Started by user Claudio Atzori Obtained BETA/Jenkinsfile from git gitea@code-repo.d4science.org:D-Net/dnet-hadoop-deployment.git [Pipeline] Start of Pipeline [Pipeline] node Running on ip-90-147-167-168.ct1.garrservices.it in /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout The recommended git tool is: NONE using credential dnet-hadoop-deployment-credentials Cloning the remote Git repository Cloning repository gitea@code-repo.d4science.org:D-Net/dnet-hadoop-deployment.git > git init /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA # timeout=10 Fetching upstream changes from gitea@code-repo.d4science.org:D-Net/dnet-hadoop-deployment.git > git --version # timeout=10 > git --version # 'git version 2.17.1' using GIT_SSH to set credentials User for CI/CD Verifying host key using known hosts file > git fetch --tags --progress -- gitea@code-repo.d4science.org:D-Net/dnet-hadoop-deployment.git +refs/heads/*:refs/remotes/origin/* # timeout=10 Avoid second fetch Checking out Revision cc40b46ff64a56c7039e62cfe0e6785cb501a1a9 (refs/remotes/origin/master) Commit message: "enrichment with subworkflows" > git config remote.origin.url gitea@code-repo.d4science.org:D-Net/dnet-hadoop-deployment.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/master^{commit} # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f cc40b46ff64a56c7039e62cfe0e6785cb501a1a9 # timeout=10 > git rev-list --no-walk a2ef9a2c6e0e6a066959fe53ff16c8b691ce84f6 # timeout=10 [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] stage [Pipeline] { (Setup) [Pipeline] script [Pipeline] { [Pipeline] readFile [Pipeline] sh + date +%Y-%m-%d + echo /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 [Pipeline] pwd [Pipeline] } [Pipeline] // script [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-H7aBLc6YaLv3/agent.26381 SSH_AGENT_PID=26383 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_4624443953685995793.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl rm -rf /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && mkdir -p /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 + scp -r /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/deploy_release.sh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl:/tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 26383 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Checkout) [Pipeline] dir Running in /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop [Pipeline] { [Pipeline] git The recommended git tool is: NONE No credentials specified Cloning the remote Git repository Cloning repository https://code-repo.d4science.org/D-Net/dnet-hadoop > git init /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop # timeout=10 Fetching upstream changes from https://code-repo.d4science.org/D-Net/dnet-hadoop > git --version # timeout=10 > git --version # 'git version 2.17.1' > git fetch --tags --progress -- https://code-repo.d4science.org/D-Net/dnet-hadoop +refs/heads/*:refs/remotes/origin/* # timeout=10 Avoid second fetch Checking out Revision c67467723b010a385c234fc015d47023f2e852a1 (refs/remotes/origin/beta) Commit message: "Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta" > git config remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git rev-parse refs/remotes/origin/beta^{commit} # timeout=10 > git config core.sparsecheckout # timeout=10 > git checkout -f c67467723b010a385c234fc015d47023f2e852a1 # timeout=10 > git branch -a -v --no-abbrev # timeout=10 > git checkout -b beta c67467723b010a385c234fc015d47023f2e852a1 # timeout=10 > git rev-list --no-walk d33f578e544c23eb8e1a1dd4edfd79b0a42d854a # timeout=10 [Pipeline] } [Pipeline] // dir [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Install) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config3062891933121758051tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config3062891933121758051tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sh + cd dnet-hadoop + mvn clean install -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] ------------------------------------------------------------------------ [INFO] Reactor Build Order: [INFO] [INFO] dhp-code-style [jar] [INFO] dhp [pom] [INFO] dhp-build [pom] [INFO] dhp-build-assembly-resources [jar] [INFO] dhp-build-properties-maven-plugin [maven-plugin] [INFO] dhp-pace-core [jar] [INFO] dhp-common [jar] [INFO] dhp-workflows [pom] [INFO] dhp-workflow-profiles [jar] [INFO] dhp-aggregation [jar] [INFO] dhp-actionmanager [jar] [INFO] dhp-graph-mapper [jar] [INFO] dhp-dedup-openaire [jar] [INFO] dhp-enrichment [jar] [INFO] dhp-graph-provision [jar] [INFO] dhp-blacklist [jar] [INFO] dhp-stats-update [jar] [INFO] dhp-stats-promote [jar] [INFO] dhp-usage-stats-build [jar] [INFO] dhp-usage-raw-data-update [jar] [INFO] dhp-broker-events [jar] [INFO] dhp-doiboost [jar] [INFO] dhp-impact-indicators [jar] [INFO] dhp-swh [jar] [INFO] [INFO] -------------------< eu.dnetlib.dhp:dhp-code-style >-------------------- [INFO] Building dhp-code-style 1.2.5-SNAPSHOT [1/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-code-style --- [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-code-style --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 4 resources [INFO] [INFO] --- maven-compiler-plugin:3.1:compile (default-compile) @ dhp-code-style --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-code-style --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-code-style/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.1:testCompile (default-testCompile) @ dhp-code-style --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.12.4:test (default-test) @ dhp-code-style --- [INFO] Tests are skipped. [INFO] [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ dhp-code-style --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-code-style/target/dhp-code-style-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-code-style --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-code-style/target/dhp-code-style-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-code-style/1.2.5-SNAPSHOT/dhp-code-style-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-code-style/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-code-style/1.2.5-SNAPSHOT/dhp-code-style-1.2.5-SNAPSHOT.pom [INFO] [INFO] -------------------------< eu.dnetlib.dhp:dhp >------------------------- [INFO] Building dhp 1.2.5-SNAPSHOT [2/24] [INFO] --------------------------------[ pom ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp --- [INFO] Total Files Processed: 0 in 00:00.003 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp/1.2.5-SNAPSHOT/dhp-1.2.5-SNAPSHOT.pom [INFO] [INFO] ----------------------< eu.dnetlib.dhp:dhp-build >---------------------- [INFO] Building dhp-build 1.2.5-SNAPSHOT [3/24] [INFO] --------------------------------[ pom ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-build --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-build --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-build --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-build --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-build --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-build --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-build --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build/1.2.5-SNAPSHOT/dhp-build-1.2.5-SNAPSHOT.pom [INFO] [INFO] ------------< eu.dnetlib.dhp:dhp-build-assembly-resources >------------- [INFO] Building dhp-build-assembly-resources 1.2.5-SNAPSHOT [4/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-build-assembly-resources --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-build-assembly-resources --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-build-assembly-resources --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-build-assembly-resources --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-build-assembly-resources --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-build-assembly-resources --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 8 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-build-assembly-resources --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-build-assembly-resources --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-build-assembly-resources --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-build-assembly-resources --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-build-assembly-resources --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-build-assembly-resources --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/target/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-build-assembly-resources --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/target/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-assembly-resources/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.pom [INFO] [INFO] ----------< eu.dnetlib.dhp:dhp-build-properties-maven-plugin >---------- [INFO] Building dhp-build-properties-maven-plugin 1.2.5-SNAPSHOT [5/24] [INFO] ----------------------------[ maven-plugin ]---------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-build-properties-maven-plugin --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-build-properties-maven-plugin --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-build-properties-maven-plugin --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-build-properties-maven-plugin --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 4 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 4 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-build-properties-maven-plugin --- [INFO] Total Files Processed: 4 in 00:00.354 [INFO] Already Sorted: 4 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-build-properties-maven-plugin --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/src/main/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-build-properties-maven-plugin --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 2 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/classes [INFO] [INFO] --- maven-plugin-plugin:3.3:descriptor (default-descriptor) @ dhp-build-properties-maven-plugin --- [INFO] Using 'UTF-8' encoding to read mojo metadata. [INFO] Applying mojo extractor for language: java [INFO] Mojo extractor for language: java found 2 mojo descriptors. [INFO] Applying mojo extractor for language: bsh [INFO] Mojo extractor for language: bsh found 0 mojo descriptors. [INFO] Applying mojo extractor for language: java-annotations [INFO] Mojo extractor for language: java-annotations found 0 mojo descriptors. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-build-properties-maven-plugin --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 1 resource [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-build-properties-maven-plugin --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 2 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-build-properties-maven-plugin --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-build-properties-maven-plugin --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-build-properties-maven-plugin --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-plugin-plugin:3.3:addPluginArtifactMetadata (default-addPluginArtifactMetadata) @ dhp-build-properties-maven-plugin --- [INFO] [INFO] --- maven-source-plugin:3.0.1:jar-no-fork (attach-sources) @ dhp-build-properties-maven-plugin --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT-sources.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-build-properties-maven-plugin --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-properties-maven-plugin/1.2.5-SNAPSHOT/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-properties-maven-plugin/1.2.5-SNAPSHOT/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-build/dhp-build-properties-maven-plugin/target/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT-sources.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-properties-maven-plugin/1.2.5-SNAPSHOT/dhp-build-properties-maven-plugin-1.2.5-SNAPSHOT-sources.jar [INFO] [INFO] --------------------< eu.dnetlib.dhp:dhp-pace-core >-------------------- [INFO] Building dhp-pace-core 1.2.5-SNAPSHOT [6/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-pace-core --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-pace-core --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-pace-core --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-pace-core --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-pace-core --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 2 Scala sources and 93 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/model/SparkDeduper.scala:125: non-variable type argument Any in type pattern scala.collection.mutable.WrappedArray[Any] is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/model/SparkModel.scala:107: non-variable type argument String in type pattern Seq[String] (the underlying of Seq[String]) is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/model/SparkModel.scala:115: non-variable type argument String in type pattern Seq[String] (the underlying of Seq[String]) is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/model/SparkModel.scala:122: non-variable type argument String in type pattern Seq[String] (the underlying of Seq[String]) is unchecked since it is eliminated by erasure [WARNING] four warnings found [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/config/DedupConfig.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/config/DedupConfig.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-pace-core --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 100 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 100 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-pace-core --- [INFO] Total Files Processed: 100 in 00:00.523 [INFO] Already Sorted: 100 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-pace-core --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 13 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-pace-core --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 93 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/tree/support/AbstractComparator.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/src/main/java/eu/dnetlib/pace/tree/support/AbstractComparator.