt/model/model/sezm_model.py
index a18b82cd94..50ecf8e034 100644
--- a/deepmd/pt/model/model/sezm_model.py
+++ b/deepmd/pt/model/model/sezm_model.py
@@ -471,11 +471,22 @@
 )
 
 if TYPE_CHECKING:
-    from collections.abc import Generator
+    from collections.abc import (
+        Generator,
+    )
 
-    from jaxtyping import Float, Int
-    from torch import Tensor
-    from deepmd.dpmodel.utils.neighbor_list import EdgeNeighborList, NeighborList
+    from jaxtyping import (
+        Float,
+        Int,
+    )
+    from torch import (
+        Tensor,
+    )
+
+    from deepmd.dpmodel.utils.neighbor_list import (
+        EdgeNeighborList,
+        NeighborList,
+    )
 
 from deepmd.dpmodel.atomic_model.inner_potential import (
     InnerPotential as InnerPotentialDP,
diff --git a/deepmd/pt/model/network/mlp.py b/deepmd/pt/model/network/mlp.py
index 13ea438f4f..14b9b0db73 100644
--- a/deepmd/pt/model/network/mlp.py
+++ b/deepmd/pt/model/network/mlp.py
@@ -17,13 +17,11 @@
 
 from deepmd.dpmodel.utils import (
     NativeLayer,
-)
-from deepmd.dpmodel.utils import NetworkCollection as DPNetworkCollection
-from deepmd.dpmodel.utils import (
     make_embedding_network,
     make_fitting_network,
     make_multilayer_network,
 )
+from deepmd.dpmodel.utils import NetworkCollection as DPNetworkCollection
 from deepmd.pt.model.network.init import (
     kaiming_normal_,
     normal_,
diff --git a/deepmd/pt/utils/finetune.py b/deepmd/pt/utils/finetune.py
index ad918701da..092e9f0886 100644
--- a/deepmd/pt/utils/finetune.py
+++ b/deepmd/pt/utils/finetune.py
@@ -12,11 +12,9 @@
 )
 from deepmd.utils.finetune import (
     FinetuneRuleItem,
-)
-from deepmd.utils.finetune import get_finetune_rule_single as get_finetune_rule_single
-from deepmd.utils.finetune import (
     get_finetune_rules_from_model_params,
 )
+from deepmd.utils.finetune import get_finetune_rule_single as get_finetune_rule_single
 
 __all__ = ["get_finetune_rule_single", "get_finetune_rules"]
 
diff --git a/deepmd/pt_expt/common.py b/deepmd/pt_expt/common.py
index b91c24d448..7e7acb77b5 100644
--- a/deepmd/pt_expt/common.py
+++ b/deepmd/pt_expt/common.py
@@ -628,7 +628,9 @@ def _ensure_registrations() -> None:
     converters are registered before any descriptors/fittings try to use them.
     """
     # Import triggers registration of NetworkCollection, ExcludeMask, EnvMat
-    from deepmd.pt_expt import utils  # noqa: F401
+    from deepmd.pt_expt import (  # noqa: F401
+        utils,
+    )
 
 
 _ensure_registrations()
diff --git a/deepmd/pt_expt/kernels/dpa4c/graph_compress.py b/deepmd/pt_expt/kernels/dpa4c/graph_compress.py
index 8e9532280b..c3e52d9dc4 100644
--- a/deepmd/pt_expt/kernels/dpa4c/graph_compress.py
+++ b/deepmd/pt_expt/kernels/dpa4c/graph_compress.py
@@ -2533,13 +2533,11 @@ def dpa4c_graph_compress_energy_force(
     """
     from deepmd.pt_expt.kernels.edge_force_virial import (
         edge_force_virial,
+        frame_scalar_sum,
     )
     from deepmd.pt_expt.kernels.edge_force_virial import (
         ensure_registered as ensure_force_registered,
     )
-    from deepmd.pt_expt.kernels.edge_force_virial import (
-        frame_scalar_sum,
-    )
     from deepmd.pt_expt.kernels.graph_fitting import (
         ensure_registered as ensure_fitting_registered,
     )
diff --git a/deepmd/pt_expt/train/training.py b/deepmd/pt_expt/train/training.py
index 051701dc96..dae2347a54 100644
--- a/deepmd/pt_expt/train/training.py
+++ b/deepmd/pt_expt/train/training.py
@@ -100,12 +100,10 @@
     apply_global_compile_patches,
     build_inductor_compile_options,
     check_compile_torch_version,
+    relax_views_to_reshapes,
 )
 from deepmd.pt.utils.compile_compat import next_safe_prime as _next_safe_prime
 from deepmd.pt.utils.compile_compat import rebuild_graph_module as _rebuild_graph_module
-from deepmd.pt.utils.compile_compat import (
-    relax_views_to_reshapes,
-)
 from deepmd.pt.utils.compile_compat import (
     strip_saved_tensor_detach as _strip_saved_tensor_detach,
 )
diff --git a/deepmd/pt_expt/utils/finetune.py b/deepmd/pt_expt/utils/finetune.py
index c44de996dc..b91ebef354 100644
--- a/deepmd/pt_expt/utils/finetune.py
+++ b/deepmd/pt_expt/utils/finetune.py
@@ -15,11 +15,9 @@
 )
 from deepmd.utils.finetune import (
     FinetuneRuleItem,
-)
-from deepmd.utils.finetune import get_finetune_rule_single as get_finetune_rule_single
-from deepmd.utils.finetune import (
     get_finetune_rules_from_model_params,
 )
+from deepmd.utils.finetune import get_finetune_rule_single as get_finetune_rule_single
 
