From ea5dc45130e154470736f0e00f6a27bebd7d24dd Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 15 Nov 2024 11:07:56 -0700 Subject: [PATCH 01/11] making al base image updates to pelican export image --- export.Dockerfile | 91 +- poetry.lock | 2566 +++++++++++++++++++++++++-------------------- pyproject.toml | 18 +- 3 files changed, 1478 insertions(+), 1197 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index 2676b42..3478a2e 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -1,23 +1,42 @@ -FROM quay.io/cdis/python:python3.9-buster-2.0.0 +ARG AZLINUX_BASE_VERSION=master -ENV appname=pelican - -ENV DEBIAN_FRONTEND=noninteractive +# Base stage with python-build-base +FROM quay.io/cdis/python-build-base:${AZLINUX_BASE_VERSION} AS base -#RUN mkdir -p /usr/share/man/man1 -#RUN mkdir -p /usr/share/man/man7 +ENV appname=pelican -RUN apt-get update && apt-get install -y --no-install-recommends \ - build-essential \ - libgnutls30 \ - openjdk-11-jre-headless \ - # dependency for pyscopg2 - libpq-dev \ - postgresql-client \ +# create gen3 user +# Create a group 'gen3' with GID 1000 and a user 'gen3' with UID 1000 +RUN groupadd -g 1000 gen3 && \ + useradd -m -s /bin/bash -u 1000 -g gen3 gen3 + +# Install pipx +RUN python3 -m pip install pipx && \ + python3 -m pipx ensurepath + +USER gen3 +# Install Poetry via pipx +RUN pipx install poetry +ENV PATH="/home/gen3/.local/bin:${PATH}" +USER root + +RUN dnf update && dnf install -y \ + java-1.8.0-amazon-corretto \ + python3-devel \ + gnutls \ wget \ - unzip \ - g++ \ - && rm -rf /var/lib/apt/lists/* + make \ + gcc \ + perl-core \ + zlib-devel \ + postgresql-libs \ + postgresql15 \ + gnutls-c++ \ + tar \ + && rm -rf /var/cache/yum + +# Builder stage +FROM base AS builder ENV HADOOP_VERSION="3.2.1" ENV HADOOP_HOME="/hadoop" \ @@ -27,7 +46,8 @@ RUN wget ${HADOOP_INSTALLATION_URL} \ && mkdir -p $HADOOP_HOME \ && tar -xvf hadoop-${HADOOP_VERSION}.tar.gz -C ${HADOOP_HOME} --strip-components 1 \ && rm hadoop-${HADOOP_VERSION}.tar.gz \ - && rm -rf $HADOOP_HOME/share/doc + && rm -rf $HADOOP_HOME/share/doc \ + && chown -R gen3:gen3 $HADOOP_HOME ENV SQOOP_VERSION="1.4.7" ENV SQOOP_HOME="/sqoop" \ @@ -39,7 +59,8 @@ RUN wget -q ${SQOOP_INSTALLATION_URL} \ && mkdir -p $SQOOP_HOME \ && tar -xvf sqoop-${SQOOP_VERSION}.bin__hadoop-2.6.0.tar.gz -C ${SQOOP_HOME} --strip-components 1 \ && rm sqoop-${SQOOP_VERSION}.bin__hadoop-2.6.0.tar.gz \ - && rm -rf $SQOOP_HOME/docs + && rm -rf $SQOOP_HOME/docs \ + && chown -R gen3:gen3 $SQOOP_HOME ENV POSTGRES_JAR_VERSION="42.2.9" ENV POSTGRES_JAR_URL="https://jdbc.postgresql.org/download/postgresql-${POSTGRES_JAR_VERSION}.jar" \ @@ -63,26 +84,36 @@ ENV HADOOP_CONF_DIR="$HADOOP_HOME/etc/hadoop" \ RUN mkdir -p $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME +RUN chown -R gen3:gen3 $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME + ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin:${PATH} -WORKDIR /pelican +WORKDIR /${appname} -RUN pip install --upgrade pip +# install poetry on container +RUN pip install poetry \ + && poetry config -# install poetry -RUN pip install --upgrade "poetry<1.2" +COPY . /${appname} -COPY . /$appname -WORKDIR /$appname +WORKDIR /${appname} # cache so that poetry install will run if these files change -COPY poetry.lock pyproject.toml /$appname/ +COPY poetry.lock