feat: Add Logseq TODO generator to IssueManager

.agent-notifications/pending-cline-1763505666.json

@@ -0,0 +1,9 @@
+{
+  "timestamp": "2025-11-18T22:41:06Z",
+  "agent": "cline",
+  "branch": "agent/cline",
+  "commit": "53b0cb6924f58886ff55230cd1effb2fa007b70c",
+  "message": "[agent:cline] fix: resolve syntax error in adaptive_cline_demo.py",
+  "worktree": "/home/thein/repos/TTA.dev-cline",
+  "reviewed": false
+}

.agent-notifications/pending-cline-1763507620.json

@@ -0,0 +1,9 @@
+{
+  "timestamp": "2025-11-18T23:13:40Z",
+  "agent": "cline",
+  "branch": "agent/cline",
+  "commit": "5689c39896e0dab20cbd4a72eb53b122282a2d5a",
+  "message": "[agent:cline] adaptive_cline_demo",
+  "worktree": "/home/thein/repos/TTA.dev-cline",
+  "reviewed": false
+}

.agent-notifications/pending-cline-1763572959.json

@@ -0,0 +1,9 @@
+{
+  "timestamp": "2025-11-19T17:22:39Z",
+  "agent": "cline",
+  "branch": "agent/cline",
+  "commit": "97887efb98f2c94b7a70b5c3ee01d881058562a0",
+  "message": "[agent:cline] feat: implement MCP-native layered persona architecture (L0-L4)",
+  "worktree": "/home/thein/repos/TTA.dev-cline",
+  "reviewed": false
+}

.agent-notifications/pending-cline-1763575454.json

@@ -0,0 +1,9 @@
+{
+  "timestamp": "2025-11-19T18:04:14Z",
+  "agent": "cline",
+  "branch": "agent/cline",
+  "commit": "d707b1f4a7e16a53cec8129634341bdfa36bedd6",
+  "message": "[agent:cline] PHASE 1B,2,3: Implement layered capability registry with MCP expansion and coordination workflows",
+  "worktree": "/home/thein/repos/TTA.dev-cline",
+  "reviewed": false
+}

.agent-notifications/pending-unknown-1763573062.json

@@ -0,0 +1,9 @@
+{
+  "timestamp": "2025-11-19T17:24:22Z",
+  "agent": "unknown",
+  "branch": "feature/logseq-github-todos",
+  "commit": "6dd5ead5c3facc0653e596b3579868daa20b86f6",
+  "message": "[agent:unknown] feat: add GitHub to Logseq TODO generator",
+  "worktree": "/home/thein/repos/TTA.dev",
+  "reviewed": false
+}

.github/copilot-instructions.md

@@ -84,7 +84,7 @@ def process(data: Dict[str, Any]) -> Optional[str]:
 uv run pytest -v
 
 # With coverage
-uv run pytest --cov=packages --cov-report=html
+uv run pytest --cov=platform --cov=apps --cov-report=html
 
