Add directive-first chain system redesign

Redesigns the chain system with a directive-first architecture where
Directive is the top-level entity (the "why/what") and Chains are
generated execution plans (the "how") that can be dynamically modified.

Backend:
- Add database migration for directive system tables
- Add Directive, DirectiveChain, ChainStep, DirectiveEvent models
- Add DirectiveVerifier and DirectiveApproval models
- Add orchestration module with engine, planner, and verifier
- Add comprehensive API handlers for directives
- Add daemon CLI commands for directive management
- Add directive skill documentation
- Integrate contract completion with directive engine
- Add SSE endpoint for real-time directive events

Frontend:
- Add directives route with split-view layout
- Add 6-tab detail view (Overview, Chain, Events, Evaluations, Approvals, Verifiers)
- Add React Flow DAG visualization for chain steps
- Add SSE subscription hook for real-time event updates
- Add useDirectives and useDirectiveEventSubscription hooks
- Add directive types and API functions

Fixes:
- Fix test failures in ws/protocol, task_output, completion_gate, patch
- Fix word boundary matching in looks_like_task()
- Fix parse_last() to find actual last completion gate
- Fix create_export_patch when merge-base equals HEAD
- Clean up clippy warnings in new code

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

1 files changed, 5 insertions, 2 deletions

diff --git a/makima/src/daemon/chain/parser.rs b/makima/src/daemon/chain/parser.rs
index 3851d1f..b32d0f2 100644
--- a/makima/src/daemon/chain/parser.rs
+++ b/makima/src/daemon/chain/parser.rs
@@ -395,7 +395,9 @@ contracts:
     fn test_repo_alias() {
         let yaml = r#"
 name: Repo Chain
-repo: https://github.com/user/project
+repositories:
+  - name: main
+    repository_url: https://github.com/user/project
 contracts:
   - name: Phase1
     tasks:
@@ -403,8 +405,9 @@ contracts:
         plan: "Work on repo"
 "#;
         let chain = parse_chain_yaml(yaml).unwrap();
+        assert_eq!(chain.repositories.len(), 1);
         assert_eq!(
-            chain.repository_url,
+            chain.repositories[0].repository_url,
             Some("https://github.com/user/project".to_string())
         );
     }