pyproject.toml /${appname}/ + +RUN poetry install -vv --no-interaction --without dev + +ENV PATH="$(poetry env info --path)/bin:$PATH" + +# Final stage +FROM base + +COPY --from=builder /venv /venv +COPY --from=builder /${appname} /${appname} -# install package and dependencies via poetry -RUN poetry config virtualenvs.create false \ - && poetry install -vv --no-dev --no-interaction \ - && poetry show -v +# Switch to non-root user 'gen3' for the serving process +USER gen3 -ENV PYTHONUNBUFFERED=1 +WORKDIR 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UChicago "] [tool.poetry.dependencies] -python = ">=3.9,<3.10.0" -pypfb = ">=0.5.16" -fastavro = "^1.3.1" +python = ">=3.9,<3.10" +pypfb = ">=0.5.21" +fastavro = "<=1.4.1" requests = "^2.25.1" -psycopg2-binary = "^2.8.6" +psycopg2-binary = "^2.9.0" pyspark = "^3.0.1" psutil = "^5.8.0" -boto3 = "~1.28.33" +boto3 = "^1.26.0" gen3 = "^4.2.0" psqlgraph = "3.0.1" gen3datamodel = "<3.0.2" -dictionaryutils = "^3.4.6" -SQLAlchemy = "^1.4.9" +dictionaryutils = "^3.4.1" +SQLAlchemy = ">=1.3,<2.0" [tool.poetry.dev-dependencies] [build-system] -requires = ["poetry<1.2"] +requires = ["poetry==1.4.0"] build-backend = "poetry.core.masonry.api" From b92b0a197801462f3ed3dc344f4e08c9a72300c7 Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 15 Nov 2024 11:41:09 -0700 Subject: [PATCH 02/11] adding build dependencies --- export.Dockerfile | 15 ++++++++------- pyproject.toml | 2 +- 2 files changed, 9 insertions(+), 8 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index 3478a2e..6fae2f3 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -20,6 +20,9 @@ RUN pipx install poetry ENV PATH="/home/gen3/.local/bin:${PATH}" USER root +# Builder stage +FROM base AS builder + RUN dnf update && dnf install -y \ java-1.8.0-amazon-corretto \ python3-devel \ @@ -33,11 +36,9 @@ RUN dnf update && dnf install -y \ postgresql15 \ gnutls-c++ \ tar \ + postgresql-devel \ && rm -rf /var/cache/yum -# Builder stage -FROM base AS builder - ENV HADOOP_VERSION="3.2.1" ENV HADOOP_HOME="/hadoop" \ HADOOP_INSTALLATION_URL="http://archive.apache.org/dist/hadoop/common/hadoop-${HADOOP_VERSION}/hadoop-${HADOOP_VERSION}.tar.gz" @@ -90,9 +91,9 @@ ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin WORKDIR /${appname} -# install poetry on container -RUN pip install poetry \ - && poetry config +# # install poetry on container +# RUN pip install poetry \ +# && poetry config COPY . /${appname} @@ -103,7 +104,7 @@ COPY poetry.lock pyproject.toml /${appname}/ RUN poetry install -vv --no-interaction --without dev -ENV PATH="$(poetry env info --path)/bin:$PATH" +# ENV PATH="$(poetry env info --path)/bin:$PATH" # Final stage FROM base diff --git a/pyproject.toml b/pyproject.toml index 6b50f6d..01f2163 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -22,5 +22,5 @@ SQLAlchemy = ">=1.3,<2.0" [tool.poetry.dev-dependencies] [build-system] -requires = ["poetry==1.4.0"] +requires = ["poetry==1.8.4"] build-backend = "poetry.core.masonry.api" From 51eb73e74fe2cd8d436255340952e00da8afdccd Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 15 Nov 2024 11:52:42 -0700 Subject: [PATCH 03/11] making the same changes to pelican import image adding a missing environment variable to export image --- export.Dockerfile | 8 ++--- import.Dockerfile | 82 +++++++++++++++++++++++++++++++---------------- 