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switch to plain mongo image #91

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switch to plain mongo image #91

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fa2b90c
switch to plain mongo image
nr23730 Aug 12, 2024
571cf84
address review comments: add init.sh script origin
nr23730 Aug 12, 2024
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18 changes: 9 additions & 9 deletions Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,14 +1,15 @@
# This base image starts up mongo
# This version needs to correspond with the helm chart version
ARG MONGODBVERSION=4.0.12
FROM bitnami/mongodb:${MONGODBVERSION} as build
FROM docker.io/mongo:${MONGODBVERSION} as build

# Use .dockerignore file to ignore unwanted files
# These files are used by import_mongo.sh to initialize mongo
# Creating directories as root
# Set user back to the one in base image
USER root
RUN mkdir -p /data
RUN mkdir -p /seed && chmod 777 /seed
COPY data/ /data/

ARG ARG_REF_ENSEMBL_VERSION
Expand All @@ -17,15 +18,14 @@ ARG SPECIES=homo_sapiens
ARG MUTATIONASSESSOR=false

# Import data into mongodb
COPY scripts/import_mongo.sh /docker-entrypoint-initdb.d/
RUN /setup.sh
COPY scripts/import_mongo.sh /docker-entrypoint-initdb.d/import_mongo.sh
COPY scripts/init.sh /init.sh
RUN /init.sh mongod

FROM bitnami/mongodb:${MONGODBVERSION}
COPY --from=build /bitnami/mongodb /bitnami/seed
COPY /scripts/startup.sh /startup.sh
RUN ls -la /data/db

USER root
RUN chown -R 1001 /bitnami/seed
USER 1001
FROM docker.io/mongo:${MONGODBVERSION}
COPY --from=build /seed /seed
COPY /scripts/startup.sh /startup.sh

CMD [ "/startup.sh" ]
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