fix: Update CI workflows to exclude planning docs and improve stub detection

Fixes two failing CI workflows:

1. Smoke Tests - Exclude planning documents:
   - Skip .work/ directory (planning docs like WAVE_10_INCOMPLETE.md)
   - Skip root-level markdown files (AGENT_A4_REPORT.md, RESOURCES_PROOF_OF_CONCEPT.md, etc.)
   - These are not skill files and don't need frontmatter

2. Validate Level 3 Resources - Improve stub detection:
   - Only flag 'stub' in comments or strings indicating incomplete work
   - Don't flag legitimate uses like gRPC stubs (self.stub = ServiceStub(...))
   - More intelligent pattern matching for incomplete code

3. Fix executable permission:
   - chmod +x skills/workflow/project-synthesis/resources/scripts/extract_concepts.py

All skills-related markdown files still validated, but planning/meta documents
appropriately excluded.

Author: rand

.github/workflows/smoke-tests.yml

@@ -67,6 +67,16 @@ jobs:
                   skipped += 1
                   continue
 
+              # Skip .work directory (planning documents)
+              if ".work" in skill_file.parts:
+                  skipped += 1
+                  continue
+
+              # Skip root-level markdown files (planning docs, reports, etc.)
+              if len(skill_file.parts) == 1:
+                  skipped += 1
+                  continue
+
               # Skip commands directory (slash commands don't need skill frontmatter)
               if "commands" in skill_file.parts:
                   skipped += 1

.github/workflows/validate-resources.yml

@@ -159,8 +159,10 @@ jobs:
               echo "⚠️ $script: Contains TODO comments"
               ((found++))
             fi
-            if grep -qi '\bstub\b' "$script"; then
-              echo "⚠️ $script: Contains 'stub' references"
+            # Only flag "stub" in comments or strings indicating incomplete work
+            # Don't flag legitimate uses like gRPC stubs (e.g., "self.stub = ...")
+            if grep -qiE '(#.*\bstub\b|""".*\bstub\b|stub.*implementation|implement.*stub)' "$script"; then
+              echo "⚠️ $script: Contains 'stub' in comments/strings"
               ((found++))
             fi
             if grep -qiE '\bmock\b.*\bimplementation\b' "$script"; then