2 files changed, 57 insertions(+), 33 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index 6fae2f3..d984484 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -91,10 +91,6 @@ ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin WORKDIR /${appname} -# # install poetry on container -# RUN pip install poetry \ -# && poetry config - COPY . /${appname} WORKDIR /${appname} @@ -104,8 +100,6 @@ COPY poetry.lock pyproject.toml /${appname}/ RUN poetry install -vv --no-interaction --without dev -# ENV PATH="$(poetry env info --path)/bin:$PATH" - # Final stage FROM base @@ -117,4 +111,6 @@ USER gen3 WORKDIR /${appname} +ENV PYTHONUNBUFFERED=1 + ENTRYPOINT poetry run python job_export.py diff --git a/import.Dockerfile b/import.Dockerfile index 87db29d..4b0ad24 100644 --- a/import.Dockerfile +++ b/import.Dockerfile @@ -1,23 +1,43 @@ -FROM quay.io/cdis/python:python3.9-buster-2.0.0 +ARG AZLINUX_BASE_VERSION=master + +# Base stage with python-build-base +FROM quay.io/cdis/python-build-base:${AZLINUX_BASE_VERSION} AS base ENV appname=pelican -ENV DEBIAN_FRONTEND=noninteractive +# create gen3 user +# Create a group 'gen3' with GID 1000 and a user 'gen3' with UID 1000 +RUN groupadd -g 1000 gen3 && \ + useradd -m -s /bin/bash -u 1000 -g gen3 gen3 + +# Install pipx +RUN python3 -m pip install pipx && \ + python3 -m pipx ensurepath + +USER gen3 +# Install Poetry via pipx +RUN pipx install poetry +ENV PATH="/home/gen3/.local/bin:${PATH}" +USER root -#RUN mkdir -p /usr/share/man/man1 -#RUN mkdir -p /usr/share/man/man7 +# Builder stage +FROM base AS builder -RUN apt-get update && apt-get install -y --no-install-recommends \ - build-essential \ - libgnutls30 \ - openjdk-11-jre-headless \ - # dependency for pyscopg2 - libpq-dev \ - postgresql-client \ +RUN dnf update && dnf install -y \ + java-1.8.0-amazon-corretto \ + python3-devel \ + gnutls \ wget \ - unzip \ - g++ \ - && rm -rf /var/lib/apt/lists/* + make \ + gcc \ + perl-core \ + zlib-devel \ + postgresql-libs \ + postgresql15 \ + gnutls-c++ \ + tar \ + postgresql-devel \ + && rm -rf /var/cache/yum ENV HADOOP_VERSION="3.2.1" ENV HADOOP_HOME="/hadoop" \ @@ -27,7 +47,8 @@ RUN wget ${HADOOP_INSTALLATION_URL} \ && mkdir -p $HADOOP_HOME \ && tar -xvf hadoop-${HADOOP_VERSION}.tar.gz -C ${HADOOP_HOME} --strip-components 1 \ && rm hadoop-${HADOOP_VERSION}.tar.gz \ - && rm -rf $HADOOP_HOME/share/doc + && rm -rf $HADOOP_HOME/share/doc \ + && chown -R gen3:gen3 $HADOOP_HOME ENV SQOOP_VERSION="1.4.7" ENV SQOOP_HOME="/sqoop" \ @@ -39,7 +60,8 @@ RUN wget -q ${SQOOP_INSTALLATION_URL} \ && mkdir -p $SQOOP_HOME \ && tar -xvf sqoop-${SQOOP_VERSION}.bin__hadoop-2.6.0.tar.gz -C ${SQOOP_HOME} --strip-components 1 \ && rm sqoop-${SQOOP_VERSION}.bin__hadoop-2.6.0.tar.gz \ - && rm -rf $SQOOP_HOME/docs + && rm -rf $SQOOP_HOME/docs \ + && chown -R gen3:gen3 $SQOOP_HOME ENV POSTGRES_JAR_VERSION="42.2.9" ENV POSTGRES_JAR_URL="https://jdbc.postgresql.org/download/postgresql-${POSTGRES_JAR_VERSION}.jar" \ @@ -63,26 +85,32 @@ ENV HADOOP_CONF_DIR="$HADOOP_HOME/etc/hadoop" \ RUN mkdir -p $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME -ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin:${PATH} +RUN chown -R gen3:gen3 $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME -WORKDIR /pelican +ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin:${PATH} -RUN