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I've been trying to install Nokogiri but I end up with errors. I got a Jekyll site, hosted on Github, and when I try bundle install once the site is cloned, I end up with an error when Nokogiri is being installed.

  1. First I tried these two:

    bundle config build.nokogiri --use-system-libraries
    bundle install.
    

    which gave me the following error:

    Errno::EACCES: Permission denied - /Library/Ruby/Gems/2.0.0/extensions/universal-darwin-15/2.0.0/nokogiri-1.6.8/gem_make.out
    An error occurred while installing nokogiri (1.6.8), and Bundler cannot continue.
    Make sure that `gem install nokogiri -v '1.6.8'` succeeds before bundling.
    
  2. On my second install try I used:

    gem install nokogiri 
    

    which lead me to the following error message:

    Building native extensions.  This could take a while...
        ERROR:  Error installing nokogiri:
            ERROR: Failed to build gem native extension.
    
            current directory: /Library/Ruby/Gems/2.0.0/gems/nokogiri-1.6.8/ext/nokogiri
        /System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/bin/ruby -r ./siteconf20160916-79204-14q5l5.rb extconf.rb
        Using pkg-config version 1.1.7
        checking if the C compiler accepts ... yes
        checking if the C compiler accepts -Wno-error=unused-command-line-argument-hard-error-in-future... no
        Building nokogiri using packaged libraries.
        Using mini_portile version 2.1.0
        checking for iconv.h... yes
        checking for gzdopen() in -lz... yes
        checking for iconv... yes
        ************************************************************************
        IMPORTANT NOTICE:
    
        Building Nokogiri with a packaged version of libxml2-2.9.4.
    
        Team Nokogiri will keep on doing their best to provide security
        updates in a timely manner, but if this is a concern for you and want
        to use the system library instead; abort this installation process and
        reinstall nokogiri as follows:
    
            gem install nokogiri -- --use-system-libraries
                [--with-xml2-config=/path/to/xml2-config]
                [--with-xslt-config=/path/to/xslt-config]
    
        If you are using Bundler, tell it to use the option:
    
            bundle config build.nokogiri --use-system-libraries
            bundle install
    
        Note, however, that nokogiri is not fully compatible with arbitrary
        versions of libxml2 provided by OS/package vendors.
        ************************************************************************
        Extracting libxml2-2.9.4.tar.gz into tmp/x86_64-apple-darwin15/ports/libxml2/2.9.4... OK
        Running 'configure' for libxml2 2.9.4... OK
        Running 'compile' for libxml2 2.9.4... ERROR, review '/Library/Ruby/Gems/2.0.0/gems/nokogiri-1.6.8/ext/nokogiri/tmp/x86_64-apple-darwin15/ports/libxml2/2.9.4/compile.log' to see what happened. Last lines are:
        ========================================================================
          CCLD     libxml2.la
          CC       testdso.lo
          CCLD     testdso.la
          CC       xmllint.o
          CCLD     xmllint
        ld: warning: ignoring file /usr/local/Cellar/xz/5.2.2/lib/liblzma.dylib, file was built for x86_64 which is not the architecture being linked (i386): /usr/local/Cellar/xz/5.2.2/lib/liblzma.dylib
        Undefined symbols for architecture i386:
          "_lzma_auto_decoder", referenced from:
              _xz_head in libxml2.a(xzlib.o)
          "_lzma_code", referenced from:
              _xz_decomp in libxml2.a(xzlib.o)
          "_lzma_end", referenced from:
              ___libxml2_xzclose in libxml2.a(xzlib.o)
          "_lzma_properties_decode", referenced from:
              _is_format_lzma in libxml2.a(xzlib.o)
        ld: symbol(s) not found for architecture i386
        clang: error: linker command failed with exit code 1 (use -v to see invocation)
        make[2]: *** [xmllint] Error 1
        make[1]: *** [all-recursive] Error 1
        make: *** [all] Error 2
        ========================================================================
        *** extconf.rb failed ***
        Could not create Makefile due to some reason, probably lack of necessary
        libraries and/or headers.  Check the mkmf.log file for more details.  You may
        need configuration options.
    
        Provided configuration options:
            --with-opt-dir
            --without-opt-dir
            --with-opt-include
            --without-opt-include=${opt-dir}/include
            --with-opt-lib
            --without-opt-lib=${opt-dir}/lib
            --with-make-prog
            --without-make-prog
            --srcdir=.
            --curdir
            --ruby=/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/bin/ruby
            --help
            --clean
            --use-system-libraries
            --enable-static
            --disable-static
            --with-zlib-dir
            --without-zlib-dir
            --with-zlib-include
            --without-zlib-include=${zlib-dir}/include
            --with-zlib-lib
            --without-zlib-lib=${zlib-dir}/lib
            --enable-cross-build
            --disable-cross-build
        /Library/Ruby/Gems/2.0.0/gems/mini_portile2-2.1.0/lib/mini_portile2/mini_portile.rb:366:in `block in execute': Failed to complete compile task (RuntimeError)
            from /Library/Ruby/Gems/2.0.0/gems/mini_portile2-2.1.0/lib/mini_portile2/mini_portile.rb:337:in `chdir'
            from /Library/Ruby/Gems/2.0.0/gems/mini_portile2-2.1.0/lib/mini_portile2/mini_portile.rb:337:in `execute'
            from /Library/Ruby/Gems/2.0.0/gems/mini_portile2-2.1.0/lib/mini_portile2/mini_portile.rb:111:in `compile'
            from /Library/Ruby/Gems/2.0.0/gems/mini_portile2-2.1.0/lib/mini_portile2/mini_portile.rb:150:in `cook'
            from extconf.rb:364:in `block (2 levels) in process_recipe'
            from extconf.rb:257:in `block in chdir_for_build'
            from extconf.rb:256:in `chdir'
            from extconf.rb:256:in `chdir_for_build'
            from extconf.rb:363:in `block in process_recipe'
            from extconf.rb:262:in `tap'
            from extconf.rb:262:in `process_recipe'
            from extconf.rb:555:in `<main>'
    
        To see why this extension failed to compile, please check the mkmf.log which can be found here:
    
          /Library/Ruby/Gems/2.0.0/extensions/universal-darwin-15/2.0.0/nokogiri-1.6.8/mkmf.log
    
        extconf failed, exit code 1
    
        Gem files will remain installed in /Library/Ruby/Gems/2.0.0/gems/nokogiri-1.6.8 for inspection.
        Results logged to /Library/Ruby/Gems/2.0.0/extensions/universal-darwin-15/2.0.0/nokogiri-1.6.8/gem_make.out
    
the Tin Man
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Tomas
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1 Answers1

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The problem was solved after using rbenv and RVM to upgrade Ruby and use the command:

bundle install --path vendor/bundle
the Tin Man
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Tomas
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    Since RVM and rbenv aim to solve the same problem and could conflict, I'd suggest using one rather than both at the same time. – Ross Sep 18 '16 at 20:02
  • rbenv and RVM will fight for control. Pick one and use it. From [the rbenv installation notes](https://github.com/rbenv/rbenv#installation): `"rbenv is incompatible with RVM. Please make sure to fully uninstall RVM and remove any references to it from your shell initialization files before installing rbenv."` – the Tin Man Oct 05 '16 at 20:33