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-pace-core --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 13 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-pace-core --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/test-classes ... [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-pace-core --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 7 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-pace-core --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-pace-core --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-pace-core --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/dhp-pace-core-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-pace-core --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/target/dhp-pace-core-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-pace-core/1.2.5-SNAPSHOT/dhp-pace-core-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-pace-core/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-pace-core/1.2.5-SNAPSHOT/dhp-pace-core-1.2.5-SNAPSHOT.pom [INFO] [INFO] ---------------------< eu.dnetlib.dhp:dhp-common >---------------------- [INFO] Building dhp-common 1.2.5-SNAPSHOT [7/24] [INFO] --------------------------------[ jar 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https://maven.restlet.talend.com/eu/dnetlib/dhp/dhp-schemas/maven-metadata.xml Progress (1): 2.5 kB Downloading from conjars: https://conjars.wensel.net/repo/eu/dnetlib/dhp/dhp-schemas/maven-metadata.xml Downloaded from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dhp/dhp-schemas/maven-metadata.xml (2.5 kB at 20 kB/s) Downloading from central: https://repo.maven.apache.org/maven2/eu/dnetlib/dhp/dhp-schemas/maven-metadata.xml Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/org/apache/cxf/cxf-rt-frontend-jaxws/3.1.5/cxf-rt-frontend-jaxws-3.1.5.jar Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/com/ximpleware/vtd-xml/2.13.4/vtd-xml-2.13.4.jar Downloaded from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/com/ximpleware/vtd-xml/2.13.4/vtd-xml-2.13.4.jar (0 B at 0 B/s) Downloaded from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/org/apache/cxf/cxf-rt-frontend-jaxws/3.1.5/cxf-rt-frontend-jaxws-3.1.5.jar (0 B at 0 B/s) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-common --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-common --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/scala IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 4 were unformatted Details: Correctly formatted: ScholixUtils.scala Correctly formatted: DedupLogModel.scala Correctly formatted: DedupLogWriter.scala Correctly formatted: SparkScalaApplication.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-common --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-common --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-common --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 4 Scala sources and 66 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/main/java/eu/dnetlib/dhp/oa/merge/GroupEntitiesSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/main/java/eu/dnetlib/dhp/oa/merge/GroupEntitiesSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-common --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 81 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 81 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-common --- [INFO] Total Files Processed: 81 in 00:00.175 [INFO] Already Sorted: 81 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-common --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 5 resources [INFO] [INFO] >>> scala-maven-plugin:4.0.1:doc (scala-doc) > generate-resources @ dhp-common >>> [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-common --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/scala IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 4 were unformatted Details: Correctly formatted: ScholixUtils.scala Correctly formatted: DedupLogModel.scala Correctly formatted: DedupLogWriter.scala Correctly formatted: SparkScalaApplication.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-common --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-common --- [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-common --- [INFO] Using incremental compilation using Mixed compile order [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-common --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 81 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 81 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-common --- [INFO] Total Files Processed: 81 in 00:00.127 [INFO] Already Sorted: 81 [INFO] Needed Sorting: 0 [INFO] [INFO] <<< scala-maven-plugin:4.0.1:doc (scala-doc) < generate-resources @ dhp-common <<< [INFO] [INFO] [INFO] --- scala-maven-plugin:4.0.1:doc (scala-doc) @ dhp-common --- model contains 105 documentable templates [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-common --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 66 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/main/java/eu/dnetlib/dhp/schema/oaf/utils/OafMapperUtils.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/main/java/eu/dnetlib/dhp/schema/oaf/utils/OafMapperUtils.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-common --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 15 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-common --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/java/eu/dnetlib/dhp/common/api/ZenodoAPIClientTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/java/eu/dnetlib/dhp/common/api/ZenodoAPIClientTest.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/java/eu/dnetlib/dhp/common/api/ZenodoAPIClientTest.java:-1: Recompile with -Xlint:deprecation for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-common --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/java/eu/dnetlib/dhp/common/api/ZenodoAPIClientTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/java/eu/dnetlib/dhp/common/api/ZenodoAPIClientTest.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/src/test/java/eu/dnetlib/dhp/common/api/ZenodoAPIClientTest.java: Recompile with -Xlint:deprecation for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-common --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-common --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-common --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/dhp-common-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-common --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/target/dhp-common-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-common/1.2.5-SNAPSHOT/dhp-common-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-common/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-common/1.2.5-SNAPSHOT/dhp-common-1.2.5-SNAPSHOT.pom [INFO] [INFO] --------------------< eu.dnetlib.dhp:dhp-workflows >-------------------- [INFO] Building dhp-workflows 1.2.5-SNAPSHOT [8/24] [INFO] --------------------------------[ pom ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-workflows --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-workflows --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-workflows --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-workflows --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-workflows --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-workflows --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-workflows --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/target/dhp-workflows-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-workflows --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-workflows/1.2.5-SNAPSHOT/dhp-workflows-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/target/dhp-workflows-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-workflows/1.2.5-SNAPSHOT/dhp-workflows-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ----------------< eu.dnetlib.dhp:dhp-workflow-profiles >---------------- [INFO] Building dhp-workflow-profiles 1.2.5-SNAPSHOT [9/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-workflow-profiles --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-workflow-profiles --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-workflow-profiles --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-workflow-profiles --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-workflow-profiles --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-workflow-profiles --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 22 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-workflow-profiles --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-workflow-profiles --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-workflow-profiles --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-workflow-profiles --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-workflow-profiles --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-workflow-profiles --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/target/dhp-workflow-profiles-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-workflow-profiles --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/target/dhp-workflow-profiles-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-workflow-profiles --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/target/dhp-workflow-profiles-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-workflow-profiles/1.2.5-SNAPSHOT/dhp-workflow-profiles-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-workflow-profiles/1.2.5-SNAPSHOT/dhp-workflow-profiles-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-workflow-profiles/target/dhp-workflow-profiles-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-workflow-profiles/1.2.5-SNAPSHOT/dhp-workflow-profiles-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] -------------------< eu.dnetlib.dhp:dhp-aggregation >------------------- [INFO] Building dhp-aggregation 1.2.5-SNAPSHOT [10/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-aggregation --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-aggregation --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 20 were unformatted Details: Correctly formatted: SparkRetrieveDataciteDelta.scala Correctly formatted: PubMedToOaf.scala Correctly formatted: PMParser.scala Correctly formatted: BioDBToOAF.scala Correctly formatted: SparkCreateBaselineDataFrame.scala Correctly formatted: SparkEBILinksToOaf.scala Correctly formatted: SparkDownloadEBILinks.scala Correctly formatted: SparkTransformBioDatabaseToOAF.scala Correctly formatted: DataciteModelConstants.scala Correctly formatted: ImportDatacite.scala Correctly formatted: DataciteAPIImporter.scala Correctly formatted: AbstractRestClient.scala Correctly formatted: SparkDownloadUpdateDatacite.scala Correctly formatted: GenerateDataciteDatasetSpark.scala Correctly formatted: DataciteToOAFTransformation.scala Correctly formatted: CollectionUtils.scala Correctly formatted: SparkGenerateORCIDTable.scala Correctly formatted: BioScholixTest.scala Correctly formatted: DataciteToOAFTest.scala Correctly formatted: DataciteUtilityTest.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-aggregation --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-aggregation --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-aggregation --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 94 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/classes ... [WARNING] [Warn] : there were two deprecation warnings; re-run with -deprecation for details [WARNING] one warning found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/utils/ReadExcel.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/utils/ReadExcel.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/utils/ReadExcel.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/bipaffiliations/PrepareAffiliationRelations.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/bipaffiliations/PrepareAffiliationRelations.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-aggregation --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 120 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 120 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-aggregation --- [INFO] Total Files Processed: 120 in 00:00.688 [INFO] Already Sorted: 120 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-aggregation --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 78 resources [INFO] [INFO] >>> scala-maven-plugin:4.0.1:doc (scala-doc) > generate-resources @ dhp-aggregation >>> [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-aggregation --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 20 were unformatted Details: Correctly formatted: SparkRetrieveDataciteDelta.scala Correctly formatted: PubMedToOaf.scala Correctly formatted: PMParser.scala Correctly formatted: BioDBToOAF.scala Correctly formatted: SparkCreateBaselineDataFrame.scala Correctly formatted: SparkEBILinksToOaf.scala Correctly formatted: SparkDownloadEBILinks.scala Correctly formatted: SparkTransformBioDatabaseToOAF.scala Correctly formatted: DataciteModelConstants.scala Correctly formatted: ImportDatacite.scala Correctly formatted: DataciteAPIImporter.scala Correctly formatted: AbstractRestClient.scala Correctly formatted: SparkDownloadUpdateDatacite.scala Correctly formatted: GenerateDataciteDatasetSpark.scala Correctly formatted: DataciteToOAFTransformation.scala Correctly formatted: CollectionUtils.scala Correctly formatted: SparkGenerateORCIDTable.scala Correctly formatted: BioScholixTest.scala Correctly formatted: DataciteToOAFTest.scala Correctly formatted: DataciteUtilityTest.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-aggregation --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-aggregation --- [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-aggregation --- [INFO] Using incremental compilation using Mixed compile order [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-aggregation --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 120 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 120 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-aggregation --- [INFO] Total Files Processed: 120 in 00:00.260 [INFO] Already Sorted: 120 [INFO] Needed Sorting: 0 [INFO] [INFO] <<< scala-maven-plugin:4.0.1:doc (scala-doc) < generate-resources @ dhp-aggregation <<< [INFO] [INFO] [INFO] --- scala-maven-plugin:4.0.1:doc (scala-doc) @ dhp-aggregation --- model contains 171 documentable templates [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-aggregation --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 94 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/utils/EXCELParser.java: Some input files use or override a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/utils/EXCELParser.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/SparkAtomicActionJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/actionmanager/project/SparkAtomicActionJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-aggregation --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 103 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-aggregation --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 3 Scala sources and 26 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/test-classes ... [WARNING] [Warn] : there were three deprecation warnings; re-run with -deprecation for details [WARNING] one warning found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/java/eu/dnetlib/dhp/actionmanager/project/EXCELParserTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/java/eu/dnetlib/dhp/actionmanager/project/EXCELParserTest.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/java/eu/dnetlib/dhp/actionmanager/project/EXCELParserTest.java:-1: Recompile with -Xlint:deprecation for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-aggregation --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 26 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/java/eu/dnetlib/dhp/actionmanager/project/EXCELParserTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/java/eu/dnetlib/dhp/actionmanager/project/EXCELParserTest.