pip install --upgrade pip +WORKDIR /${appname} -# install poetry -RUN pip install --upgrade "poetry<1.2" +COPY . /${appname} -COPY . /$appname -WORKDIR /$appname +WORKDIR /${appname} # copy ONLY poetry artifact, install the dependencies but not fence # this will make sure than the dependencies is cached COPY poetry.lock pyproject.toml /$appname/ -# install package and dependencies via poetry -RUN poetry config virtualenvs.create false \ - && poetry install -vv --no-dev --no-interaction \ - && poetry show -v +RUN poetry install -vv --no-interaction --without dev + +# Final stage +FROM base + +COPY --from=builder /venv /venv +COPY --from=builder /${appname} /${appname} + +# Switch to non-root user 'gen3' for the serving process +USER gen3 + +WORKDIR /${appname} ENV PYTHONUNBUFFERED=1 From c5f166b6e8cf927f365b5679b0b64c287e6c705b Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 15 Nov 2024 13:18:30 -0700 Subject: [PATCH 04/11] updating packages --- export.Dockerfile | 4 ---- import.Dockerfile | 4 ---- 2 files changed, 8 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index d984484..78c4422 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -30,11 +30,7 @@ RUN dnf update && dnf install -y \ wget \ make \ gcc \ - perl-core \ - zlib-devel \ postgresql-libs \ - postgresql15 \ - gnutls-c++ \ tar \ postgresql-devel \ && rm -rf /var/cache/yum diff --git a/import.Dockerfile b/import.Dockerfile index 4b0ad24..a2f8975 100644 --- a/import.Dockerfile +++ b/import.Dockerfile @@ -30,11 +30,7 @@ RUN dnf update && dnf install -y \ wget \ make \ gcc \ - perl-core \ - zlib-devel \ postgresql-libs \ - postgresql15 \ - gnutls-c++ \ tar \ postgresql-devel \ && rm -rf /var/cache/yum From 00bc39180fed3cb44d2b2f801aa701774b9e6d66 Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Tue, 19 Nov 2024 12:01:08 -0700 Subject: [PATCH 05/11] updating export job to so fips will allow md5 --- job_export.py | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/job_export.py b/job_export.py index 09df724..95e0a48 100644 --- a/job_export.py +++ b/job_export.py @@ -146,7 +146,11 @@ if access_format == "guid": # calculate md5 sum - md5_sum = hashlib.md5() + md5 = ( + hashlib.md5() + if sys.version_info < (3, 9) + else hashlib.md5(usedforsecurity=False) + ) # nosec chunk_size = 8192 with open(fname, "rb") as f: while True: From 5d03aa446df31bf26e485c998d909db98947e7ae Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Tue, 19 Nov 2024 15:34:58 -0700 Subject: [PATCH 06/11] updating gdcdatamodel to gen3datamodel --- pelican/dictionary.py | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/pelican/dictionary.py b/pelican/dictionary.py index 157ab8c..f1fd57d 100644 --- a/pelican/dictionary.py +++ b/pelican/dictionary.py @@ -7,9 +7,9 @@ def init_dictionary(url): d = DataDictionary(url=url) dictionary.init(d) - # the gdcdatamodel expects dictionary initiated on load, so this can't be + # the gen3datamodel expects dictionary initiated on load, so this can't be # imported on module level - from gdcdatamodel import models as md + from gen3datamodel import models as md return d, md From 4386cdc4452b81d7dd09b8e7640bab8f30f12264 Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Wed, 20 Nov 2024 10:11:44 -0700 Subject: [PATCH 07/11] fixing module not found error for