Closed
Description
I prepared a maven project with graalpy. But failed to mvn package
the project.
This is my pom settings:
<properties>
<maven.compiler.source>11</maven.compiler.source>
<maven.compiler.target>11</maven.compiler.target>
<graalpy.version>24.1.2</graalpy.version>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
</properties>
<build>
<plugins>
<plugin>
<groupId>org.graalvm.python</groupId>
<artifactId>graalpy-maven-plugin</artifactId>
<version>${graalpy.version}</version>
<configuration>
<packages>
<package>optuna==3.2.0</package>
<package>pandas==1.5.2</package>
<package>scikit-learn==1.2.2</package>
<package>numpy==1.24.3</package>
</packages>
<externalDirectory>
${project.basedir}/python-resources
</externalDirectory>
</configuration>
<executions>
<execution>
<goals>
<goal>process-graalpy-resources</goal>
</goals>
</execution>
</executions>
</plugin>
mvn package process failed with the following error message:
[INFO] --- graalpy-maven-plugin:24.1.2:process-graalpy-resources (default) @ tuning-driver ---
[INFO] Creating GraalPy 24.1.2 venv
[INFO] /home/cengfeng.lzy/codebase/mljava/tuning-driver/target/classes/org.graalvm.python.vfs/venv/bin/graalpy -m pip install scikit-learn==1.2.2 pandas==1.5.2 numpy==1.24.3 optuna==3.2.0
Looking in indexes: http://yum.tbsite.net/pypi/simple/, https://www.graalvm.org/python/wheels/
Collecting scikit-learn==1.2.2
Using cached http://yum.tbsite.net/pypi/packages/c9/fa/8e158d81e3602da1e7bafbd4987938bc003fe4b0f44d65681e7f8face95a/scikit-learn-1.2.2.tar.gz (7.3 MB)
Looking for GraalPy patches for scikit-learn
Patching package scikit-learn using /home/cengfeng.lzy/.cache/org.graalvm.polyglot/python/python-home/7f99e649dc51b21db2b83ce56bc9742e402b87c1/lib/graalpy24.1/patches/scikit-learn/scikit-learn-1.2.2.patch
patching file pyproject.toml
patching file sklearn/_build_utils/__init__.py
patching file sklearn/datasets/_svmlight_format_fast.pyx
Installing build dependencies: started
Installing build dependencies: still running...
Installing build dependencies: still running...
Installing build dependencies: still running...
Installing build dependencies: finished with status 'error'
error: subprocess-exited-with-error
× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> [92 lines of output]
Looking in indexes: http://yum.tbsite.net/pypi/simple/, https://www.graalvm.org/python/wheels/, https://www.graalvm.org/python/wheels/
Ignoring numpy: markers 'python_version == "3.10" and platform_system == "Windows" and platform_python_implementation != "PyPy"' don't match your environment
Collecting setuptools
Using cached http://yum.tbsite.net/pypi/packages/54/21/f43f0a1fa8b06b32812e0975981f4677d28e0f3271601dc88ac5a5b83220/setuptools-78.1.0-py3-none-any.whl (1.3 MB)
Collecting wheel
Using cached http://yum.tbsite.net/pypi/packages/7d/cd/d7460c9a869b16c3dd4e1e403cce337df165368c71d6af229a74699622ce/wheel-0.43.0-py3-none-any.whl (65 kB)
Collecting Cython<3,>=0.29.24
Using cached http://yum.tbsite.net/pypi/packages/7e/26/9d8de10005fedb1eceabe713348d43bae1dbab1786042ca0751a2e2b0f8c/Cython-0.29.37-py2.py3-none-any.whl (989 kB)
Collecting oldest-supported-numpy
Using cached http://yum.tbsite.net/pypi/packages/dc/5c/e3c84cfdd488701aa074b22cf5bd227fb15d26e1d55a66d9088c39afa123/oldest_supported_numpy-2023.12.21-py3-none-any.whl (4.9 kB)
Collecting scipy>=1.3.2
Using cached http://yum.tbsite.net/pypi/packages/84/a9/2bf119f3f9cff1f376f924e39cfae18dec92a1514784046d185731301281/scipy-1.10.1.tar.gz (42.4 MB)
auto-patching C API usages in /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/scipy/_lib/boost/boost/python/suite/indexing/detail/indexing_suite_detail.hpp
auto-patching C API usages in /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/scipy/_lib/boost/boost/python/detail/wrap_python.hpp
auto-patching C API usages in /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/scipy/_lib/boost/boost/mpi/python/skeleton_and_content.hpp
auto-patching C API usages in /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/scipy/_lib/boost/boost/mpi/python/serialize.hpp
Looking for GraalPy patches for scipy
Patching package scipy using /home/cengfeng.lzy/.cache/org.graalvm.polyglot/python/python-home/7f99e649dc51b21db2b83ce56bc9742e402b87c1/lib/graalpy24.1/patches/scipy/scipy-1.10.1.patch
patching file meson.build
patching file mesonpy_wrapper.py
patching file pyproject.toml
patching file scipy/_lib/_ccallback_c.pyx
patching file scipy/_lib/setup.py
patching file scipy/_lib/src/messagestream_config.h.in
patching file scipy/sparse/linalg/meson.build
patching file scipy/special/meson.build
patching file tools/cythonize.py
Installing build dependencies: started
Installing build dependencies: still running...
