refactor(embed): use cp, mv, and chmod shell commands instead of FileUtils

It seems like Ruby's FileUtils.cp_r method especially was messing with
some file attributes, causing Emacs to print details about loading
various elisp files on startup. While when Emacs.app is copied into the
output build directory using "cp -a" instead of FileUtils.cp_r it does
not exhibit this behavior.

build-emacs-for-macos

@@ -26,7 +26,7 @@ module Output
     if newline
       warn "==> #{msg}"
     else
-      STDERR.print "==> #{msg}"
+      $stderr.print "==> #{msg}"
     end
   end
 
@@ -35,6 +35,19 @@ module Output
   end
 end
 
+module System
+  include Output
+
+  def run_cmd(*args)
+    out("CMD: #{args.join(' ')}")
+    cmd(*args)
+  end
+
+  def cmd(*args)
+    system(*args) || err("Exit code: #{$CHILD_STATUS.exitstatus}")
+  end
+end
+
 class OS
   def self.version
     @version ||= OSVersion.new
@@ -71,6 +84,7 @@ end
 
 class Build
   include Output
+  include System
 
   EMACS_MIRROR_REPO = 'emacs-mirror/emacs'
   DOWNLOAD_URL = 'https://github.com/emacs-mirror/emacs/tarball/%s'
@@ -400,13 +414,13 @@ class Build
     info "Copying \"#{app_name}\" to: #{target_dir}"
 
     FileUtils.mkdir_p(target_dir)
-    FileUtils.cp_r(app, target_dir)
+    cmd('cp', '-a', app, target_dir)
 
     options[:dist_include]&.each do |filename|
       src = File.join(source_dir, filename)
       if File.exist?(src)
         info "Copying \"#{filename}\" to: #{target_dir}"
-        FileUtils.cp_r(src, target_dir)
+        cmd('cp', '-pRL', src, target_dir)
       else
         info "Warning: #{filename} does not exist in #{source_dir}"
       end
@@ -431,7 +445,7 @@ class Build
       info 'Creating symlinks within Emacs.app needed for native-comp'
 
       if !File.exist?('lisp') && File.exist?('Resources/lisp')
-        FileUtils.ln_s('Resources/lisp', 'lisp')
+        run_cmd('ln', '-s', 'Resources/lisp', 'lisp')
       end
 
       # Check for folder name containing two dots (.), as this causes Apple's
@@ -453,7 +467,7 @@ class Build
             new_name = File.join(parent, base.gsub(/\.(.+)\./, '-\\1-'))
 
             info "Renaming: #{old_name} --> #{new_name}"
-            FileUtils.mv(old_name, new_name)
+            cmd('mv', old_name, new_name)
           end
 
           base = File.basename(parent)
@@ -477,7 +491,7 @@ class Build
       end
 
       target = File.basename(source)
-      FileUtils.ln_s(source, target) unless File.exist?(target)
+      run_cmd('ln', '-s', source, target) unless File.exist?(target)
     end
   end
 
@@ -600,11 +614,6 @@ class Build
     response.body
   end
 
-  def run_cmd(*args)
-    out "CMD: #{args.join(' ')}"
-    system(*args) || err("Exit code: #{$CHILD_STATUS.exitstatus}")
-  end
-
   def effective_version
     @effective_version ||= begin
       case ref
@@ -750,6 +759,7 @@ end
 
 class AbstractEmbedder
   include Output
+  include System
 
   attr_reader :app
 
@@ -786,11 +796,11 @@ class CLIHelperEmbedder < AbstractEmbedder
     target = File.join(bin_dir, 'emacs')
     dir = File.dirname(target)
 
-    info "Adding \"emacs\" CLI helper to #{dir}"
+    info 'Adding "emacs" CLI helper to Emacs.app'
 
     FileUtils.mkdir_p(dir)
-    FileUtils.cp(source, target)
-    FileUtils.chmod('+w', target)
+    run_cmd('cp', '-pRL', source, target)
+    run_cmd('chmod', '+w', target)
   end
 end
 
@@ -816,7 +826,7 @@ class CSourcesEmbedder < AbstractEmbedder
       rel = f[src_dir.size + 1..-1]
       target = File.join(resources_dir, 'src', rel)
       FileUtils.mkdir_p(File.dirname(target))
-      FileUtils.cp(f, target)
+      cmd('cp', '-pRL', f, target)
     end
 
     return if File.exist?(site_start_el_file) &&
@@ -906,7 +916,7 @@ class LibEmbedder < AbstractEmbedder
       next if match[2] == exe_file || File.exist?(File.join(lib_dir, match[2]))
 
       FileUtils.mkdir_p(lib_dir)
-      FileUtils.cp(match[1], lib_dir)
+      cmd('cp', '-pRL', match[1], lib_dir)
       copy_libs(File.join(lib_dir, match[2].to_s), rel_path)
     end
   end
@@ -921,7 +931,7 @@ class LibEmbedder < AbstractEmbedder
       target = "#{lib_dir}/#{lib_file}"
       unless File.exist?(target)
         FileUtils.mkdir_p(lib_dir)
-        FileUtils.cp(lib, lib_dir)
+        cmd('cp', '-pRL', lib, lib_dir)
       end
 
       while_writable(target) do
@@ -938,7 +948,7 @@ class LibEmbedder < AbstractEmbedder
     File.chmod(0o775, file)
     yield
   ensure
-    File.chmod(mode, file)
+    File.chmod(mode, file) if File.exist?(file)
   end
 end
 
@@ -963,11 +973,11 @@ class GccLibEmbedder < AbstractEmbedder
     end
 
     FileUtils.mkdir_p(File.dirname(target_dir))
-    FileUtils.cp_r(source_dir, target_dir)
+    run_cmd('cp', '-pRL', source_dir, target_dir)
     FileUtils.rm(Dir[File.join(target_dir, '**', '.DS_Store')], force: true)
-    FileUtils.chmod_R('u+w', target_dir)
+    run_cmd('chmod', '-R', 'u+w', target_dir)
     if source_darwin_dir != target_darwin_dir
-      FileUtils.mv(source_darwin_dir, target_darwin_dir)
+      run_cmd('mv', source_darwin_dir, target_darwin_dir)
     end
 
     env_setup = ERB.new(NATIVE_COMP_ENV_VAR_TPL).result(gcc_info.get_binding)