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[SPARK-33408][SPARK-32354][K8S][R] Use R 3.6.3 in K8s R image and re-enable RTestsSuite #30130

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[SPARK-33408][SPARK-32354][K8S][R] Use R 3.6.3 in K8s R image and re-enable RTestsSuite #30130

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9 changes: 8 additions & 1 deletion resource-managers/kubernetes/docker/src/main/dockerfiles/spark/bindings/R/Dockerfile
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Original file line number Diff line number Diff line change
Expand Up @@ -25,7 +25,14 @@ USER 0

RUN mkdir ${SPARK_HOME}/R

RUN apt-get update && apt install -y r-base r-base-dev && rm -rf /var/cache/apt/*
# Install R 3.6.3 (http://cloud.r-project.org/bin/linux/debian/)
RUN \
echo "deb http://cloud.r-project.org/bin/linux/debian buster-cran35/" >> /etc/apt/sources.list && \
apt install -y gnupg && \
apt-key adv --keyserver keys.gnupg.net --recv-key 'E19F5F87128899B192B1A2C2AD5F960A256A04AF' && \
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@HyukjinKwon HyukjinKwon Dec 3, 2020

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@dongjoon-hyun, I am very sorry to leave a comment late like this but have you ever faced an error message such as:

Setting up gpgsm (2.2.12-1+deb10u1) ...
Setting up dirmngr (2.2.12-1+deb10u1) ...
Setting up gpg-wks-server (2.2.12-1+deb10u1) ...
Setting up gpg-wks-client (2.2.12-1+deb10u1) ...
Setting up gnupg (2.2.12-1+deb10u1) ...
Processing triggers for libc-bin (2.28-10) ...
Warning: apt-key output should not be parsed (stdout is not a terminal)
Executing: /tmp/apt-key-gpghome.XSaWDqGyN4/gpg.1.sh --keyserver keys.gnupg.net --recv-key E19F5F87128899B192B1A2C2AD5F960A256A04AF
gpg: keyserver receive failed: No name
The command '/bin/sh -c echo "deb http://cloud.r-project.org/bin/linux/debian buster-cran35/" >> /etc/apt/sources.list &&   apt install -y gnupg &&   apt-key adv --keyserver keys.gnupg.net --recv-key 'E19F5F87128899B192B1A2C2AD5F960A256A04AF' &&   apt-get update &&   apt install -y -t buster-cran35 r-base r-base-dev &&   rm -rf /var/cache/apt/*' returned a non-zero code: 2
Failed to build SparkR Docker image, please refer to Docker build output for details.
[ERROR] Command execution failed.
org.apache.commons.exec.ExecuteException: Process exited with an error: 1 (Exit value: 1)
    at org.apache.commons.exec.DefaultExecutor.executeInternal (DefaultExecutor.java:404)
    at org.apache.commons.exec.DefaultExecutor.execute (DefaultExecutor.java:166)
    at org.codehaus.mojo.exec.ExecMojo.executeCommandLine (ExecMojo.java:804)
    at org.codehaus.mojo.exec.ExecMojo.executeCommandLine (ExecMojo.java:751)
    at org.codehaus.mojo.exec.ExecMojo.execute (ExecMojo.java:313)
    at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo (DefaultBuildPluginManager.java:137)
    at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:210)
    at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:156)
    at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:148)
    at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject (LifecycleModuleBuilder.java:117)
    at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject (LifecycleModuleBuilder.java:81)
    at org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build (SingleThreadedBuilder.java:56)
    at org.apache.maven.lifecycle.internal.LifecycleStarter.execute (LifecycleStarter.java:128)
    at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:305)
    at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:192)
    at org.apache.maven.DefaultMaven.execute (DefaultMaven.java:105)
    at org.apache.maven.cli.MavenCli.execute (MavenCli.java:957)
    at org.apache.maven.cli.MavenCli.doMain (MavenCli.java:289)
    at org.apache.maven.cli.MavenCli.main (MavenCli.java:193)
    at sun.reflect.NativeMethodAccessorImpl.invoke0 (Native Method)
    at sun.reflect.NativeMethodAccessorImpl.invoke (NativeMethodAccessorImpl.java:62)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke (DelegatingMethodAccessorImpl.java:43)
    at java.lang.reflect.Method.invoke (Method.java:498)
    at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced (Launcher.java:282)
    at org.codehaus.plexus.classworlds.launcher.Launcher.launch (Launcher.java:225)
    at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode (Launcher.java:406)
    at org.codehaus.plexus.classworlds.launcher.Launcher.main (Launcher.java:347)

before when you run IT tests locally?

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@dongjoon-hyun dongjoon-hyun Dec 3, 2020

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No, I didn't see that. Is it a DNS error?

gpg: keyserver receive failed: No name

apt-get update && \
apt install -y -t buster-cran35 r-base r-base-dev && \
rm -rf /var/cache/apt/*

COPY R ${SPARK_HOME}/R
ENV R_HOME /usr/lib/R
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3 changes: 1 addition & 2 deletions ...on-tests/src/test/scala/org/apache/spark/deploy/k8s/integrationtest/KubernetesSuite.scala
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Expand Up @@ -43,8 +43,7 @@ import org.apache.spark.internal.config._
class KubernetesSuite extends SparkFunSuite
with BeforeAndAfterAll with BeforeAndAfter with BasicTestsSuite with SecretsTestsSuite
with PythonTestsSuite with ClientModeTestsSuite with PodTemplateSuite with PVTestsSuite
// TODO(SPARK-32354): Fix and re-enable the R tests.
with DepsTestsSuite with DecommissionSuite /* with RTestsSuite */ with Logging with Eventually
with DepsTestsSuite with DecommissionSuite with RTestsSuite with Logging with Eventually
with Matchers {


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