fix: bump CMake minimum version to 3.25.2 (#5001)

## Summary

This PR bumps the CMake minimum required version from 3.16 to 3.25.2
across the repository to support the `RUN_OUTPUT_STDOUT_VARIABLE` option
used in `source/cmake/Findtensorflow.cmake`.

## Background

PR #4890 introduced the use of `RUN_OUTPUT_STDOUT_VARIABLE` in the
`try_run()` command within `source/cmake/Findtensorflow.cmake` (line
297). This CMake feature was added in CMake 3.25, but the minimum
required version was still set to 3.16, which would cause build failures
on systems with older CMake versions.

Additionally, CMake 3.25.0 and 3.25.1 contain a bug
(https://gitlab.kitware.com/cmake/cmake/-/issues/24275), so the minimum
version is set to 3.25.2 to avoid this issue.

## Changes

This PR updates the CMake version requirements consistently across all
build configuration files:

- **Main CMakeLists.txt**: Updated base requirement and conditional
requirements for CUDA/ROCM variants
- **Python build configuration** (`backend/read_env.py`): Updated
version requirements for CPU, CUDA, and ROCM variants
- **Documentation** (`doc/install/install-from-source.md`): Simplified
to state that CMake 3.25.2+ is required for all platforms
- **Test and example CMakeLists**: Updated all test directories and
example projects to require CMake 3.25.2 for consistency

### Files Modified
- `source/CMakeLists.txt`
- `backend/read_env.py`
- `doc/install/install-from-source.md`
- `source/lib/src/gpu/CMakeLists.txt`
- `source/lib/tests/CMakeLists.txt`
- `source/api_c/tests/CMakeLists.txt`
- `source/api_cc/tests/CMakeLists.txt`
- `source/lmp/plugin/CMakeLists.txt`
- `examples/infer_water/CMakeLists.txt`

## Impact

Users will need CMake 3.25.2 or later to build DeePMD-kit from source.
CMake 3.25.2 was released in March 2022, so it should be widely
available. Users can easily install or upgrade CMake via pip:

```bash
pip install -U cmake
```

Fixes the issue where builds would fail with CMake versions between 3.16
and 3.24 due to the use of `RUN_OUTPUT_STDOUT_VARIABLE`, and avoids the
bug present in CMake 3.25.0 and 3.25.1.

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<details>

<summary>Original prompt</summary>

> 
> ----
> 
> *This section details on the original issue you should resolve*
> 
> <issue_title>[BUG] CMake minimal version should be bumped to
3.25</issue_title>
> <issue_description>### Bug summary
> 
> #4890 uses `RUN_OUTPUT_STDOUT_VARIABLE` which
is new in CMake 3.25. Thus, the CMake minimal version should be bumped
to 3.25 in CMakeLists.txt, read_env.py, and the documentation.
> 
> ### DeePMD-kit Version
> 
> devel
> 
> ### Backend and its version
> 
> -
> 
> ### How did you download the software?
> 
> Built from source
> 
> ### Input Files, Running Commands, Error Log, etc.
> 
> As above.
> 
> ### Steps to Reproduce
> 
> As above.
> 
> ### Further Information, Files, and Links
> 
> _No response_</issue_description>
> 
> ## Comments on the Issue (you are @copilot in this section)
> 
> <comments>
> </comments>
> 


</details>
Fixes #5000

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---------

Signed-off-by: Jinzhe Zeng <jinzhe.zeng@ustc.edu.cn>
Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Co-authored-by: njzjz <9496702+njzjz@users.noreply.github.com>
Co-authored-by: Jinzhe Zeng <jinzhe.zeng@ustc.edu.cn>

Author: Copilot

backend/read_env.py

@@ -46,15 +46,15 @@ def get_argument_from_env() -> tuple[str, list, list, dict, str, str]:
     # get variant option from the environment variables, available: cpu, cuda, rocm
     dp_variant = os.environ.get("DP_VARIANT", "cpu").lower()
     if dp_variant == "cpu" or dp_variant == "":
-        cmake_minimum_required_version = "3.16"
+        cmake_minimum_required_version = "3.25.2"
     elif dp_variant == "cuda":
-        cmake_minimum_required_version = "3.23"
+        cmake_minimum_required_version = "3.25.2"
         cmake_args.append("-DUSE_CUDA_TOOLKIT:BOOL=TRUE")
         cuda_root = os.environ.get("CUDAToolkit_ROOT")
         if cuda_root:
             cmake_args.append(f"-DCUDAToolkit_ROOT:STRING={cuda_root}")
     elif dp_variant == "rocm":
-        cmake_minimum_required_version = "3.21"
+        cmake_minimum_required_version = "3.25.2"
         cmake_args.append("-DUSE_ROCM_TOOLKIT:BOOL=TRUE")
         rocm_root = os.environ.get("ROCM_ROOT")
         if not rocm_root:

doc/install/install-from-source.md

@@ -377,7 +377,7 @@ mkdir build
 cd build
 ```
 
-The installation requires CMake 3.16 or later for the CPU version, CMake 3.23 or later for the CUDA support, and CMake 3.21 or later for the ROCM support. One can install CMake via `pip` if it is not installed or the installed version does not satisfy the requirement:
+The installation requires CMake 3.25.2 or later for all platforms (CPU, CUDA, and ROCM). One can install CMake via `pip` if it is not installed or the installed version does not satisfy the requirement:
 
