With the latest releases of Spring Boot 2.3.0, spring-graalvm-native 0.7.0.BUILD-SNAPSHOT, GraalVM 20.1.0.r11 and the corresponding blog posts
https://spring.io/blog/2020/04/16/spring-tips-the-graalvm-native-image-builder-feature
https://blog.codecentric.de/en/2020/05/spring-boot-graalvm
I also started to play around with one of my apps.
Luckily I was able to compile my app without any big hurdles. My compile.sh script looks as follows
#!/usr/bin/env bash
echo "[-->] Detect artifactId from pom.xml"
ARTIFACT=$(mvn -q \
-Dexec.executable=echo \
-Dexec.args='${project.artifactId}' \
--non-recursive \
exec:exec);
echo "artifactId is '$ARTIFACT'"
echo "[-->] Detect artifact version from pom.xml"
VERSION=$(mvn -q \
-Dexec.executable=echo \
-Dexec.args='${project.version}' \
--non-recursive \
exec:exec);
echo "artifact version is '$VERSION'"
echo "[-->] Detect Spring Boot Main class ('start-class') from pom.xml"
MAINCLASS=$(mvn -q \
-Dexec.executable=echo \
-Dexec.args='${start-class}' \
--non-recursive \
exec:exec);
echo "Spring Boot Main class ('start-class') is '$MAINCLASS'"
GREEN='\033[0;32m'
RED='\033[0;31m'
NC='\033[0m'
echo "[-->] Cleaning target directory & creating new one"
rm -rf target
mkdir -p target/native-image
echo "Packaging $ARTIFACT with Maven"
mvn -ntp package > target/native-image/output.txt
echo "[-->] Expanding the Spring Boot fat jar"
JAR="$ARTIFACT-$VERSION.jar"
rm -f $ARTIFACT
echo "Unpacking $JAR"
cd target/native-image
jar -xvf ../$JAR >/dev/null 2>&1
cp -R META-INF BOOT-INF/classes
LIBPATH=`find BOOT-INF/lib | tr '\n' ':'`
CP=BOOT-INF/classes:$LIBPATH
GRAALVM_VERSION=`native-image --version`
echo "Compiling $ARTIFACT with $GRAALVM_VERSION"
{ time native-image \
--verbose \
--no-server \
--no-fallback \
--enable-all-security-services \
-H:Name=$ARTIFACT \
-Dspring.native.remove-unused-autoconfig=true \
-Dspring.native.remove-yaml-support=true \
-Dspring.native.remove-xml-support=true \
-Dspring.native.remove-spel-support=true \
-Dspring.native.remove-jmx-support=true \
-cp $CP $MAINCLASS >> output.txt ; } 2>> output.txt
if [[ -f $ARTIFACT ]]
then
printf "${GREEN}SUCCESS${NC}\n"
mv ./$ARTIFACT ..
exit 0
else
cat output.txt
printf "${RED}FAILURE${NC}: an error occurred when compiling the native-image.\n"
exit 1
fi
But now my troubles start: My app relies on some CSVs during startup to load data.
The data is loaded like this
InputStream is = CSVUtil.class.getResourceAsStream("/myData.csv");
The file is present at /src/main/resources/myData.csv
As said the compilation works without an issue but once I start the app it can't find the CSV.
Caused by: java.lang.NullPointerException: null
at java.io.Reader.<init>(Reader.java:167) ~[na:na]
at java.io.InputStreamReader.<init>(InputStreamReader.java:113) ~[na:na]
at ch.aaap.raw.CSVUtil.getData(CSVUtil.java:33) ~[na:na]
...
It seems that it's not part of the compilation. Any hints how I can make the native-image command aware about the fact that I need these CSVs?
Looks like adding following argument helps
-H:IncludeResources='.*/*.csv$'
I am working on a project which is using both python and groovy to scrape data from websites and do some engineering on that data.
I want to create a dockerfile which should have a python(3.6.5) as base image and java8 and groovy should be installed on it to run my code.
the dockerfile I have right now is working for all the python codes(image : FROM python:3.6.5) but failing for groovy script and I cant find a solution which I can use to install groovy in dockerfile.
is there anyone who has a dockerfile solving this part problem ?