 # Specific package
 uv run pytest platform/primitives/tests/ -v

.hypertool/mcp_servers.json

@@ -27,7 +27,7 @@
         "ghcr.io/github/github-mcp-server"
       ],
       "env": {
-        "GITHUB_PERSONAL_ACCESS_TOKEN": "${GITHUB_TOKEN}",
+        "GITHUB_PERSONAL_ACCESS_TOKEN": "${GITHUB_PERSONAL_ACCESS_TOKEN}",
         "GITHUB_TOOLSETS": "default,projects,labels,orgs"
       },
       "description": "GitHub repository operations and CI/CD",
@@ -53,7 +53,7 @@
         "--from", "git+https://github.com/oraios/serena",
         "serena", "start-mcp-server",
         "--context", "ide-assistant",
-        "--project", "/home/thein/repos/TTA.dev-copilot"
+        "--project", "/home/thein/repos/TTA.dev-cline"
       ],
       "description": "IDE integration and code assistance",
       "tags": ["ide", "code-analysis", "refactoring"]
@@ -68,15 +68,286 @@
       "description": "Observability metrics and monitoring",
       "tags": ["observability", "metrics", "monitoring"]
     },
-    "mcp-logseq": {
+    "langfuse": {
+      "command": "/usr/bin/node",
+      "args": ["./local/mcp-server-langfuse/build/index.js"],
+      "env": {
+        "LANGFUSE_PUBLIC_KEY": "${LANGFUSE_PUBLIC_KEY}",
+        "LANGFUSE_SECRET_KEY": "${LANGFUSE_SECRET_KEY}",
+        "LANGFUSE_BASEURL": "https://cloud.langfuse.com"
+      },
+      "description": "Langfuse Prompt Management and Tracing",
+      "tags": ["observability", "prompts", "tracing", "llm"]
+    },
+    "tta-primitives": {
+      "command": "/home/thein/.local/bin/uv",
+      "args": ["run", "python", ".cline/mcp-server/tta_primitives.py"],
+      "description": "Complete TTA.dev primitives ecosystem as MCP tools",
+      "tags": ["tta-dev", "primitives", "workflow", "orchestration", "context"]
+    },
+
+    "mcp-agent-monitor": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "--network=host", "mcp-agent-monitor"],
+      "env": {
+        "AGENT_REGISTRY_URL": "http://localhost:8080",
+        "MONITORING_INTERVAL": "30"
+      },
+      "description": "Agent health monitoring and metrics collection (L0)",
+      "tags": ["layer:L0", "monitoring", "health", "metrics"]
+    },
+
+    "mcp-openai-cost": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-openai-cost-tracker@latest"],
+      "env": {
+        "OPENAI_API_KEY": "${OPENAI_API_KEY}",
+        "COST_REPORT_INTERVAL": "daily"
+      },
+      "description": "OpenAI API cost monitoring and optimization (L0)",
+      "tags": ["layer:L0", "cost", "optimization", "monitoring"]
+    },
+
+    "mcp-sentry": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "mcp-sentry-integration"],
+      "env": {
+        "SENTRY_DSN": "${SENTRY_DSN}",
+        "SENTRY_ENVIRONMENT": "development"
+      },
+      "description": "Sentry error monitoring and alerting integration (L0)",
+      "tags": ["layer:L0", "errors", "alerting", "monitoring"]
+    },
+
+    "mcp-cloudwatch": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-aws-cloudwatch@latest"],
+      "env": {
+        "AWS_REGION": "${AWS_REGION}",
+        "AWS_ACCESS_KEY_ID": "${AWS_ACCESS_KEY_ID}",
+        "AWS_SECRET_ACCESS_KEY": "${AWS_SECRET_ACCESS_KEY}"
+      },
+      "description": "AWS CloudWatch logs and metrics integration (L0)",
+      "tags": ["layer:L0", "aws", "logs", "metrics", "monitoring"]
+    },
+
+    "mcp-github-actions": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "-v", "/var/run/docker.sock:/var/run/docker.sock", "mcp-github-actions-runner"],
+      "env": {
+        "GITHUB_TOKEN": "${GITHUB_TOKEN}",
+        "GITHUB_REPOSITORY": "${GITHUB_REPOSITORY}"
+      },
+      "description": "GitHub Actions workflow execution and management (L2)",
+      "tags": ["layer:L2", "ci/cd", "github", "automation", "workflow"]
+    },
+
+    "mcp-terraform-cloud": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-terraform-cloud@latest"],
