WI #2843 Include sub-directories for copy folders

[fm-117]

Fixes #2843

• use subdirs for copy folders of CompilationProject created to be used in a WorkspaceProject (affects compilation through LanguageServer)
• use subdirs when compiling through the CLI
• use subdirs when parsing a TypeCobol dependency
• keep the false value for the root directory of the CompilationProject which is always added as a copy folder (but not its subdirs)
• test code using the Parser.Init helper method will now use subdirs while other keep the previous parameter.