##########docker file below#############
FROM python:3.6.5
RUN sh -c "ls /usr/local/lib"
RUN sh -c "cat /etc/*-release"
# Contents of requirements.txt each on a separate line for incremental builds
RUN pip install SQLAlchemy==1.2.7
RUN pip install pandas==0.23.0
RUN pip uninstall bson
RUN pip install pymongo
RUN pip install openpyxl==2.5.3
RUN pip install joblib
RUN pip install impyla
RUN sh -c "mkdir -p /src/dateng"
ADD . /src/dateng
RUN sh -c "ls /src/dateng"
WORKDIR /src/dateng/
ENTRYPOINT ["python", "/src/dateng/_aws/trigger.py"]
You don't need to use sh -c command, just RUN command and we should not use a RUN instruction per command, intead we should group them in only one RUN, because each RUN is a separated layer in the docker image, thus increasing the final size of it.
Possible Solution
Inspired in this Dockerfile I use for a Python demo:
FROM python:3.6.5
ARG CONTAINER_USER="python"
ARG CONTAINER_UID="1000"
# Will not prompt for questions
ENV DEBIAN_FRONTEND=noninteractive \
CONTAINER_USER=python \
CONTAINER_UID=1000
RUN apt update && \
apt -y upgrade && \
apt -y install \
ca-certificates \
locales \
tzdata \
inotify-tools \
python3-pip \
groovy && \
locale-gen en_GB.UTF-8 && \
dpkg-reconfigure locales && \
#https://github.com/guard/listen/wiki/Increasing-the-amount-of-inotify-watchers
printf "fs.inotify.max_user_watches=524288\n" >> /etc/sysctl.conf && \
useradd -m -u ${CONTAINER_UID} -s /bin/bash ${CONTAINER_USER}
ENV LANG=en_GB.UTF-8 \
LANGUAGE=en_GB:en \
LC_ALL=en_GB.UTF-8
USER ${CONTAINER_USER}
RUN pip3 install \
fSQLAlchemy==1.2.7 \
pandas==0.23.0 \
pymongo \
openpyxl==2.5.3 \
joblib \
impyla && \
pip3 uninstall bson
# pip install will put the executables under ~/.local/bin
ENV PATH=/home/"${CONTAINER_USER}"/.local/bin:$PATH
WORKDIR /home/${CONTAINER_USER}/workspace
ADD . /home/${CONTAINER_USER}/dataeng
EXPOSE 5000
ENTRYPOINT ["python", "/home/python/dateng/_aws/trigger.py"]
NOTE: I am behind a corporate firewall, therefore I cannot test building this image as it is now, because I would need to add stuff to it that you don't need. Let me know if something doesn't work for you and I will work it out from home.
I need both java and python in my docker container to run some code.
This is my dockerfile:
It works perpectly if I don't add the FROM openjdk:slim
#get python
FROM python:3.6-slim
RUN pip install --trusted-host pypi.python.org flask
#get openjdk
FROM openjdk:slim
COPY . /targetdir
WORKDIR /targetdir
# Make port 81 available to the world outside this container
EXPOSE 81
CMD ["python", "test.py"]
And the test.py app is in the same directory:
from flask import Flask
import os
app = Flask(__name__)
#app.route("/")
def hello():
html = "<h3>Test:{test}</h3>"
test = os.environ['JAVA_HOME']
return html.format(test = test)
if __name__ == '__main__':
app.run(debug=True,host='0.0.0.0',port=81)
I'm getting this error:
D:\MyApps\Docker Toolbox\Docker Toolbox\docker.exe: Error response from daemon: OCI runtime create failed: container_linux.go:348: starting container process caused "exec: \"python\": executable file not found in $PATH": unknown.
What exactly am I doing wrong here? I'm new to docker, perhaps I'm missing a step.
Additional details
My goal
I have to run a python program that runs a Java file. The python library I'm using requires the path to JAVA_HOME.
My issues:
I do not know Java, so I cannot run the file properly.
My entire code is in Python, except this Java bit
The Python wrapper runs the file in a way I need it to run.
An easier solution to the above issue is to use multi-stage docker containers where you can copy the content from one to another. In the above case you can have openjdk:slim as the base container and then use content from a python container to be copied over into this base container as follows:
FROM openjdk:slim
COPY --from=python:3.6 / /
...
<normal instructions for python container continues>
...
This feature is available as of Docker 17.05 and there are more things you can do using multi-stage build as in copying only the content you need from one to another.
Reference documentation
OK it took me a little while to figure it out. And my thanks go to this answer.
I think my approach didn't work because I did not have a basic version of Linux.
So it goes like this:
Get Linux (I'm using Alpine because it's barebones)
Get Java via the package manager
Get Python, PIP
OPTIONAL: find and set JAVA_HOME
Find the path to JAVA_HOME. Perhaps there is a better way to do this, but I did this running the running the container, then I looked inside the container using docker exec -it [COINTAINER ID] bin/bash and found it.
Set JAVA_HOME in dockerfile and build + run it all again
Here is the final Dockerfile ( it should work with the python code in the question) :
### 1. Get Linux
FROM alpine:3.7
### 2. Get Java via the package manager
RUN apk update \
&& apk upgrade \
&& apk add --no-cache bash \
&& apk add --no-cache --virtual=build-dependencies unzip \
&& apk add --no-cache curl \
&& apk add --no-cache openjdk8-jre
### 3. Get Python, PIP
RUN apk add --no-cache python3 \
&& python3 -m ensurepip \
&& pip3 install --upgrade pip setuptools \
&& rm -r /usr/lib/python*/ensurepip && \
if [ ! -e /usr/bin/pip ]; then ln -s pip3 /usr/bin/pip ; fi && \
if [[ ! -e /usr/bin/python ]]; then ln -sf /usr/bin/python3 /usr/bin/python; fi && \
rm -r /root/.cache
### Get Flask for the app
RUN pip install --trusted-host pypi.python.org flask
####
#### OPTIONAL : 4. SET JAVA_HOME environment variable, uncomment the line below if you need it
#ENV JAVA_HOME="/usr/lib/jvm/java-1.8-openjdk"
####
EXPOSE 81
ADD test.py /
CMD ["python", "test.py"]
I'm new to Docker, so this may not be the best possible solution. I'm open to suggestions.
UPDATE: COMMON ISUUES
Difficulty using python packages
As Joabe Lucena pointed out here, Alpine can have issues certain python packages.
I recommend that you use a Linux distro that works best for you, e.g. centos.
Another alternative is to simply use docker-java-python image from docker hub. https://hub.docker.com/r/rappdw/docker-java-python
FROM rappdw/docker-java-python:openjdk1.8.0_171-python3.6.6
RUN java -version
RUN python --version
I found Sunny Pal's answer very useful but I made the copy more specific and added the necessary environment variables and update-alternatives lines so that Java was accessible from the command line in the Python container.
FROM python:3.9-slim
COPY --from=openjdk:8-jre-slim /usr/local/openjdk-8 /usr/local/openjdk-8
ENV JAVA_HOME /usr/local/openjdk-8
RUN update-alternatives --install /usr/bin/java java /usr/local/openjdk-8/bin/java 1
...
Oh, let me add my five cents. I took python slim as a base image. Then I found open-jdk-11 (Note, open-jdk-10 will fail because it is not supported) base image code!... And copy-pasted it into my docker file.
Note, copy-paste driven development is cool... ONLY when you understand each line you use in your code!!!
And here it is!
<!-- language: shell -->
FROM python:3.7.2-slim
# Do your stuff, install python.
# and now Jdk
RUN rm -rf /var/lib/apt/lists/* && apt-get clean && apt-get update && apt-get upgrade -y \
&& apt-get install -y --no-install-recommends curl ca-certificates \
&& rm -rf /var/lib/apt/lists/*
ENV JAVA_VERSION jdk-11.0.2+7
COPY slim-java* /usr/local/bin/
RUN set -eux; \
ARCH="$(dpkg --print-architecture)"; \
case "${ARCH}" in \
ppc64el|ppc64le) \
ESUM='c18364a778b1b990e8e62d094377af48b000f9f6a64ec21baff6a032af06386d'; \
BINARY_URL='https://github.com/AdoptOpenJDK/openjdk11-binaries/releases/download/jdk-11.0.1%2B13/OpenJDK11U-jdk_ppc64le_linux_hotspot_11.0.1_13.tar.gz'; \
;; \
s390x) \
ESUM='e39aacc270731dadcdc000aaaf709adae7a08113ccf5b4a045bc87fc13458d71'; \
BINARY_URL='https://github.com/AdoptOpenJDK/openjdk11-binaries/releases/download/jdk-11%2B28/OpenJDK11-jdk_s390x_linux_hotspot_11_28.tar.gz'; \
;; \
amd64|x86_64) \
ESUM='d89304a971e5186e80b6a48a9415e49583b7a5a9315ba5552d373be7782fc528'; \
BINARY_URL='https://github.com/AdoptOpenJDK/openjdk11-binaries/releases/download/jdk-11.0.2%2B7/OpenJDK11U-jdk_x64_linux_hotspot_11.0.2_7.tar.gz'; \
;; \
aarch64|arm64) \
ESUM='b66121b9a0c2e7176373e670a499b9d55344bcb326f67140ad6d0dc24d13d3e2'; \
BINARY_URL='https://github.com/AdoptOpenJDK/openjdk11-binaries/releases/download/jdk-11.0.1%2B13/OpenJDK11U-jdk_aarch64_linux_hotspot_11.0.1_13.tar.gz'; \
;; \
*) \
echo "Unsupported arch: ${ARCH}"; \
exit 1; \
;; \
esac; \
curl -Lso /tmp/openjdk.tar.gz ${BINARY_URL}; \
sha256sum /tmp/openjdk.tar.gz; \
mkdir -p /opt/java/openjdk; \
cd /opt/java/openjdk; \
echo "${ESUM} /tmp/openjdk.tar.gz" | sha256sum -c -; \
tar -xf /tmp/openjdk.tar.gz; \
jdir=$(dirname $(dirname $(find /opt/java/openjdk -name javac))); \
mv ${jdir}/* /opt/java/openjdk; \
export PATH="/opt/java/openjdk/bin:$PATH"; \
apt-get update; apt-get install -y --no-install-recommends binutils; \
/usr/local/bin/slim-java.sh /opt/java/openjdk; \
apt-get remove -y binutils; \
rm -rf /var/lib/apt/lists/*; \
rm -rf ${jdir} /tmp/openjdk.tar.gz;
ENV JAVA_HOME=/opt/java/openjdk \
PATH="/opt/java/openjdk/bin:$PATH"
ENV JAVA_TOOL_OPTIONS="-XX:+UseContainerSupport"
Now references.
https://github.com/AdoptOpenJDK/openjdk-docker/blob/master/11/jdk/ubuntu/Dockerfile.hotspot.releases.slim
https://hub.docker.com/_/python/
https://hub.docker.com/r/adoptopenjdk/openjdk11/
I used them to answer this question, which may help you sometime.
Running Python and Java in Docker
I believe that by adding FROM openjdk:slim line, you tell docker to execute all of your subsequent commands in openjdk container (which does not have python)
I would approach this by creating two separate containers for openjdk and python and specify individual sets of commands for them.
Docker is made to modularize your solutions and mashing everything into one container is usually a bad practice.
I tried pajamas's anwser which worked very well for creating this image. However, when trying to install packages like gensim, pandas or else, I faced some errors like: don't know how to compile Fortran code on platform 'posix'. I searched and tried this, this and that but none worked for me.
So, based on pajamas's anwser I decided to convert his image from Alpine to Centos which worked very well. So here's a Dockerfile that might help someone who's may be struggling in this scenario like I was:
# Get Linux
FROM centos:7
# Install Java
RUN yum update -y \
&& yum install java-1.8.0-openjdk -y \
&& yum clean all \
&& rm -rf /var/cache/yum
# Set JAVA_HOME environment var
ENV JAVA_HOME="/usr/lib/jvm/jre-openjdk"
# Install Python
RUN yum install python3 -y \
&& pip3 install --upgrade pip setuptools wheel \
&& if [ ! -e /usr/bin/pip ]; then ln -s pip3 /usr/bin/pip ; fi \
&& if [[ ! -e /usr/bin/python ]]; then ln -sf /usr/bin/python3 /usr/bin/python; fi \
&& yum clean all \
&& rm -rf /var/cache/yum
CMD ["bash"]
you should have one FROM in your dockerfile
(unless you use multi-stage build for the docker)
I think i found easiest way to mix java jdk 17 and python3. I is not working on python2
FROM openjdk:17.0.1-jdk-slim
RUN apt-get update && \
apt-get install -y software-properties-common && \
apt-get install -y python3-pip
Software Commons have python3 lightweight version. (3.9.1 version)
U can also install some libraries like that.
RUN python3 -m pip install --upgrade pip && \
python3 -m pip install numpy && \
python3 -m pip install opencv-python
OR
RUN apt-get update && \
apt-get install -y ffmpeg
Easiest is to just start from a Python image and add the OpenJDK. Note that FROM openjdk has been deprecated and replaced with eclipse-temurin
FROM python:3.10
ENV JAVA_HOME=/opt/java/openjdk
COPY --from=eclipse-temurin:17-jre $JAVA_HOME $JAVA_HOME
ENV PATH="${JAVA_HOME}/bin:${PATH}"
RUN pip install --trusted-host pypi.python.org flask
See How to use this Image - Using a different base Image section of https://hub.docker.com/_/eclipse-temurin for details.
