Skip to content

Error installing for Mac Users #92

@ekrolewicz6

Description

@ekrolewicz6

Installing on Mac OSX 10.14.2 (or any newer version of Mac that dont use Xcode 9.4
Gives the following error:

ERROR: Command errored out with exit status 1:
   command: /Users/edankrolewicz/.virtualenvs/marketing/bin/python -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/setup.py'"'"'; __file__='"'"'/private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-wheel-by0sb4lm --python-tag cp37
       cwd: /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/
  Complete output (18 lines):
  Version: 1.1.24
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.macosx-10.7-x86_64-3.7
  copying fastcluster.py -> build/lib.macosx-10.7-x86_64-3.7
  running build_ext
  building '_fastcluster' extension
  creating build/temp.macosx-10.7-x86_64-3.7
  creating build/temp.macosx-10.7-x86_64-3.7/src
  gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/edankrolewicz/anaconda3/include -arch x86_64 -I/Users/edankrolewicz/anaconda3/include -arch x86_64 -I/Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/numpy/core/include -I/Users/edankrolewicz/anaconda3/include/python3.7m -c src/fastcluster_python.cpp -o build/temp.macosx-10.7-x86_64-3.7/src/fastcluster_python.o
  warning: include path for stdlibc++ headers not found; pass '-stdlib=libc++' on the command line to use the libc++ standard library instead [-Wstdlibcxx-not-found]
  src/fastcluster_python.cpp:55:10: fatal error: 'cmath' file not found
  #include <cmath> // for std::abs, std::pow, std::sqrt
           ^~~~~~~
  1 warning and 1 error generated.
  error: command 'gcc' failed with exit status 1
  ----------------------------------------
  ERROR: Failed building wheel for fastcluster
  Running setup.py clean for fastcluster
Failed to build fastcluster
Installing collected packages: fastcluster, dedupe, csvdedupe
  Found existing installation: fastcluster 1.1.25
    Uninstalling fastcluster-1.1.25:
      Successfully uninstalled fastcluster-1.1.25
  Running setup.py install for fastcluster ... error
    ERROR: Command errored out with exit status 1:
     command: /Users/edankrolewicz/.virtualenvs/marketing/bin/python -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/setup.py'"'"'; __file__='"'"'/private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-record-13eqto0y/install-record.txt --single-version-externally-managed --compile --install-headers /Users/edankrolewicz/.virtualenvs/marketing/include/site/python3.7/fastcluster
         cwd: /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/
    Complete output (18 lines):
    Version: 1.1.24
    running install
    running build
    running build_py
    creating build
    creating build/lib.macosx-10.7-x86_64-3.7
    copying fastcluster.py -> build/lib.macosx-10.7-x86_64-3.7
    running build_ext
    building '_fastcluster' extension
    creating build/temp.macosx-10.7-x86_64-3.7
    creating build/temp.macosx-10.7-x86_64-3.7/src
    gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/edankrolewicz/anaconda3/include -arch x86_64 -I/Users/edankrolewicz/anaconda3/include -arch x86_64 -I/Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/numpy/core/include -I/Users/edankrolewicz/anaconda3/include/python3.7m -c src/fastcluster_python.cpp -o build/temp.macosx-10.7-x86_64-3.7/src/fastcluster_python.o
    warning: include path for stdlibc++ headers not found; pass '-stdlib=libc++' on the command line to use the libc++ standard library instead [-Wstdlibcxx-not-found]
    src/fastcluster_python.cpp:55:10: fatal error: 'cmath' file not found
    #include <cmath> // for std::abs, std::pow, std::sqrt
             ^~~~~~~
    1 warning and 1 error generated.
    error: command 'gcc' failed with exit status 1
    ----------------------------------------
  Rolling back uninstall of fastcluster
  Moving to /Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/__pycache__/fastcluster.cpython-37.pyc
   from /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-uninstall-p5fa2ylf/fastcluster.cpython-37.pyc
  Moving to /Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/_fastcluster.cpython-37m-darwin.so
   from /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-uninstall-egsyoeqk/_fastcluster.cpython-37m-darwin.so
  Moving to /Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/fastcluster-1.1.25.dist-info/
   from /Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/~astcluster-1.1.25.dist-info
  Moving to /Users/edankrolewicz/.virtualenvs/marketing/lib/python3.7/site-packages/fastcluster.py
   from /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-uninstall-egsyoeqk/fastcluster.py
ERROR: Command errored out with exit status 1: /Users/edankrolewicz/.virtualenvs/marketing/bin/python -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/setup.py'"'"'; __file__='"'"'/private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-install-6zw5_c39/fastcluster/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /private/var/folders/2w/53v1v9654nbgx13t9zsc9q_40000gn/T/pip-record-13eqto0y/install-record.txt --single-version-externally-managed --compile --install-headers /Users/edankrolewicz/.virtualenvs/marketing/include/site/python3.7/fastcluster Check the logs for full command output.

Testing Solutions from here:
https://stackoverflow.com/questions/11094718/error-command-gcc-failed-with-exit-status-1-while-installing-eventlet
https://stackoverflow.com/questions/52425766/stdlibc-headers-not-found-error-on-xcode-10

suggest that Csvdedupe/ dedupe repos Readme includes directions on how to troubleshoot this case.

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Type

    No type

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions