Adds missing CLI flags to `resource add`, `resource list`, `resource tree`, `resource type list`, and `lsp list` per specification.
Changes:
- Added --update, --clone-into to resource_add; expanded --mount for devcontainer-instance
- Added --all to resource_list; changed --depth default to 3
- Added [REGEX] positional to type_list and lsp list
- Added include_auto_discovered parameter to resource registry ops
- 12 new BDD scenarios with step definitions
- Fixed critical bug: clone-into URL parsing used split() instead of rsplit(), causing HTTPS URLs to be stored with incorrect data
Closes#904
Co-authored-by: Jeffrey Phillips Freeman <the@jeffreyfreeman.me>
Co-committed-by: Jeffrey Phillips Freeman <the@jeffreyfreeman.me>
