PR fixes

Author: drernie

AGENTS.md

@@ -453,6 +453,7 @@ The following permissions are granted for this repository:
 **GitHub Secrets Configuration:**
 
 Required secrets for Docker operations:
+
 - `ECR_REGISTRY` - ECR registry URL (preferred)
 - `AWS_ACCOUNT_ID` - AWS account ID (fallback for registry construction)
 - `AWS_DEFAULT_REGION` - AWS region (defaults to us-east-1)
@@ -471,9 +472,3 @@ Do what has been asked; nothing more, nothing less.
 NEVER create files unless they're absolutely necessary for achieving your goal.
 ALWAYS prefer editing an existing file to creating a new one.
 NEVER proactively create documentation files (*.md) or README files. Only create documentation files if explicitly requested by the User.
-
-# important-instruction-reminders
-Do what has been asked; nothing more, nothing less.
-NEVER create files unless they're absolutely necessary for achieving your goal.
-ALWAYS prefer editing an existing file to creating a new one.
-NEVER proactively create documentation files (*.md) or README files. Only create documentation files if explicitly requested by the User.

make.dev

@@ -121,25 +121,6 @@ kill:
 	@lsof -ti :8001 | xargs -r kill 2>/dev/null || echo "No processes on port 8001"
 	@echo "✅ Server kill completed"
 
-# Docker Targets
-docker-build:
-	@echo "Building Docker image..."
-	@docker build --file Dockerfile --tag $${DOCKER_IMAGE_TAG:-quilt-mcp:dev} .
-
-docker-run:
-	@echo "Running Docker container..."
-	@docker run --rm \
-		-p $${DOCKER_PORT:-8000}:8000 \
-		-e FASTMCP_TRANSPORT=$${FASTMCP_TRANSPORT:-http} \
-		-e FASTMCP_HOST=$${FASTMCP_HOST:-0.0.0.0} \
-		$${DOCKER_RUN_ARGS:-} \
-		$${DOCKER_IMAGE_TAG:-quilt-mcp:dev}
-
-docker-test:
-	@echo "Running Docker integration test..."
-	@uv sync --group test
-	@export PYTHONPATH="src" && uv run python -m pytest tests/integration/test_docker_container.py -v
-
 # Cleanup Targets
 dev-clean:
 	@echo "Cleaning Python cache..."

src/deploy/manifest.json.j2

@@ -1,5 +1,5 @@
 {
-  "manifest_version": "0.1",
+  "manifest_version": "0.2",
   "name": "quilt-mcp",
   "version": "{{ version }}",
   "description": "Access Quilt data packages through Claude Desktop",