feat: Add 'doctor' and 'sync' Makefile targets

Makefile

@@ -15,6 +15,8 @@ help:
 	@echo "  make status        - Check submodule and encryption status"
 	@echo "  make lint          - Verify schema, privacy flags, and metadata"
 	@echo "  make lock          - Lock all encrypted files across all genomes"
+	@echo "  make doctor        - Verify all required tools are installed"
+	@echo "  make sync          - Sync submodules and report unpushed commits"
 
 lint:
 	@bash scripts/lint-genomes.sh
@@ -36,6 +38,21 @@ status:
 	@echo "--- Encryption Status (First 10 files) ---"
 	@git-crypt status | head -n 10
 
+doctor:
+	@echo "Checking required tools..."
+	@command -v git        >/dev/null 2>&1 || { echo "  MISSING: git";        exit 1; }
+	@command -v git-crypt  >/dev/null 2>&1 || { echo "  MISSING: git-crypt";  exit 1; }
+	@command -v curl       >/dev/null 2>&1 || { echo "  MISSING: curl";       exit 1; }
+	@command -v jq         >/dev/null 2>&1 || { echo "  MISSING: jq";         exit 1; }
+	@command -v bw         >/dev/null 2>&1 || echo "  OPTIONAL: bw (Bitwarden CLI) not found — key injection will be manual."
+	@echo "System ready."
+
+sync:
+	@echo "Syncing submodules..."
+	@git submodule update --init --recursive
+	@echo "--- Unpushed commits per genome ---"
+	@git submodule foreach 'git log --oneline @{u}.. 2>/dev/null | head -5 || true'
+
 lock:
 	@echo "Locking master repository..."
 	@git-crypt lock 2>/dev/null || true