Open
Description
Installing pgml package from PyPi fails when setting up with Python 3.11.7 on a MacBook Pro (x86) Intel chip.
As all the functions are supported with SQLAlchemy, this isn't a blocker.
bash-5.2$ pip install pgml
Collecting pgml
Using cached pgml-1.1.1.tar.gz (255 kB)
Installing build dependencies ... error
error: subprocess-exited-with-error
× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> [197 lines of output]
Collecting maturin<2.0,>=1.0
Using cached maturin-1.7.0-py3-none-macosx_10_12_x86_64.whl.metadata (18 kB)
Collecting patchelf
Using cached patchelf-0.17.2.1.tar.gz (167 kB)
Installing build dependencies: started
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): finished with status 'done'
Using cached maturin-1.7.0-py3-none-macosx_10_12_x86_64.whl (8.1 MB)
Building wheels for collected packages: patchelf
Building wheel for patchelf (pyproject.toml): started
Building wheel for patchelf (pyproject.toml): finished with status 'error'
error: subprocess-exited-with-error
× Building wheel for patchelf (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [172 lines of output]
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-- Trying 'Ninja' generator
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--
Not searching for unused variables given on the command line.
-- The C compiler identification is AppleClang 15.0.0.15000309
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- The CXX compiler identification is AppleClang 15.0.0.15000309
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring done (1.6s)
-- Generating done (0.0s)
-- Build files have been written to: /private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_cmake_test_compile/build
--
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-- Trying 'Ninja' generator - success
--------------------------------------------------------------------------------
Configuring Project
Working directory:
/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_skbuild/macosx-14.0-x86_64-3.11/cmake-build
Command:
/usr/local/bin/cmake /private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba -G Ninja --no-warn-unused-cli -DCMAKE_INSTALL_PREFIX:PATH=/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_skbuild/macosx-14.0-x86_64-3.11/cmake-install -DPYTHON_VERSION_STRING:STRING=3.11.7 -DSKBUILD:INTERNAL=TRUE -DCMAKE_MODULE_PATH:PATH=/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-build-env-bn5msl5x/overlay/lib/python3.11/site-packages/skbuild/resources/cmake -DPYTHON_EXECUTABLE:PATH=.venv/bin/python3.11 -DPYTHON_INCLUDE_DIR:PATH=/Library/Frameworks/Python.framework/Versions/3.11/include/python3.11 -DPYTHON_LIBRARY:PATH=/Library/Frameworks/Python.framework/Versions/3.11/lib/libpython3.11.dylib -DPython_EXECUTABLE:PATH=.venv/bin/python3.11 -DPython_ROOT_DIR:PATH=.venv -DPython_FIND_REGISTRY:STRING=NEVER -DPython_INCLUDE_DIR:PATH=/Library/Frameworks/Python.framework/Versions/3.11/include/python3.11 -DPython3_EXECUTABLE:PATH=.venv/bin/python3.11 -DPython3_ROOT_DIR:PATH=.venv -DPython3_FIND_REGISTRY:STRING=NEVER -DPython3_INCLUDE_DIR:PATH=/Library/Frameworks/Python.framework/Versions/3.11/include/python3.11 -DCMAKE_OSX_DEPLOYMENT_TARGET:STRING=14.0 -DCMAKE_OSX_ARCHITECTURES:STRING=x86_64 -DCMAKE_BUILD_TYPE:STRING=Release
Not searching for unused variables given on the command line.
