Attempting local build after forking repo

[ArtPoon]

On macOS 12.5.1 with some dependencies pre-installed via homebrew:

art@Wernstrom western-med-bioinfo.github.io % bundle install
/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0/rubygems.rb:283:in `find_spec_for_exe': Could not find 'bundler' (2.3.4) required by your /Users/art/git/western-med-bioinfo.github.io/Gemfile.lock. (Gem::GemNotFoundException)
To update to the latest version installed on your system, run `bundle update --bundler`.
To install the missing version, run `gem install bundler:2.3.4`

Ran suggested command with sudo, otherwise I had no write permissions to /Library/Ruby/Gems/2.6.0

[ArtPoon]

Install failed with `Gem::Ext::BuildError: ERROR: Failed to build gem native extension.

In Gemfile:
  github-pages was resolved to 223, which depends on
    jekyll-mentions was resolved to 1.6.0, which depends on
      html-pipeline was resolved to 2.14.0, which depends on
        nokogiri was resolved to 1.12.5, which depends on
          racc

[ArtPoon]

art@Wernstrom western-med-bioinfo.github.io % sudo gem install racc
Password:
Fetching racc-1.6.0.gem
Building native extensions. This could take a while...
ERROR:  Error installing racc:
    ERROR: Failed to build gem native extension.

    current directory: /Library/Ruby/Gems/2.6.0/gems/racc-1.6.0/ext/racc/cparse
/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/bin/ruby -I /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib/ruby/2.6.0 -r ./siteconf20221015-19100-1gpibjc.rb extconf.rb
checking for rb_block_call()... *** 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.

[ArtPoon]

Error suggests checking this log file:

art@Wernstrom western-med-bioinfo.github.io % cat /Library/Ruby/Gems/2.6.0/extensions/universal-darwin-21/2.6.0/racc-1.6.0/mkmf.log
"xcrun clang -o conftest -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/include/ruby-2.6.0/universal-darwin21 -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/include/ruby-2.6.0/ruby/backward -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/include/ruby-2.6.0 -I. -D_XOPEN_SOURCE -D_DARWIN_C_SOURCE -D_DARWIN_UNLIMITED_SELECT -D_REENTRANT    -g -Os -pipe -DHAVE_GCC_ATOMIC_BUILTINS -DUSE_FFI_CLOSURE_ALLOC conftest.c  -L. -L/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/lib -L. -L/AppleInternal/Library/BuildRoots/20d6c351-ee94-11ec-bcaf-7247572f23b4/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.5.Internal.sdk/usr/local/lib     -lruby.2.6   "
In file included from conftest.c:1:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/include/ruby-2.6.0/ruby.h:33:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/include/ruby-2.6.0/ruby/ruby.h:24:10: fatal error: 'ruby/config.h' file not found
#include "ruby/config.h"
         ^~~~~~~~~~~~~~~
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/include/ruby-2.6.0/ruby/ruby.h:24:10: note: did not find header 'config.h' in framework 'ruby' (loaded from '/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/System/Library/Frameworks')
1 error generated.
checked program was:
/* begin */
1: #include "ruby.h"
2: 
3: int main(int argc, char **argv)
4: {
5:   return 0;
6: }
/* end */

Looks like this system is missing header files for Ruby? Checking to see if there's a ruby-dev for Homebrew

[ArtPoon]

This appears to be a known issue for macOS: https://stackoverflow.com/questions/53135863/macos-mojave-ruby-config-h-file-not-found

[ArtPoon]

Running brew install rbenv ruby-build resulted in this error:

Error: Your Command Line Tools are too outdated.
Update them from Software Update in System Preferences or run:
  softwareupdate --all --install --force

If that doesn't show you any updates, run:
  sudo rm -rf /Library/Developer/CommandLineTools
  sudo xcode-select --install

Alternatively, manually download them from:
  https://developer.apple.com/download/all/.
You should download the Command Line Tools for Xcode 13.4.

[ArtPoon]

Using the above steps to reinstall command line tools on this Mac resolved the problem

[ArtPoon]

bundle exec jekyll build
bundle exec jekyll serve

serves the page on localhost:4000