Add comprehensive tests for query parsing and Reciprocal Rank Fusion

- Implemented tests for the QueryParser class, covering various identifier splitting methods (CamelCase, snake_case, kebab-case), OR expansion, and FTS5 operator preservation.
- Added parameterized tests to validate expected token outputs for different query formats.
- Created edge case tests to ensure robustness against unusual input scenarios.
- Developed tests for the Reciprocal Rank Fusion (RRF) algorithm, including score computation, weight handling, and result ranking across multiple sources.
- Included tests for normalization of BM25 scores and tagging search results with source metadata.

.claude/commands/memory/docs.md

@@ -364,7 +364,7 @@ api_id=$((group_count + 3))
       },
       {
         "step": "analyze_project",
-        "command": "bash(gemini \"PURPOSE: Analyze project structure\\nTASK: Extract overview from modules\\nMODE: analysis\\nCONTEXT: [all_module_docs]\\nEXPECTED: Project outline\")",
+        "command": "bash(ccw cli exec \"PURPOSE: Analyze project structure\\nTASK: Extract overview from modules\\nMODE: analysis\\nCONTEXT: [all_module_docs]\\nEXPECTED: Project outline\" --tool gemini --mode analysis)",
         "output_to": "project_outline"
       }
     ],
@@ -404,7 +404,7 @@ api_id=$((group_count + 3))
     "pre_analysis": [
       {"step": "load_existing_docs", "command": "bash(cat .workflow/docs/${project_name}/{ARCHITECTURE,EXAMPLES}.md 2>/dev/null || echo 'No existing docs')", "output_to": "existing_arch_examples"},
       {"step": "load_all_docs", "command": "bash(cat .workflow/docs/${project_name}/README.md && find .workflow/docs/${project_name} -type f -name '*.md' ! -path '*/README.md' ! -path '*/ARCHITECTURE.md' ! -path '*/EXAMPLES.md' ! -path '*/api/*' | xargs cat)", "output_to": "all_docs"},
-      {"step": "analyze_architecture", "command": "bash(gemini \"PURPOSE: Analyze system architecture\\nTASK: Synthesize architectural overview and examples\\nMODE: analysis\\nCONTEXT: [all_docs]\\nEXPECTED: Architecture + Examples outline\")", "output_to": "arch_examples_outline"}
+      {"step": "analyze_architecture", "command": "bash(ccw cli exec \"PURPOSE: Analyze system architecture\\nTASK: Synthesize architectural overview and examples\\nMODE: analysis\\nCONTEXT: [all_docs]\\nEXPECTED: Architecture + Examples outline\" --tool gemini --mode analysis)", "output_to": "arch_examples_outline"}
     ],
     "implementation_approach": [
       {
@@ -441,7 +441,7 @@ api_id=$((group_count + 3))
     "pre_analysis": [
       {"step": "discover_api", "command": "bash(rg 'router\\.| @(Get|Post)' -g '*.{ts,js}')", "output_to": "endpoint_discovery"},
       {"step": "load_existing_api", "command": "bash(cat .workflow/docs/${project_name}/api/README.md 2>/dev/null || echo 'No existing API docs')", "output_to": "existing_api_docs"},
-      {"step": "analyze_api", "command": "bash(gemini \"PURPOSE: Document HTTP API\\nTASK: Analyze endpoints\\nMODE: analysis\\nCONTEXT: @src/api/**/* [endpoint_discovery]\\nEXPECTED: API outline\")", "output_to": "api_outline"}
+      {"step": "analyze_api", "command": "bash(ccw cli exec \"PURPOSE: Document HTTP API\\nTASK: Analyze endpoints\\nMODE: analysis\\nCONTEXT: @src/api/**/* [endpoint_discovery]\\nEXPECTED: API outline\" --tool gemini --mode analysis)", "output_to": "api_outline"}
     ],
     "implementation_approach": [
       {

.claude/commands/memory/load.md

@@ -147,7 +147,7 @@ RULES:
 - Identify key architecture patterns and technical constraints
 - Extract integration points and development standards
 - Output concise, structured format
-" --tool ${tool}
+" --tool ${tool} --mode analysis
 \`\`\`
 
 ### Step 4: Generate Core Content Package

.claude/commands/memory/workflow-skill-memory.md

@@ -198,7 +198,7 @@ Objectives:
    CONTEXT: @IMPL_PLAN.md @workflow-session.json
    EXPECTED: Structured lessons and conflicts in JSON format
    RULES: Template reference from skill-aggregation.txt
-   " --tool gemini --cd .workflow/.archives/{session_id}
+   " --tool gemini --mode analysis --cd .workflow/.archives/{session_id}
 
