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Merge pull request #1183 from datajoint/docker-img-refactor
Refactor Docker image and package builds
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,9 +1,24 @@ | ||
| ARG IMAGE=djbase | ||
| ARG IMAGE=mambaorg/micromamba:1.5-bookworm-slim | ||
| FROM ${IMAGE} | ||
|
|
||
| ARG CONDA_BIN=micromamba | ||
| ARG PY_VER=3.9 | ||
| ARG DISTRO=debian | ||
| FROM datajoint/${IMAGE}:py${PY_VER}-${DISTRO} | ||
| COPY --chown=anaconda:anaconda ./setup.py ./datajoint.pub ./requirements.txt /main/ | ||
| COPY --chown=anaconda:anaconda ./datajoint /main/datajoint | ||
| ARG HOST_UID=1000 | ||
|
|
||
| RUN ${CONDA_BIN} install --no-pin -qq -y -n base -c conda-forge \ | ||
| python=${PY_VER} pip setuptools git graphviz pydot && \ | ||
| ${CONDA_BIN} clean -qq -afy | ||
| ENV PATH="$PATH:/home/mambauser/.local/bin" | ||
|
|
||
| COPY --chown=${HOST_UID:-1000}:mambauser ./pyproject.toml ./README.md ./LICENSE.txt /main/ | ||
| COPY --chown=${HOST_UID:-1000}:mambauser ./datajoint /main/datajoint | ||
|
|
||
| VOLUME /src | ||
| WORKDIR /src | ||
| USER root | ||
| RUN \ | ||
| pip install --no-cache-dir /main && \ | ||
| chown -R ${HOST_UID:-1000}:mambauser /main && \ | ||
| chown -R ${HOST_UID:-1000}:mambauser /src && \ | ||
| ${CONDA_BIN} run -n base pip install -q --no-cache-dir /main && \ | ||
| rm -r /main/* | ||
| USER ${MAMBA_USER} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,79 @@ | ||
| # HOST_UID=$(id -u) PY_VER=3.11 DJ_VERSION=$(grep -oP '\d+\.\d+\.\d+' datajoint/version.py) docker compose --profile test up --build --exit-code-from djtest djtest | ||
| services: | ||
| db: | ||
| image: datajoint/mysql:${MYSQL_VER:-8.0} | ||
| environment: | ||
| - MYSQL_ROOT_PASSWORD=${DJ_PASS:-password} | ||
| command: mysqld --default-authentication-plugin=mysql_native_password | ||
| # ports: | ||
| # - "3306:3306" | ||
| # volumes: | ||
| # - ./mysql/data:/var/lib/mysql | ||
| healthcheck: | ||
| test: [ "CMD", "mysqladmin", "ping", "-h", "localhost" ] | ||
| timeout: 30s | ||
| retries: 5 | ||
| interval: 15s | ||
| minio: | ||
| image: minio/minio:${MINIO_VER:-RELEASE.2022-08-11T04-37-28Z} | ||
| environment: | ||
| - MINIO_ACCESS_KEY=datajoint | ||
| - MINIO_SECRET_KEY=datajoint | ||
| # ports: | ||
| # - "9000:9000" | ||
| # volumes: | ||
| # - ./minio/config:/root/.minio | ||
| # - ./minio/data:/data | ||
| command: server --address ":9000" /data | ||
| healthcheck: | ||
| test: | ||
| - "CMD" | ||
| - "curl" | ||
| - "--fail" | ||
| - "http://minio:9000/minio/health/live" | ||
| timeout: 30s | ||
| retries: 5 | ||
| interval: 15s | ||
| app: | ||
| image: datajoint/datajoint:${DJ_VERSION:-latest} | ||
| build: | ||
| context: . | ||
| dockerfile: Dockerfile | ||
| args: | ||
| PY_VER: ${PY_VER:-3.8} | ||
| HOST_UID: ${HOST_UID:-1000} | ||
| depends_on: | ||
| db: | ||
| condition: service_healthy | ||
| minio: | ||
| condition: service_healthy | ||
| environment: | ||
| - DJ_HOST=db | ||
| - DJ_USER=root | ||
| - DJ_PASS=password | ||
| - DJ_TEST_HOST=db | ||
| - DJ_TEST_USER=datajoint | ||
| - DJ_TEST_PASSWORD=datajoint | ||
| - S3_ENDPOINT=minio:9000 | ||
| - S3_ACCESS_KEY=datajoint | ||
| - S3_SECRET_KEY=datajoint | ||
| - S3_BUCKET=datajoint.test | ||
| - PYTHON_USER=dja | ||
| - JUPYTER_PASSWORD=datajoint | ||
| working_dir: /src | ||
| user: ${HOST_UID:-1000}:mambauser | ||
| volumes: | ||
| - .:/src | ||
| djtest: | ||
| extends: | ||
| service: app | ||
| profiles: ["test"] | ||
| command: | ||
| - sh | ||
| - -c | ||
| - | | ||
| set -e | ||
| pip install -q -e ".[test]" | ||
| pip freeze | grep datajoint | ||
| pytest --cov-report term-missing --cov=datajoint tests | ||
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