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/src/test/java/eu/dnetlib/dhp/actionmanager/project/EXCELParserTest.java: Recompile with -Xlint:deprecation for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-aggregation --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-aggregation --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-aggregation --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/dhp-aggregation-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-aggregation --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/dhp-aggregation-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-aggregation --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/dhp-aggregation-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-aggregation/1.2.5-SNAPSHOT/dhp-aggregation-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-aggregation/1.2.5-SNAPSHOT/dhp-aggregation-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-aggregation/target/dhp-aggregation-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-aggregation/1.2.5-SNAPSHOT/dhp-aggregation-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-actionmanager >------------------ [INFO] Building dhp-actionmanager 1.2.5-SNAPSHOT [11/24] [INFO] --------------------------------[ jar ]--------------------------------- Downloading from dnet45-bootstrap-snapshot: https://maven.d4science.org/nexus/content/repositories/dnet45-bootstrap-snapshot/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet5-bootstrap-snapshot: https://maven.d4science.org/nexus/content/repositories/dnet5-bootstrap-snapshot/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet5-bootstrap-release: https://maven.d4science.org/nexus/content/repositories/dnet5-bootstrap-release/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet45-bootstrap-release: https://maven.d4science.org/nexus/content/repositories/dnet45-bootstrap-release/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet45-releases: https://maven.d4science.org/nexus/content/repositories/dnet45-releases/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet-deps: https://maven.d4science.org/nexus/content/repositories/dnet-deps/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Progress (1): 453 B Progress (2): 453 B | 343 B Downloading from maven-restlet: https://maven.restlet.talend.com/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloaded from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml (453 B at 3.7 kB/s) Downloaded from dnet45-releases: https://maven.d4science.org/nexus/content/repositories/dnet45-releases/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml (343 B at 2.7 kB/s) Downloading from conjars: https://conjars.wensel.net/repo/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from central: https://repo.maven.apache.org/maven2/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from dnet45-bootstrap-snapshot: https://maven.d4science.org/nexus/content/repositories/dnet45-bootstrap-snapshot/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from dnet5-bootstrap-snapshot: https://maven.d4science.org/nexus/content/repositories/dnet5-bootstrap-snapshot/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from dnet45-bootstrap-release: https://maven.d4science.org/nexus/content/repositories/dnet45-bootstrap-release/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from dnet5-bootstrap-release: https://maven.d4science.org/nexus/content/repositories/dnet5-bootstrap-release/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from dnet45-releases: https://maven.d4science.org/nexus/content/repositories/dnet45-releases/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from dnet-deps: https://maven.d4science.org/nexus/content/repositories/dnet-deps/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Progress (1): 408 B Progress (2): 408 B | 515 B Downloaded from dnet45-releases: https://maven.d4science.org/nexus/content/repositories/dnet45-releases/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml (408 B at 3.4 kB/s) Downloading from maven-restlet: https://maven.restlet.talend.com/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloaded from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml (515 B at 3.6 kB/s) Downloading from conjars: https://conjars.wensel.net/repo/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from central: https://repo.maven.apache.org/maven2/eu/dnetlib/dnet-actionmanager-common/maven-metadata.xml Downloading from cloudera-central: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-central/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from cloudera-snapshots: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-snapshots/eu/dnetlib/dnet-actionmanager-api/maven-metadata.xml Downloading from cloudera-central: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-central/eu/dnetlib/cnr-rmi-api/maven-metadata.xml Downloading from cloudera-snapshots: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-snapshots/eu/dnetlib/cnr-rmi-api/maven-metadata.xml Downloading from cloudera-central: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-central/org/apache/cxf/cxf-core/maven-metadata.xml Downloading from cloudera-snapshots: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-snapshots/org/apache/cxf/cxf-core/maven-metadata.xml Downloading from cloudera-central: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-central/org/apache/cxf/cxf-rt-frontend-jaxws/maven-metadata.xml Downloading from cloudera-snapshots: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-snapshots/org/apache/cxf/cxf-rt-frontend-jaxws/maven-metadata.xml Downloading from cloudera-central: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-central/log4j/log4j/maven-metadata.xml Downloading from cloudera-snapshots: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-snapshots/log4j/log4j/maven-metadata.xml Progress (1): 451 B Progress (2): 451 B | 409 B Downloaded from cloudera-central: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-central/log4j/log4j/maven-metadata.xml (451 B at 6.4 kB/s) Downloaded from cloudera-snapshots: http://maven.research-infrastructures.eu/nexus/content/repositories/cloudera-snapshots/log4j/log4j/maven-metadata.xml (409 B at 5.6 kB/s) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-actionmanager --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-actionmanager --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-actionmanager --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-actionmanager --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 9 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 9 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-actionmanager --- [INFO] Total Files Processed: 9 in 00:00.035 [INFO] Already Sorted: 9 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-actionmanager --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 12 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-actionmanager --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 5 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-actionmanager --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 35 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-actionmanager --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 4 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-actionmanager --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-actionmanager --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-actionmanager --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/dhp-actionmanager-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-actionmanager --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/dhp-actionmanager-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-actionmanager --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/dhp-actionmanager-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-actionmanager/1.2.5-SNAPSHOT/dhp-actionmanager-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-actionmanager/1.2.5-SNAPSHOT/dhp-actionmanager-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/dhp-actionmanager-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-actionmanager/1.2.5-SNAPSHOT/dhp-actionmanager-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [12/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.155 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-graph-mapper --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-graph-mapper/1.2.5-SNAPSHOT/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-graph-mapper/1.2.5-SNAPSHOT/dhp-graph-mapper-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-graph-mapper/1.2.5-SNAPSHOT/dhp-graph-mapper-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-dedup-openaire >------------------ [INFO] Building dhp-dedup-openaire 1.2.5-SNAPSHOT [13/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-dedup-openaire --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-dedup-openaire --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 1 were unformatted Details: Correctly formatted: ConnectedComponent.