use "creature/pkg-active" manage packages manually

- replace "add-pkg-in-pkg-dir" (recursive load-path scanning) with a
  central "creature/pkgs" registry that handles load path, autoloads,
  info dirs and dependencies
- adapt all init-*.el files to the new activation function
- add a top-level Makefile to byte-compile site-lisp packages
- remove unused "emacs-kv" and "emacs-db" submodules

lisp/init-markdown.el

@@ -1,8 +1,8 @@
 ;; -*- coding: utf-8; lexical-binding: t; -*-
 
 (require 'init-package)
-(add-pkg-in-pkg-dir "markdown-mode")
-(add-pkg-in-pkg-dir "edit-indirect")
+
+(creature/pkg-active 'markdown-mode)
 
 (autoload 'markdown-mode "markdown-mode"
   "Major mode for editing Markdown files" t)