-- The C compiler identification is AppleClang 15.0.0.15000309
-- The CXX compiler identification is AppleClang 15.0.0.15000309
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring done (0.9s)
-- Generating done (0.0s)
-- Build files have been written to: /private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_skbuild/macosx-14.0-x86_64-3.11/cmake-build
[1/10] Creating directories for 'build_patchelf'
[2/10] No download step for 'build_patchelf'
[3/10] No update step for 'build_patchelf'
[4/10] Performing patch step for 'build_patchelf'
autoreconf: export WARNINGS=all
autoreconf: Entering directory '.'
autoreconf: configure.ac: not using Gettext
autoreconf: running: aclocal --force
autoreconf: configure.ac: tracing
autoreconf: configure.ac: creating directory build-aux
autoreconf: configure.ac: not using Libtool
autoreconf: configure.ac: not using Intltool
autoreconf: configure.ac: not using Gtkdoc
autoreconf: running: /usr/local/Cellar/autoconf/2.72/bin/autoconf --force
autoreconf: configure.ac: not using Autoheader
autoreconf: running: automake --add-missing --copy --force-missing
configure.ac:14: installing 'build-aux/compile'
configure.ac:5: installing 'build-aux/install-sh'
configure.ac:5: installing 'build-aux/missing'
src/Makefile.am: installing 'build-aux/depcomp'
parallel-tests: installing 'build-aux/test-driver'
autoreconf: 'build-aux/install-sh' is updated
autoreconf: Leaving directory '.'
[5/10] Performing configure step for 'build_patchelf'
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for strip... strip
checking for objdump... objdump
checking for objcopy... no
checking for readelf... no
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... gcc3
checking for g++... g++
checking whether the compiler supports GNU C++... yes
checking whether g++ accepts -g... yes
checking for g++ option to enable C++11 features... -std=gnu++11
checking dependency style of g++ -std=gnu++11... gcc3
checking dependency style of gcc... gcc3
checking whether g++ -std=gnu++11 supports C++17 features with -std=c++17... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating tests/Makefile
config.status: creating patchelf.spec
config.status: executing depfiles commands
[6/10] Performing build step for 'build_patchelf'
FAILED: build_patchelf-prefix/src/build_patchelf-stamp/build_patchelf-build /private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_skbuild/macosx-14.0-x86_64-3.11/cmake-build/build_patchelf-prefix/src/build_patchelf-stamp/build_patchelf-build
cd /private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream && /usr/local/bin/gmake check && /usr/local/Cellar/cmake/3.29.6/bin/cmake -E touch /private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_skbuild/macosx-14.0-x86_64-3.11/cmake-build/build_patchelf-prefix/src/build_patchelf-stamp/build_patchelf-build
Making check in src
gmake[1]: Entering directory '/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream/src'
g++ -std=gnu++11 -std=c++17 -DPACKAGE_NAME=\"patchelf\" -DPACKAGE_TARNAME=\"patchelf\" -DPACKAGE_VERSION=\"0.17.2\" -DPACKAGE_STRING=\"patchelf\ 0.17.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"patchelf\" -DVERSION=\"0.17.2\" -DHAVE_CXX17=1 -I. -Wall -std=c++17 -D_FILE_OFFSET_BITS=64 -g -O2 -MT patchelf.o -MD -MP -MF .deps/patchelf.Tpo -c -o patchelf.o patchelf.cc
mv -f .deps/patchelf.Tpo .deps/patchelf.Po
g++ -std=gnu++11 -std=c++17 -Wall -std=c++17 -D_FILE_OFFSET_BITS=64 -g -O2 -o patchelf patchelf.o
gmake[1]: Leaving directory '/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream/src'
Making check in tests
gmake[1]: Entering directory '/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream/tests'
/usr/local/bin/gmake simple-pie simple main too-many-strtab main-scoped big-dynstr no-rpath contiguous-note-sections libfoo.so libfoo-scoped.so libbar.so libbar-scoped.so libsimple.so libbuildid.so libtoomanystrtab.so phdr-corruption.so libbig-dynstr.debug
gmake[2]: Entering directory '/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream/tests'