 __all__ = ["get_finetune_rule_single", "get_finetune_rules"]
 
diff --git a/deepmd/pt_expt/utils/type_embed.py b/deepmd/pt_expt/utils/type_embed.py
index da4cf09028..a33e01de59 100644
--- a/deepmd/pt_expt/utils/type_embed.py
+++ b/deepmd/pt_expt/utils/type_embed.py
@@ -12,7 +12,9 @@
 )
 
 # Import network to ensure EmbeddingNet is registered before TypeEmbedNet is used
-from deepmd.pt_expt.utils import network  # noqa: F401
+from deepmd.pt_expt.utils import (  # noqa: F401
+    network,
+)
 
 
 class TypeEmbedNet(TypeEmbedNetDP, torch.nn.Module):
diff --git a/deepmd/pt_expt/utils/vesin_neighbor_list.py b/deepmd/pt_expt/utils/vesin_neighbor_list.py
index a2d67b5754..0d1fed1ecb 100644
--- a/deepmd/pt_expt/utils/vesin_neighbor_list.py
+++ b/deepmd/pt_expt/utils/vesin_neighbor_list.py
@@ -31,7 +31,10 @@
 )
 
 if TYPE_CHECKING:
-    from deepmd.dpmodel.utils.exclude_mask import PairExcludeMask
+    from deepmd.dpmodel.utils.exclude_mask import (
+        PairExcludeMask,
+    )
+
 from deepmd.pt_expt.utils.edge_schema import (
     edge_schema_from_ij_shifts,
     merge_frame_edge_schemas,
diff --git a/deepmd/tf/env.py b/deepmd/tf/env.py
index 1fd08ecdf7..5d915abb50 100644
--- a/deepmd/tf/env.py
+++ b/deepmd/tf/env.py
@@ -27,15 +27,11 @@
     GLOBAL_NP_FLOAT_PRECISION,
     SHARED_LIB_DIR,
     SHARED_LIB_MODULE,
-)
-from deepmd.env import get_default_nthreads as get_tf_default_nthreads
-from deepmd.env import (
     global_float_prec,
-)
-from deepmd.env import set_default_nthreads as set_tf_default_nthreads
-from deepmd.env import (
     set_env_if_empty,
 )
+from deepmd.env import get_default_nthreads as get_tf_default_nthreads
+from deepmd.env import set_default_nthreads as set_tf_default_nthreads
 
 if TYPE_CHECKING:
     from types import (
diff --git a/deepmd/tf/model/model_stat.py b/deepmd/tf/model/model_stat.py
index 1b0e8ab3a1..102d93f906 100644
--- a/deepmd/tf/model/model_stat.py
+++ b/deepmd/tf/model/model_stat.py
@@ -3,11 +3,9 @@
 
 from deepmd.utils.model_stat import (
     _make_all_stat_ref,
-)
-from deepmd.utils.model_stat import collect_batches as make_stat_input
-from deepmd.utils.model_stat import (
     merge_sys_stat,
 )
+from deepmd.utils.model_stat import collect_batches as make_stat_input
 
 __all__ = [
     "_make_all_stat_ref",  # used by tests
diff --git a/deepmd/tf/train/trainer.py b/deepmd/tf/train/trainer.py
index 8f4f840a12..989e9054b4 100644
--- a/deepmd/tf/train/trainer.py
+++ b/deepmd/tf/train/trainer.py
@@ -11,7 +11,9 @@
 )
 
 if TYPE_CHECKING:
-    from typing import TextIO
+    from typing import (
+        TextIO,
+    )
 
 import google.protobuf.message
 import numpy as np
diff --git a/deepmd/utils/data_system.py b/deepmd/utils/data_system.py
index 5fbe657150..63bbbe4fd3 100644
--- a/deepmd/utils/data_system.py
+++ b/deepmd/utils/data_system.py
@@ -40,13 +40,11 @@
 from deepmd.utils.data_path import process_systems as process_systems
 from deepmd.utils.data_sampling import (
     data_child_seeds,
-)
-from deepmd.utils.data_sampling import prob_sys_size_ext as prob_sys_size_ext
-from deepmd.utils.data_sampling import process_sys_probs as process_sys_probs
-from deepmd.utils.data_sampling import (
     system_probabilities,
     uniform_sampling_weights,
 )
+from deepmd.utils.data_sampling import prob_sys_size_ext as prob_sys_size_ext
+from deepmd.utils.data_sampling import process_sys_probs as process_sys_probs
 from deepmd.utils.out_stat import (
     compute_stats_from_redu,
 )
diff --git a/source/tests/pt_expt/model/test_unimol.py b/source/tests/pt_expt/model/test_unimol.py
index 8ca7052efb..75473dd065 100644
--- a/source/tests/pt_expt/model/test_unimol.py
+++ b/source/tests/pt_expt/model/test_unimol.py
@@ -17,11 +17,9 @@
 
 from deepmd.dpmodel.descriptor.unimol import (
     UNIMOL_ELEMENTS,
-)
-from deepmd.dpmodel.descriptor.unimol import DescrptUniMol as DescrptUniMolDP
-from deepmd.dpmodel.descriptor.unimol import (
     unimol_vocabulary,
 )
+from deepmd.dpmodel.descriptor.unimol import DescrptUniMol as DescrptUniMolDP
 from deepmd.dpmodel.fitting.unimol_pretrain import (
     UniMolPretrainFitting as UniMolPretrainFittingDP,
 )