 3.5. **Generate SKILL.md Description** (CRITICAL for auto-loading):
 
@@ -345,7 +345,7 @@ Objectives:
    CONTEXT: [Provide aggregated JSON data]
    EXPECTED: Final aggregated structure for SKILL documents
    RULES: Template reference from skill-aggregation.txt
-   " --tool gemini
+   " --tool gemini --mode analysis
 
 3. Read templates for formatting (same 4 templates as single mode)
 

.claude/commands/workflow/lite-execute.md

@@ -574,11 +574,11 @@ RULES: $(cat ~/.claude/workflows/cli-templates/prompts/analysis/02-review-code-q
 # - Report findings directly
 
 # Method 2: Gemini Review (recommended)
-ccw cli exec "[Shared Prompt Template with artifacts]" --tool gemini
+ccw cli exec "[Shared Prompt Template with artifacts]" --tool gemini --mode analysis
 # CONTEXT includes: @**/* @${plan.json} [@${exploration.json}]
 
 # Method 3: Qwen Review (alternative)
-ccw cli exec "[Shared Prompt Template with artifacts]" --tool qwen
+ccw cli exec "[Shared Prompt Template with artifacts]" --tool qwen --mode analysis
 # Same prompt as Gemini, different execution engine
 
 # Method 4: Codex Review (autonomous)

.claude/commands/workflow/tdd-verify.md

@@ -139,7 +139,7 @@ EXPECTED:
 - Red-Green-Refactor cycle validation
 - Best practices adherence assessment
 RULES: Focus on TDD best practices and workflow adherence. Be specific about violations and improvements.
-" --tool gemini --cd project-root > .workflow/active/{sessionId}/TDD_COMPLIANCE_REPORT.md
+" --tool gemini --mode analysis --cd project-root > .workflow/active/{sessionId}/TDD_COMPLIANCE_REPORT.md
 ```
 
 **Output**: TDD_COMPLIANCE_REPORT.md

.claude/commands/workflow/tools/conflict-resolution.md

@@ -152,7 +152,7 @@ Task(subagent_type="cli-execution-agent", prompt=`
     - ModuleOverlap conflicts with overlap_analysis
     - Targeted clarification questions
   RULES: $(cat ~/.claude/workflows/cli-templates/prompts/analysis/02-analyze-code-patterns.txt) | Focus on breaking changes, migration needs, and functional overlaps | Prioritize exploration-identified conflicts | analysis=READ-ONLY
-  " --tool gemini --cd {project_root}
+  " --tool gemini --mode analysis --cd {project_root}
 
   Fallback: Qwen (same prompt) → Claude (manual analysis)
 

.claude/commands/workflow/ui-design/import-from-code.md

@@ -187,7 +187,7 @@ Task(subagent_type="ui-design-agent",
     CONTEXT: @**/*.css @**/*.scss @**/*.js @**/*.ts
     EXPECTED: JSON report listing conflicts with file:line, values, semantic context
     RULES: Focus on core tokens | Report ALL variants | analysis=READ-ONLY
-    \" --tool gemini --cd ${source}
+    \" --tool gemini --mode analysis --cd ${source}
     \`\`\`
 
   **Step 1: Load file list**
@@ -302,7 +302,7 @@ Task(subagent_type="ui-design-agent",
     CONTEXT: @**/*.css @**/*.scss @**/*.js @**/*.ts
     EXPECTED: JSON report listing frameworks, animation types, file locations
     RULES: Focus on framework consistency | Map all animations | analysis=READ-ONLY
-    \" --tool gemini --cd ${source}
+    \" --tool gemini --mode analysis --cd ${source}
     \`\`\`
 
   **Step 1: Load file list**
@@ -381,7 +381,7 @@ Task(subagent_type="ui-design-agent",
     CONTEXT: @**/*.css @**/*.scss @**/*.js @**/*.ts @**/*.html
     EXPECTED: JSON report categorizing components, layout patterns, naming conventions
     RULES: Focus on component reusability | Identify layout systems | analysis=READ-ONLY
-    \" --tool gemini --cd ${source}
+    \" --tool gemini --mode analysis --cd ${source}
     \`\`\`
 
   **Step 1: Load file list**