diff --git a/Dockerfile b/Dockerfile
index 9d97eb5..458f120 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -1,5 +1,5 @@
 FROM python:3.12-alpine AS builder
-RUN apk add --no-cache make
+RUN apk add --no-cache make jq
 WORKDIR /opt
 RUN pip install uv
 RUN uv venv
@@ -9,3 +9,8 @@ WORKDIR /app
 COPY Makefile schema.yaml ./
 COPY src src
 RUN source /opt/.venv/bin/activate && make all
+
+FROM alpine AS final
+
+WORKDIR /app
+COPY --from=builder /app/combined.yaml .
diff --git a/Makefile b/Makefile
index b388fb8..2935cc1 100644
--- a/Makefile
+++ b/Makefile
@@ -23,6 +23,7 @@ validate: $(ENTRIES) # Validate each entry in `./src/instances` against the sche
 			entry_id=$$(yq -r '.id' $$file)
 			if [ "$$file_id" != "$$entry_id" ]; then
 				echo "    ✗ $$file_id != $$entry_id (entry ID and file name do not match)"
+				errored=true
 			fi;
 			output=$$(linkml-validate -s schema.yaml $$file 2>&1); status=$$?
 			if [ $$status -ne 0 ]; then