+      "env": {
+        "TF_CLOUD_ORGANIZATION": "${TF_CLOUD_ORGANIZATION}",
+        "TF_CLOUD_TOKEN": "${TF_CLOUD_TOKEN}"
+      },
+      "description": "Terraform Cloud workspace management and deployment (L2)",
+      "tags": ["layer:L2", "terraform", "infrastructure", "cloud", "deployment"]
+    },
+
+    "mcp-snyk": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-snyk-integration@latest"],
+      "env": {
+        "SNYK_TOKEN": "${SNYK_TOKEN}",
+        "SNYK_ORG": "${SNYK_ORG}"
+      },
+      "description": "Snyk vulnerability scanning and security assessment (L2)",
+      "tags": ["layer:L2", "security", "vulnerabilities", "scanning", "assessment"]
+    },
+
+    "mcp-sonarqube": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "--network=host", "mcp-sonarqube-client"],
+      "env": {
+        "SONARQUBE_URL": "http://localhost:9000",
+        "SONARQUBE_TOKEN": "${SONARQUBE_TOKEN}"
+      },
+      "description": "SonarQube code quality analysis and reporting (L2)",
+      "tags": ["layer:L2", "quality", "analysis", "code", "metrics"]
+    },
+
+    "mcp-kubernetes": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-k8s-admin@latest"],
+      "env": {
+        "KUBECONFIG": "${KUBECONFIG}",
+        "K8S_CONTEXT": "${K8S_CONTEXT}"
+      },
+      "description": "Kubernetes cluster management and resource operations (L3)",
+      "tags": ["layer:L3", "kubernetes", "k8s", "cluster", "management"]
+    },
+
+    "mcp-helm": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-helm-manager@latest"],
+      "env": {
+        "HELM_HOME": "${HELM_HOME}",
+        "KUBECONFIG": "${KUBECONFIG}"
+      },
+      "description": "Helm chart management and release operations (L3)",
+      "tags": ["layer:L3", "helm", "kubernetes", "charts", "releases"]
+    },
+
+    "mcp-postgres": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-postgres-client@latest"],
+      "env": {
+        "POSTGRES_HOST": "${POSTGRES_HOST}",
+        "POSTGRES_PORT": "${POSTGRES_PORT}",
+        "POSTGRES_USER": "${POSTGRES_USER}",
+        "POSTGRES_PASSWORD": "${POSTGRES_PASSWORD}",
+        "POSTGRES_DB": "${POSTGRES_DB}"
+      },
+      "description": "PostgreSQL database administration and query execution (L3)",
+      "tags": ["layer:L3", "postgres", "database", "sql", "administration"]
+    },
+
+    "mcp-prometheus": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "--network=host", "mcp-prometheus-client"],
+      "env": {
+        "PROMETHEUS_URL": "http://localhost:9090",
+        "PROMETHEUS_USERNAME": "${PROMETHEUS_USERNAME}",
+        "PROMETHEUS_PASSWORD": "${PROMETHEUS_PASSWORD}"
+      },
+      "description": "Prometheus metrics collection and alerting management (L3)",
+      "tags": ["layer:L3", "prometheus", "metrics", "alerting", "monitoring"]
+    },
+
+    "mcp-mongodb": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-mongodb-client@latest"],
+      "env": {
+        "MONGODB_URI": "${MONGODB_URI}",
+        "MONGODB_DB": "${MONGODB_DB}"
+      },
+      "description": "MongoDB database operations and management (L3)",
+      "tags": ["layer:L3", "mongodb", "nosql", "database", "operations"]
+    },
+
+    "mcp-elasticsearch": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-elasticsearch-client@latest"],
+      "env": {
+        "ELASTICSEARCH_HOST": "${ELASTICSEARCH_HOST}",
+        "ELASTICSEARCH_PORT": "${ELASTICSEARCH_PORT}",
+        "ELASTICSEARCH_USERNAME": "${ELASTICSEARCH_USERNAME}",
+        "ELASTICSEARCH_PASSWORD": "${ELASTICSEARCH_PASSWORD}"
+      },
+      "description": "Elasticsearch search operations and index management (L3)",
+      "tags": ["layer:L3", "elasticsearch", "search", "indexing", "logs"]
+    },
+
+    "mcp-redis": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-redis-client@latest"],
+      "env": {
+        "REDIS_HOST": "${REDIS_HOST}",