Instead of using FROM openjdk:slim you can separately install Java, please refer below example:
# Install OpenJDK-8
RUN apt-get update && \
apt-get install -y openjdk-8-jdk && \
apt-get install -y ant && \
apt-get clean;
# Fix certificate issues
RUN apt-get update && \
apt-get install ca-certificates-java && \
apt-get clean && \
update-ca-certificates -f;
# Setup JAVA_HOME -- useful for docker commandline
ENV JAVA_HOME /usr/lib/jvm/java-8-openjdk-amd64/
RUN export JAVA_HOME
I am trying to pass the environment variable to shell script which runs the java class using docker. and i am getting errors and not able to execute it.
test.sh
#!/bin/bash
java -cp s3fileprocess-1.0.1.jar com.wt.test.S3FileProcess $AWS_ACCESS_KEY_ID $AWS_SECRET_ACCESS_KEY $bucketName $keyName $uploadFileName $downloadFile
Dockerfile:
FROM java:8
ADD . /home/test
WORKDIR /home/test
RUN chmod +x ./test.sh
ENTRYPOINT ./test.sh
build the image:
docker build -t test .
Run the container:
docker run -e AWS_ACCESS_KEY_ID=A***** \
-e AWS_SECRET_ACCESS_KEY=w***** \
-e bucketName=I***** \
-e keyName=index.php \
-e uploadFileName=/home/test/index.php \
-e downloadFile=/home/index.php \
test
Error:
docker: Error parsing reference: " " is not a valid repository/tag: invalid reference format.
See 'docker run --help'.
i am able to pass environment variables to a simple shell script file using docker without any issue.
This works perfectly:
test.sh
#!/bin/bash
echo $AWS_SECRET_ACCESS_KEY
echo $AWS_ACCESS_KEY_ID
echo $uploadFileName
Dockerfile:
FROM amazonlinux
ADD . /home/test
WORKDIR /home/test
RUN chmod +x ./test.sh
ENTRYPOINT ./test.sh
Build image:
docker build -t test .
Run container:
docker run -e AWS_ACCESS_KEY_ID=A*********** \
-e AWS_SECRET_ACCESS_KEY=w************ \
-e uploadFileName=/home/test/index.php \
test /bin/bash
Can anyone help me figure out what i am doing wrong here? how to pass environment variables to a java class using dockerfile?
If I need to restart Jenkins due to installing a plugin for instance the slaves are never turned on. I am using Google Compute Engine. I followed this tutorial:
https://cloud.google.com/tools/repo/push-to-deploy
Using this to create the Jenkins server:
export PASSWORD=<password>
export PROJECT_ID=<project-id>
gcloud compute \
instances create bitnami-jenkins \
--project ${PROJECT_ID} \
--image-project bitnami-launchpad \
--image bitnami-jenkins-1-587-0-linux-debian-7-x86-64-image \
--zone us-central1-a \
--machine-type n1-standard-1 \
--metadata "bitnami-base-password=${PASSWORD}" \
"bitnami-default-user=user" \
"bitnami-key=jenkins" \
"bitnami-name=Jenkins" \
"bitnami-version=1-587-0" \
"bitnami-url=//bitnami.com/stack/jenkins" \
"bitnami-description=Jenkins." \
"startup-script-url=https://dl.google.com/dl/jenkins/p2dsetup/setup-script.sh" \
--scopes "https://www.googleapis.com/auth/userinfo.email" \
"https://www.googleapis.com/auth/devstorage.full_control" \
"https://www.googleapis.com/auth/projecthosting" \
"https://www.googleapis.com/auth/appengine.admin" \
--tags "bitnami-launchpad"
Here is an image of how Jenkins look after restart:
We just released changes to the startup script to fix this problem. Next time you restart the instance your slaves should be online.
I had issues with making it work on Debian image.
https://www.jenkins.io/doc/book/installing/linux/#debianubuntu
does not work.
I then tried Centos image centos-7-v20220406, and followed the instructions below. This worked. Note that you might have to install wget before starting with the steps below.
sudo wget -O /etc/yum.repos.d/jenkins.repo \
https://pkg.jenkins.io/redhat-stable/jenkins.repo
sudo rpm --import https://pkg.jenkins.io/redhat-stable/jenkins.io.key
sudo yum upgrade
# Add required dependencies for the jenkins package
sudo yum install java-11-openjdk
sudo yum install jenkins
sudo systemctl daemon-reload