Rename files; correct typos; modify help text; update copyright; move coder_upgrade_path(); eliminate include.

coder_upgrade.main.inc: #245471 (comment #7): remove base directory path from patch file in coder_upgrade_make_patch_file(); inc, install, help.inc, main.inc, module, test: refactor file_directory_path() references to coder_upgrade_directory_path(); coder_upgrade.run.php: add php memory and time limits.

coder_upgrade.inc, coder_upgrade.install, coder_upgrade.module, coder_upgrade.main.inc: refactor code to allow execution from a separate process outside of Drupal; coder_upgrade.begin.inc: cache the core theme information in the persistent cache (includes disabled modules).

coder_upgrade.install: hook_uninstall(): delete recently added settings variables, hook_requirements(): use get_t().

coder_upgrade.info, coder_upgrade.main.inc: Reflect the renamed grammar parser module; coder_upgrade.install, coder_upgrade.module: Minor cleanup; coder_upgrade.test, tests directory: Add these files.

coder_upgrade.api.inc: Update API documentation for new alter hooks; other non-conversion files: Update copyright years.

Create log file and patch files; Add links to log file and patch files in user interface; Revise help text; Revise api.php file.