Pegasus installation issues for macOS
He, Yiwen
Collecting package metadata (current_repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: \
Found conflicts! Looking for incompatible packages.
This can take several minutes. Press CTRL-C to abort.
failed
UnsatisfiableError: The following specifications were found to be incompatible with each other:
Output in format: Requested package -> Available versionsThe following specifications were found to be incompatible with your system:
- feature:/osx-64::__osx==10.16=0
- feature:|@/osx-64::__osx==10.16=0
- pegasuspy -> matplotlib-base[version='>=2.0.0'] -> __osx[version='>=10.11']
Your installed version is: 10.16
python3 -m pip install pegasuspy[all]
File "/private/var/folders/q3/5c3brbz521g1mzm7fy8r9mnm0000gn/T/pip-install-pam14b7k/lightgbm_27ebb7881ee143a782cc18597a714dfc/setup.py", line 99, in silent_call
raise Exception("\n".join((error_msg, LOG_NOTICE)))
Exception: Please install CMake and all required dependencies first
The full version of error log was saved into /Users/cynthia/LightGBM_compilation.log
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for lightgbm
Running setup.py clean for lightgbm
Building wheel for fitsne (setup.py) ... error
error: subprocess-exited-with-error
× python setup.py bdist_wheel did not run successfully.
│ exit code: 1
╰─> [46 lines of output]
Warning: passing language='c++' to cythonize() is deprecated. Instead, put "# distutils: language=c++" in your .pyx or .pxd file(s)
/opt/homebrew/lib/python3.11/site-packages/setuptools/dist.py:788: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
warnings.warn(
running bdist_wheel
running build
running build_py
creating build
creating build/lib.macosx-12-arm64-cpython-311
creating build/lib.macosx-12-arm64-cpython-311/fitsne
copying fitsne/_version.py -> build/lib.macosx-12-arm64-cpython-311/fitsne
copying fitsne/__init__.py -> build/lib.macosx-12-arm64-cpython-311/fitsne
copying fitsne/cywrap.py -> build/lib.macosx-12-arm64-cpython-311/fitsne
running build_ext
building 'fitsne.cppwrap' extension
creating build/temp.macosx-12-arm64-cpython-311
creating build/temp.macosx-12-arm64-cpython-311/fitsne
creating build/temp.macosx-12-arm64-cpython-311/fitsne/src
clang -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -Ifitsne -I/opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11 -c fitsne/cppwrap.cpp -o build/temp.macosx-12-arm64-cpython-311/fitsne/cppwrap.o -std=c++11 -O3 -pthread -lfftw3 -lm
clang: warning: -lfftw3: 'linker' input unused [-Wunused-command-line-argument]
clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument]
clang -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -Ifitsne -I/opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11 -c fitsne/src/nbodyfft.cpp -o build/temp.macosx-12-arm64-cpython-311/fitsne/src/nbodyfft.o -std=c++11 -O3 -pthread -lfftw3 -lm
clang: warning: -lfftw3: 'linker' input unused [-Wunused-command-line-argument]
clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument]
In file included from fitsne/src/nbodyfft.cpp:4:
fitsne/src/nbodyfft.h:7:10: fatal error: 'fftw3.h' file not found
#include <fftw3.h>
^~~~~~~~~
1 error generated.
Warning: passing language='c++' to cythonize() is deprecated. Instead, put "# distutils: language=c++" in your .pyx or .pxd file(s)
running bdist_wheel
running build
running build_py
running build_ext
building 'fitsne.cppwrap' extension
clang -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -Ifitsne -I/opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11 -c fitsne/cppwrap.cpp -o build/temp.macosx-12-arm64-cpython-311/fitsne/cppwrap.o -std=c++11 -O3 -pthread -lfftw3 -lm -stdlib=libc++
clang: warning: -lfftw3: 'linker' input unused [-Wunused-command-line-argument]
clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument]
clang -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -Ifitsne -I/opt/homebrew/opt/pyt...@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11 -c fitsne/src/nbodyfft.cpp -o build/temp.macosx-12-arm64-cpython-311/fitsne/src/nbodyfft.o -std=c++11 -O3 -pthread -lfftw3 -lm -stdlib=libc++
clang: warning: -lfftw3: 'linker' input unused [-Wunused-command-line-argument]
clang: warning: -lm: 'linker' input unused [-Wunused-command-line-argument]
In file included from fitsne/src/nbodyfft.cpp:4:
fitsne/src/nbodyfft.h:7:10: fatal error: 'fftw3.h' file not found
#include <fftw3.h>
^~~~~~~~~
1 error generated.
error: command '/usr/bin/clang' failed with exit code 1
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for fitsne
Running setup.py clean for fitsne
Failed to build lightgbm fitsne
ERROR: Could not build wheels for lightgbm, fitsne, which is required to install pyproject.toml-based projects
Bo Li
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