gcc -DPACKAGE_NAME=\"patchelf\" -DPACKAGE_TARNAME=\"patchelf\" -DPACKAGE_VERSION=\"0.17.2\" -DPACKAGE_STRING=\"patchelf\ 0.17.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"patchelf\" -DVERSION=\"0.17.2\" -DHAVE_CXX17=1 -I. -fPIC -pie -g -O2 -MT simple_pie-simple.o -MD -MP -MF .deps/simple_pie-simple.Tpo -c -o simple_pie-simple.o `test -f 'simple.c' || echo './'`simple.c
clang: warning: argument unused during compilation: '-pie' [-Wunused-command-line-argument]
mv -f .deps/simple_pie-simple.Tpo .deps/simple_pie-simple.Po
gcc -fPIC -pie -g -O2 -o simple-pie simple_pie-simple.o
clang: warning: argument unused during compilation: '-pie' [-Wunused-command-line-argument]
gcc -DPACKAGE_NAME=\"patchelf\" -DPACKAGE_TARNAME=\"patchelf\" -DPACKAGE_VERSION=\"0.17.2\" -DPACKAGE_STRING=\"patchelf\ 0.17.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"patchelf\" -DVERSION=\"0.17.2\" -DHAVE_CXX17=1 -I. -g -O2 -MT simple-simple.o -MD -MP -MF .deps/simple-simple.Tpo -c -o simple-simple.o `test -f 'simple.c' || echo './'`simple.c
mv -f .deps/simple-simple.Tpo .deps/simple-simple.Po
gcc -g -O2 -o simple simple-simple.o
gcc -DPACKAGE_NAME=\"patchelf\" -DPACKAGE_TARNAME=\"patchelf\" -DPACKAGE_VERSION=\"0.17.2\" -DPACKAGE_STRING=\"patchelf\ 0.17.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"patchelf\" -DVERSION=\"0.17.2\" -DHAVE_CXX17=1 -I. -fpic -g -O2 -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.c
mv -f .deps/main.Tpo .deps/main.Po
gcc -DPACKAGE_NAME=\"patchelf\" -DPACKAGE_TARNAME=\"patchelf\" -DPACKAGE_VERSION=\"0.17.2\" -DPACKAGE_STRING=\"patchelf\ 0.17.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"patchelf\" -DVERSION=\"0.17.2\" -DHAVE_CXX17=1 -I. -fpic -g -O2 -MT foo.o -MD -MP -MF .deps/foo.Tpo -c -o foo.o foo.c
foo.c:5:65: error: argument to 'section' attribute is not valid for this target: mach-o section specifier requires a segment and section separated by a comma
const char __invoke_dynamic_linker__[] __attribute__ ((section (".interp"))) = "/foo/bar";
^
1 error generated.
gmake[2]: *** [Makefile:801: foo.o] Error 1
gmake[2]: Leaving directory '/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream/tests'
gmake[1]: *** [Makefile:1453: check-am] Error 2
gmake[1]: Leaving directory '/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/src/patchelf-upstream/tests'
gmake: *** [Makefile:447: check-recursive] Error 1
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
File "/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-build-env-bn5msl5x/overlay/lib/python3.11/site-packages/skbuild/setuptools_wrap.py", line 672, in setup
cmkr.make(make_args, install_target=cmake_install_target, env=env)
File "/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-build-env-bn5msl5x/overlay/lib/python3.11/site-packages/skbuild/cmaker.py", line 696, in make
self.make_impl(clargs=clargs, config=config, source_dir=source_dir, install_target=install_target, env=env)
File "/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-build-env-bn5msl5x/overlay/lib/python3.11/site-packages/skbuild/cmaker.py", line 741, in make_impl
raise SKBuildError(msg)
An error occurred while building with CMake.
Command:
/usr/local/bin/cmake --build . --target install --config Release --
Install target:
install
Source directory:
/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba
Working directory:
/private/var/folders/0j/jv4p26yn6h92nb9my291bl7c0000gr/T/pip-install-un8jrxi4/patchelf_729fb17734a449cfa1a11c22dcdbc0ba/_skbuild/macosx-14.0-x86_64-3.11/cmake-build
Please check the install target is valid and see CMake's output for more information.
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for patchelf
Failed to build patchelf
ERROR: ERROR: Failed to build installable wheels for some pyproject.toml based projects (patchelf)
[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.
note: This error originates from a subprocess, and is likely not a problem with pip.
(.venv) bash-5.2$ python --version
Python 3.11.7