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-dedup-openaire --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 1 Scala source and 23 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 33 [INFO] Successfully formatted: 2 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 31 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-dedup-openaire --- [INFO] Total Files Processed: 33 in 00:00.092 [INFO] Already Sorted: 32 [INFO] Needed Sorting: 1 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 20 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 23 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 59 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 10 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes ... [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 10 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-dedup-openaire --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-dedup-openaire --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-dedup-openaire --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-dedup-openaire --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-dedup-openaire --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-dedup-openaire/1.2.5-SNAPSHOT/dhp-dedup-openaire-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-dedup-openaire/1.2.5-SNAPSHOT/dhp-dedup-openaire-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-dedup-openaire/1.2.5-SNAPSHOT/dhp-dedup-openaire-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] -------------------< eu.dnetlib.dhp:dhp-enrichment >-------------------- [INFO] Building dhp-enrichment 1.2.5-SNAPSHOT [14/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-enrichment --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-enrichment --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-enrichment --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-enrichment --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 89 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 89 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-enrichment --- [INFO] Total Files Processed: 89 in 00:00.149 [INFO] Already Sorted: 89 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-enrichment --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 43 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-enrichment --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 75 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/criteria/VerbResolver.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/criteria/VerbResolver.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-enrichment --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 122 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-enrichment --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 14 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-enrichment --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-enrichment --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-enrichment --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/dhp-enrichment-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-enrichment --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/dhp-enrichment-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-enrichment --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/dhp-enrichment-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-enrichment/1.2.5-SNAPSHOT/dhp-enrichment-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-enrichment/1.2.5-SNAPSHOT/dhp-enrichment-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/dhp-enrichment-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-enrichment/1.2.5-SNAPSHOT/dhp-enrichment-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-graph-provision >----------------- [INFO] Building dhp-graph-provision 1.2.5-SNAPSHOT [15/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-provision --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-provision --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-provision --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-provision --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-provision --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 31 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java:-1: Some input files use or override a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/CreateRelatedEntitiesJob_phase2.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/CreateRelatedEntitiesJob_phase2.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 42 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 42 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-provision --- [INFO] Total Files Processed: 42 in 00:00.113 [INFO] Already Sorted: 42 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 23 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-provision --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 31 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java: Some input files use or override a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlSerializationUtils.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlSerializationUtils.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 119 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-provision --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 11 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/IndexRecordTransformerTest.