gen3datamodel --- export.Dockerfile | 4 +- poetry.lock | 1066 +++++++++++++++++---------------------------- pyproject.toml | 5 +- 3 files changed, 413 insertions(+), 662 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index 78c4422..cdfa36d 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -108,5 +108,5 @@ USER gen3 WORKDIR /${appname} ENV PYTHONUNBUFFERED=1 - -ENTRYPOINT poetry run python job_export.py +CMD [ "echo 30000" ] +# ENTRYPOINT poetry run python job_export.py diff --git a/poetry.lock b/poetry.lock index 6471870..b8da017 100644 --- a/poetry.lock +++ b/poetry.lock @@ -24,87 +24,87 @@ files = [ [[package]] name = "aiohttp" -version = "3.11.2" +version = "3.11.6" description = "Async http client/server framework (asyncio)" optional = false python-versions = ">=3.9" files = [ - {file = "aiohttp-3.11.2-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:783741f534c14957fbe657d62a34b947ec06db23d45a2fd4a8aeb73d9c84d7e6"}, - {file = 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"<3.0.2" +gen3datamodel = ">=3.2.1" +datamodelutils = ">=1.1.0" dictionaryutils = "^3.4.1" SQLAlchemy = ">=1.3,<2.0" From a0ba8c7fa4dce9ff786a57c4f7fae7dd6140a0b3 Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 22 Nov 2024 09:34:09 -0700 Subject: [PATCH 08/11] Forgot to remove "echo" command --- export.Dockerfile | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index cdfa36d..78c4422 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -108,5 +108,5 @@ USER gen3 WORKDIR /${appname} ENV PYTHONUNBUFFERED=1 -CMD [ "echo 30000" ] -# ENTRYPOINT poetry run python job_export.py + +ENTRYPOINT poetry run python job_export.py From 2c96440f175063c0bafe8c490252b0723d91e788 Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 22 Nov 2024 11:29:47 -0700 Subject: [PATCH 09/11] testing moving download to the final image instead of builder --- export.Dockerfile | 34 ++++++++++++++++++---------------- 1 file changed, 18 insertions(+), 16 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index 78c4422..5b7408a 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -20,9 +20,27 @@ RUN pipx install poetry ENV PATH="/home/gen3/.local/bin:${PATH}" USER root +WORKDIR /${appname} + # Builder stage FROM base AS builder +RUN dnf update && dnf install -y \ + python3-devel \ + gcc \ + postgresql-devel \ + && rm -rf /var/cache/yum + +COPY . /${appname} + +# cache so that poetry install will run if these files change +COPY poetry.lock pyproject.toml /${appname}/ + +RUN poetry install -vv --no-interaction --without dev + +# Final stage +FROM base + RUN dnf update && dnf install -y \ java-1.8.0-amazon-corretto \ python3-devel \ @@ -85,28 +103,12 @@ RUN chown -R gen3:gen3 $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEP ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin:${PATH} -WORKDIR /${appname} - -COPY . /${appname} - -WORKDIR /${appname} - -# cache so that poetry install will run if these files change -COPY poetry.lock pyproject.toml /${appname}/ - -RUN poetry install -vv --no-interaction --without dev - -# Final stage -FROM base - COPY --from=builder /venv /venv COPY --from=builder /${appname} /${appname} # Switch to non-root user 'gen3' for the serving process USER gen3 -WORKDIR /${appname} - ENV PYTHONUNBUFFERED=1 ENTRYPOINT poetry run python job_export.py From