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): still running...
Preparing metadata (pyproject.toml): finished with status 'error'
error: subprocess-exited-with-error
× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [42 lines of output]
+ meson setup --prefix=/home/cengfeng.lzy/.cache/org.graalvm.polyglot/python/python-home/7f99e649dc51b21db2b83ce56bc9742e402b87c1 /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24 /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/mesonbuild-graalpy --native-file=/tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/.mesonpy-native-file.ini -Ddebug=false -Doptimization=2
The Meson build system
Version: 1.2.2
Source dir: /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24
Build dir: /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/mesonbuild-graalpy
Build type: native build
Project name: SciPy
Project version: 1.10.1
C compiler for the host machine: cc (gcc 10.2.1 "cc (GCC) 10.2.1 20200825 (Alibaba 10.2.1-3.8 2.32)")
C linker for the host machine: cc ld.bfd 2.35-12
C++ compiler for the host machine: c++ (gcc 10.2.1 "c++ (GCC) 10.2.1 20200825 (Alibaba 10.2.1-3.8 2.32)")
C++ linker for the host machine: c++ ld.bfd 2.35-12
Cython compiler for the host machine: cython (cython 0.29.37)
Host machine cpu family: x86_64
Host machine cpu: x86_64
Compiler for C supports arguments -Wno-unused-but-set-variable: YES
Compiler for C supports arguments -Wno-unused-function: YES
Compiler for C supports arguments -Wno-conversion: YES
Compiler for C supports arguments -Wno-misleading-indentation: YES
Compiler for C supports arguments -Wno-incompatible-pointer-types: YES
Library m found: YES
Fortran compiler for the host machine: gfortran (gcc 10.2.1 "GNU Fortran (GCC) 10.2.1 20200825 (Alibaba 10.2.1-3.8 2.32)")
Fortran linker for the host machine: gfortran ld.bfd 2.35-12
Compiler for Fortran supports arguments -Wno-conversion: YES
Compiler for Fortran supports arguments -fallow-argument-mismatch: YES
Checking if "-Wl,--version-script" : links: YES
Program cython found: YES (/tmp/pip-build-env-3v8a54ez/overlay/bin/cython)
Program python found: YES (/home/cengfeng.lzy/codebase/mljava/tuning-driver/target/classes/org.graalvm.python.vfs/venv/bin/graalpy)
Run-time dependency python found: YES 3.11
Program pythran found: YES (/tmp/pip-build-env-3v8a54ez/overlay/bin/pythran)
Run-time dependency threads found: YES
Library npymath found: YES
Library npyrandom found: YES
Found pkg-config: /usr/bin/pkg-config (1.4.2)
Found CMake: /usr/bin/cmake (3.26.5)
WARNING: CMake Toolchain: Failed to determine CMake compilers state
Run-time dependency openblas found: NO (tried pkgconfig and cmake)
Run-time dependency openblas found: NO (tried pkgconfig and cmake)
../scipy/meson.build:134:7: ERROR: Dependency "OpenBLAS" not found, tried pkgconfig and cmake
A full log can be found at /tmp/pip-install-lg_sqgji/scipy_61e5a5affd64483386ee2d3ee0995d24/mesonbuild-graalpy/meson-logs/meson-log.txt
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed
× Encountered error while generating package metadata.
╰─> See above for output.
note: This is an issue with the package mentioned above, not pip.
hint: See above for details.
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error
× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> See above for output.
But I have installed openblas:
$sudo yum install openblas
Last metadata expiration check: 1:19:54 ago on Thu 10 Apr 2025 01:51:08 PM CST.
Package openblas-0.3.15-6.al8.x86_64 is already installed.
Dependencies resolved.
Nothing to do.
Complete!
$ldconfig -p | grep openblas
libopenblas.so.0 (libc6,x86-64) => /lib64/libopenblas.so.0
How can I get this fixed? Thanks.
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