+        "REDIS_PORT": "${REDIS_PORT}",
+        "REDIS_PASSWORD": "${REDIS_PASSWORD}"
+      },
+      "description": "Redis cache and data structure operations (L3)",
+      "tags": ["layer:L3", "redis", "cache", "data-structures", "performance"]
+    },
+
+    "mcp-aws-sdk-python": {
       "command": "/usr/bin/npx",
-      "args": ["-y", "@ergut/mcp-logseq"],
+      "args": ["-y", "mcp-aws-sdk@latest"],
       "env": {
-        "LOGSEQ_API_TOKEN": "${LOGSEQ_API_TOKEN}",
-        "LOGSEQ_API_URL": "http://127.0.0.1:12315"
+        "AWS_REGION": "${AWS_REGION}",
+        "AWS_ACCESS_KEY_ID": "${AWS_ACCESS_KEY_ID}",
+        "AWS_SECRET_ACCESS_KEY": "${AWS_SECRET_ACCESS_KEY}"
       },
-      "description": "Knowledge base integration with Logseq",
-      "tags": ["knowledge-base", "documentation", "learning"]
+      "description": "AWS SDK execution and resource management (L4)",
+      "tags": ["layer:L4", "aws", "sdk", "cloud", "execution"]
+    },
+
+    "mcp-kubectl-cli": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "-v", "/var/run/docker.sock:/var/run/docker.sock", "mcp-kubectl-wrapper"],
+      "env": {
+        "KUBECONFIG": "${KUBECONFIG}",
+        "K8S_CONTEXT": "${K8S_CONTEXT}"
+      },
+      "description": "Kubernetes kubectl command execution wrapper (L4)",
+      "tags": ["layer:L4", "kubectl", "kubernetes", "cli", "execution"]
+    },
+
+    "mcp-trivy-cli": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "-v", "/var/run/docker.sock:/var/run/docker.sock", "mcp-trivy-wrapper"],
+      "description": "Trivy security scanning CLI wrapper (L4)",
+      "tags": ["layer:L4", "trivy", "security", "scanning", "cli"]
+    },
+
+    "mcp-zap-cli": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "-v", "/var/run/docker.sock:/var/run/docker.sock", "mcp-zaproxy-wrapper"],
+      "env": {
+        "ZAP_PORT": "8080",
+        "ZAP_API_KEY": "${ZAP_API_KEY}"
+      },
+      "description": "OWASP ZAP security testing CLI wrapper (L4)",
+      "tags": ["layer:L4", "zap", "owasp", "security", "testing"]
+    },
+
+    "mcp-burpsuite-api": {
+      "command": "/usr/bin/docker",
+      "args": ["run", "--rm", "-i", "--network=host", "mcp-burpsuite-wrapper"],
+      "env": {
+        "BURP_SUITE_URL": "http://localhost:8080",
+        "BURP_API_KEY": "${BURP_API_KEY}"
+      },
+      "description": "Burp Suite security testing API integration (L4)",
+      "tags": ["layer:L4", "burp", "security", "testing", "api"]
+    },
+
+    "mcp-argocd": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-argocd-client@latest"],
+      "env": {
+        "ARGOCD_SERVER": "${ARGOCD_SERVER}",
+        "ARGOCD_AUTH_TOKEN": "${ARGOCD_AUTH_TOKEN}"
+      },
+      "description": "ArgoCD GitOps deployment management (L3)",
+      "tags": ["layer:L3", "argocd", "gitops", "deployments", "kubernetes"]
+    },
+
+    "mcp-datadog-logs": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-datadog-integration@latest"],
+      "env": {
+        "DD_API_KEY": "${DD_API_KEY}",
+        "DD_APP_KEY": "${DD_APP_KEY}"
+      },
+      "description": "Datadog log aggregation and analysis (L3)",
+      "tags": ["layer:L3", "datadog", "logs", "monitoring", "analysis"]
+    },
+
+    "mcp-splunk": {
+      "command": "/usr/bin/npx",
+      "args": ["-y", "mcp-splunk-client@latest"],
+      "env": {
+        "SPLUNK_HOST": "${SPLUNK_HOST}",
+        "SPLUNK_TOKEN": "${SPLUNK_TOKEN}"
+      },
+      "description": "Splunk enterprise log processing and searching (L3)",
+      "tags": ["layer:L3", "splunk", "logs", "search", "enterprise"]
+    },
+    "mcp-logseq": {
+      "command": "/usr/bin/uvx",
+      "args": ["mcp-logseq"],
+      "description": "Logseq knowledge base integration and graph operations",
+      "tags": ["knowledge-base", "logseq", "notes", "graph"]
     }
   }
 }

.serena/.gitignore

@@ -0,0 +1 @@
+/cache