 ```sh
 pip install -U cmake

examples/infer_water/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required(VERSION 3.7)
+cmake_minimum_required(VERSION 3.25.2)
 project(infer_water)
 
 # find DeePMD-kit

pyproject.toml

@@ -283,9 +283,8 @@ DP_ENABLE_IPI = "1"
 DP_ENABLE_PYTORCH = "1"
 DP_ENABLE_PADDLE = "1"
 # use CPU version of torch for building, which should also work for GPU
-# note: uv has different behavior from pip on extra index url
-# https://github.com/astral-sh/uv/blob/main/PIP_COMPATIBILITY.md#packages-that-exist-on-multiple-indexes
-UV_EXTRA_INDEX_URL = "https://download.pytorch.org/whl/cpu"
+# https://docs.astral.sh/uv/guides/integration/pytorch/#automatic-backend-selection
+UV_TORCH_BACKEND = "cpu"
 
 [tool.cibuildwheel.windows]
 test-extras = ["cpu", "torch", "paddle"]

source/CMakeLists.txt

@@ -1,5 +1,5 @@
-# new in 3.16: GET_RUNTIME_DEPENDENCIES, target_precompile_headers
-cmake_minimum_required(VERSION 3.16)
+# new in 3.25: RUN_OUTPUT_STDOUT_VARIABLE
+cmake_minimum_required(VERSION 3.25.2)
 project(DeePMD)
 
 option(ENABLE_TENSORFLOW "Enable TensorFlow interface" OFF)
@@ -244,7 +244,7 @@ set(DP_VARIANT "cpu")
 
 # define USE_CUDA_TOOLKIT
 if(USE_CUDA_TOOLKIT)
-  cmake_minimum_required(VERSION 3.23)
+  cmake_minimum_required(VERSION 3.25.2)
   find_package(CUDAToolkit REQUIRED)
   if(NOT DEFINED CMAKE_CUDA_COMPILER)
     set(CMAKE_CUDA_COMPILER ${CUDAToolkit_NVCC_EXECUTABLE})
@@ -261,7 +261,7 @@ endif(USE_CUDA_TOOLKIT)
 
 # define USE_ROCM_TOOLKIT
 if(USE_ROCM_TOOLKIT)
-  cmake_minimum_required(VERSION 3.21)
+  cmake_minimum_required(VERSION 3.25.2)
   include(CMakeDetermineHIPCompiler)
   list(APPEND CMAKE_PREFIX_PATH ${CMAKE_HIP_COMPILER_ROCM_ROOT})
   find_package(hip REQUIRED)

source/api_c/tests/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required(VERSION 3.9)
+cmake_minimum_required(VERSION 3.25.2)
 project(deepmd_api_c_test)
 
 file(GLOB TEST_SRC test_*.cc)

source/api_cc/tests/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required(VERSION 3.9)
+cmake_minimum_required(VERSION 3.25.2)
 project(deepmd_api_test)
 
 file(GLOB TEST_SRC test_*.cc)

source/lib/src/gpu/CMakeLists.txt

@@ -1,6 +1,7 @@
 if(USE_CUDA_TOOLKIT)
-  # required cmake version 3.23: CMAKE_CUDA_ARCHITECTURES all
-  cmake_minimum_required(VERSION 3.23)
+  # required cmake version 3.25: CMAKE_CUDA_ARCHITECTURES all,
+  # RUN_OUTPUT_STDOUT_VARIABLE
+  cmake_minimum_required(VERSION 3.25.2)
   # project name
   project(deepmd_op_cuda)
   set(GPU_LIB_NAME deepmd_op_cuda)
@@ -54,7 +55,7 @@ if(USE_CUDA_TOOLKIT)
 elseif(USE_ROCM_TOOLKIT)
 
   # required cmake version
-  cmake_minimum_required(VERSION 3.21)
+  cmake_minimum_required(VERSION 3.25.2)
   # project name
   project(deepmd_op_rocm)
   enable_language(HIP)

source/lib/tests/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required(VERSION 3.9)
+cmake_minimum_required(VERSION 3.25.2)
 project(libdeepmd_test)
 
 file(GLOB TEST_SRC test_*.cc)

source/lmp/plugin/CMakeLists.txt

@@ -2,7 +2,7 @@ if(DEFINED LAMMPS_SOURCE_ROOT OR DEFINED LAMMPS_VERSION)
   message(STATUS "enable LAMMPS plugin mode")
   add_library(lammps_interface INTERFACE)
   if(DEFINED LAMMPS_VERSION)
-    cmake_minimum_required(VERSION 3.14)
+    cmake_minimum_required(VERSION 3.25.2)
     include(FetchContent)
     FetchContent_Declare(
       lammps_download