fc5be34269acf985cbf8fabf251ee2d643465365 Mon Sep 17 00:00:00 2001 From: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com> Date: Fri, 22 Nov 2024 15:20:48 -0700 Subject: [PATCH 10/11] moving only poetry install to the build stage (everything else must be in base) installing java vid dnf "java-11-amazon-corretto" and updating the JAVA_HOME environment variable to reflect this --- export.Dockerfile | 22 ++++++++------------ import.Dockerfile | 51 +++++++++++++++++++++-------------------------- 2 files changed, 31 insertions(+), 42 deletions(-) diff --git a/export.Dockerfile b/export.Dockerfile index 5b7408a..d4ed854 100644 --- a/export.Dockerfile +++ b/export.Dockerfile @@ -28,8 +28,7 @@ FROM base AS builder RUN dnf update && dnf install -y \ python3-devel \ gcc \ - postgresql-devel \ - && rm -rf /var/cache/yum + postgresql-devel COPY . /${appname} @@ -41,16 +40,14 @@ RUN poetry install -vv --no-interaction --without dev # Final stage FROM base +COPY --from=builder /venv /venv +COPY --from=builder /${appname} /${appname} + RUN dnf update && dnf install -y \ - java-1.8.0-amazon-corretto \ - python3-devel \ - gnutls \ wget \ - make \ - gcc \ - postgresql-libs \ tar \ - postgresql-devel \ + java-11-amazon-corretto \ + gnutls \ && rm -rf /var/cache/yum ENV HADOOP_VERSION="3.2.1" @@ -80,7 +77,7 @@ RUN wget -q ${SQOOP_INSTALLATION_URL} \ ENV POSTGRES_JAR_VERSION="42.2.9" ENV POSTGRES_JAR_URL="https://jdbc.postgresql.org/download/postgresql-${POSTGRES_JAR_VERSION}.jar" \ POSTGRES_JAR_PATH=$SQOOP_HOME/lib/postgresql-${POSTGRES_JAR_VERSION}.jar \ - JAVA_HOME="/usr/lib/jvm/java-11-openjdk-amd64" + JAVA_HOME="/usr/lib/jvm/java-11-amazon-corretto" RUN wget ${POSTGRES_JAR_URL} -O ${POSTGRES_JAR_PATH} @@ -99,13 +96,10 @@ ENV HADOOP_CONF_DIR="$HADOOP_HOME/etc/hadoop" \ RUN mkdir -p $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME -RUN chown -R gen3:gen3 $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME +RUN chown -R gen3:gen3 $ACCUMULO_HOME $HIVE_HOME $HBASE_HOME $HCAT_HOME $ZOOKEEPER_HOME $JAVA_HOME $POSTGRES_JAR_PATH ENV PATH=${SQOOP_HOME}/bin:${HADOOP_HOME}/sbin:$HADOOP_HOME/bin:${JAVA_HOME}/bin:${PATH} -COPY --from=builder /venv /venv -COPY --from=builder /${appname} /${appname} - # Switch to non-root user 'gen3' for the serving process USER gen3 diff --git a/import.Dockerfile b/import.Dockerfile index a2f8975..8ba0b99 100644 --- a/import.Dockerfile +++ b/import.Dockerfile @@ -20,19 +20,34 @@ RUN pipx install poetry ENV PATH="/home/gen3/.local/bin:${PATH}" USER root +WORKDIR /${appname} + # Builder stage FROM base AS builder RUN dnf update && dnf install -y \ - java-1.8.0-amazon-corretto \ python3-devel \ - gnutls \ - wget \ - make \ gcc \ - postgresql-libs \ + postgresql-devel + +COPY . /${appname} + +# cache so that poetry install will run if these files change +COPY poetry.lock pyproject.toml /${appname}/ + +RUN poetry install -vv --no-interaction --without dev + +# Final stage +FROM base + +COPY --from=builder /venv /venv +COPY --from=builder /${appname} /${appname} + +RUN dnf update && dnf install -y \ + wget \ tar \ - postgresql-devel \ + java-11-amazon-corretto \ + gnutls \ && rm -rf /var/cache/yum ENV HADOOP_VERSION="3.2.1" @@ -62,7 +77,7 @@ RUN wget -q ${SQOOP_INSTALLATION_URL} \ ENV POSTGRES_JAR_VERSION="42.2.9" ENV 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