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/IndexRecordTransformerTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-provision --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 11 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-provision --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-provision --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-provision --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/dhp-graph-provision-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-graph-provision --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/dhp-graph-provision-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-graph-provision --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/dhp-graph-provision-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-graph-provision/1.2.5-SNAPSHOT/dhp-graph-provision-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-graph-provision/1.2.5-SNAPSHOT/dhp-graph-provision-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/dhp-graph-provision-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-graph-provision/1.2.5-SNAPSHOT/dhp-graph-provision-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --------------------< eu.dnetlib.dhp:dhp-blacklist >-------------------- [INFO] Building dhp-blacklist 1.2.5-SNAPSHOT [16/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-blacklist --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-blacklist --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-blacklist --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-blacklist --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 5 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 5 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-blacklist --- [INFO] Total Files Processed: 5 in 00:00.020 [INFO] Already Sorted: 5 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-blacklist --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 5 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-blacklist --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 3 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-blacklist --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 6 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-blacklist --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 2 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-blacklist --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-blacklist --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-blacklist --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/dhp-blacklist-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-blacklist --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/dhp-blacklist-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-blacklist --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/dhp-blacklist-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-blacklist/1.2.5-SNAPSHOT/dhp-blacklist-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-blacklist/1.2.5-SNAPSHOT/dhp-blacklist-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/dhp-blacklist-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-blacklist/1.2.5-SNAPSHOT/dhp-blacklist-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-stats-update >------------------- [INFO] Building dhp-stats-update 1.2.5-SNAPSHOT [17/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-stats-update --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-stats-update --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-stats-update --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-stats-update --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-stats-update --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-stats-update --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 39 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-stats-update --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-stats-update --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-stats-update --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-stats-update --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-stats-update --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-stats-update --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/dhp-stats-update-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-stats-update --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/dhp-stats-update-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-stats-update --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/dhp-stats-update-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-stats-update/1.2.5-SNAPSHOT/dhp-stats-update-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-stats-update/1.2.5-SNAPSHOT/dhp-stats-update-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/dhp-stats-update-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-stats-update/1.2.5-SNAPSHOT/dhp-stats-update-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-stats-promote >------------------ [INFO] Building dhp-stats-promote 1.2.5-SNAPSHOT [18/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-stats-promote --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-stats-promote --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-stats-promote --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-stats-promote --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-stats-promote --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-stats-promote --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 5 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-stats-promote --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-stats-promote --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-stats-promote --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-stats-promote --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-stats-promote --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-stats-promote --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/dhp-stats-promote-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-stats-promote --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/dhp-stats-promote-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-stats-promote --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/dhp-stats-promote-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-stats-promote/1.2.5-SNAPSHOT/dhp-stats-promote-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-stats-promote/1.2.5-SNAPSHOT/dhp-stats-promote-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/dhp-stats-promote-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-stats-promote/1.2.5-SNAPSHOT/dhp-stats-promote-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ----------------< eu.dnetlib.dhp:dhp-usage-stats-build >---------------- [INFO] Building dhp-usage-stats-build 1.2.5-SNAPSHOT [19/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-usage-stats-build --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-usage-stats-build --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-usage-stats-build --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- git-commit-id-plugin:2.1.15:revision (default) @ dhp-usage-stats-build --- [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-usage-stats-build --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 7 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 7 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-usage-stats-build --- [INFO] Total Files Processed: 7 in 00:00.029 [INFO] Already Sorted: 7 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-usage-stats-build --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.1:compile (default-compile) @ dhp-usage-stats-build --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 7 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-usage-stats-build --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.1:testCompile (default-testCompile) @ dhp-usage-stats-build --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-usage-stats-build --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-usage-stats-build --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-usage-stats-build --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/target/dhp-usage-stats-build-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-usage-stats-build --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/target/dhp-usage-stats-build-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-usage-stats-build --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/target/dhp-usage-stats-build-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-usage-stats-build/1.2.5-SNAPSHOT/dhp-usage-stats-build-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-usage-stats-build/1.2.5-SNAPSHOT/dhp-usage-stats-build-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-stats-build/target/dhp-usage-stats-build-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-usage-stats-build/1.2.5-SNAPSHOT/dhp-usage-stats-build-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --------------< eu.dnetlib.dhp:dhp-usage-raw-data-update >-------------- [INFO] Building dhp-usage-raw-data-update 1.2.5-SNAPSHOT [20/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-usage-raw-data-update --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-usage-raw-data-update --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-usage-raw-data-update --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- git-commit-id-plugin:2.1.15:revision (default) @ dhp-usage-raw-data-update --- [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-usage-raw-data-update --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 10 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 10 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-usage-raw-data-update --- [INFO] Total Files Processed: 10 in 00:00.090 [INFO] Already Sorted: 10 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-usage-raw-data-update --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.1:compile (default-compile) @ dhp-usage-raw-data-update --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 10 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/src/main/java/eu/dnetlib/oa/graph/usagerawdata/export/SarcStats.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/src/main/java/eu/dnetlib/oa/graph/usagerawdata/export/SarcStats.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-usage-raw-data-update --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.1:testCompile (default-testCompile) @ dhp-usage-raw-data-update --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-usage-raw-data-update --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-usage-raw-data-update --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-usage-raw-data-update --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/target/dhp-usage-raw-data-update-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-usage-raw-data-update --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/target/dhp-usage-raw-data-update-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-usage-raw-data-update --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/target/dhp-usage-raw-data-update-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-usage-raw-data-update/1.2.5-SNAPSHOT/dhp-usage-raw-data-update-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-usage-raw-data-update/1.2.5-SNAPSHOT/dhp-usage-raw-data-update-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-usage-raw-data-update/target/dhp-usage-raw-data-update-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-usage-raw-data-update/1.2.5-SNAPSHOT/dhp-usage-raw-data-update-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-broker-events >------------------ [INFO] Building dhp-broker-events 1.2.5-SNAPSHOT [21/24] [INFO] --------------------------------[ jar ]--------------------------------- Downloading from dnet45-bootstrap-snapshot: https://maven.d4science.org/nexus/content/repositories/dnet45-bootstrap-snapshot/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from dnet5-bootstrap-snapshot: https://maven.d4science.org/nexus/content/repositories/dnet5-bootstrap-snapshot/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from dnet5-bootstrap-release: https://maven.d4science.org/nexus/content/repositories/dnet5-bootstrap-release/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from dnet45-bootstrap-release: https://maven.d4science.org/nexus/content/repositories/dnet45-bootstrap-release/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from dnet45-releases: https://maven.d4science.org/nexus/content/repositories/dnet45-releases/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from dnet-deps: https://maven.d4science.org/nexus/content/repositories/dnet-deps/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Progress (1): 1.2 kB Progress (2): 1.2 kB | 1.5 kB Downloading from maven-restlet: https://maven.restlet.talend.com/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloaded from dnet45-snapshots: https://maven.d4science.org/nexus/content/repositories/dnet45-snapshots/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml (1.5 kB at 11 kB/s) Downloaded from dnet45-releases: https://maven.d4science.org/nexus/content/repositories/dnet45-releases/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml (1.2 kB at 8.5 kB/s) Downloading from conjars: https://conjars.wensel.net/repo/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml Downloading from central: https://repo.maven.apache.org/maven2/eu/dnetlib/dhp/dnet-openaire-broker-common/maven-metadata.xml [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-broker-events --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-broker-events --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-broker-events --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-broker-events --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 87 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 87 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-broker-events --- [INFO] Total Files Processed: 87 in 00:00.271 [INFO] Already Sorted: 87 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-broker-events --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 20 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-broker-events --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 80 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-broker-events --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-broker-events --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 7 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-broker-events --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-broker-events --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-broker-events --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/dhp-broker-events-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-broker-events --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/dhp-broker-events-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-broker-events --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/dhp-broker-events-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-broker-events/1.2.5-SNAPSHOT/dhp-broker-events-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-broker-events/1.2.5-SNAPSHOT/dhp-broker-events-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/dhp-broker-events-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-broker-events/1.2.5-SNAPSHOT/dhp-broker-events-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --------------------< eu.dnetlib.dhp:dhp-doiboost >--------------------- [INFO] Building dhp-doiboost 1.2.5-SNAPSHOT [22/24] [INFO] --------------------------------[ jar ]--------------------------------- Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/org/apache/cxf/cxf-core/3.1.5/cxf-core-3.1.5.jar Downloaded from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/org/apache/cxf/cxf-core/3.1.5/cxf-core-3.1.5.jar (0 B at 0 B/s) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-doiboost --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-doiboost --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [INFO] Scalafmt results: 0 of 22 were unformatted Details: Correctly formatted: DoiBoostMappingUtil.scala Correctly formatted: SparkGenerateDoiBoost.scala Correctly formatted: ORCIDToOAF.scala Correctly formatted: SparkPreprocessORCID.scala Correctly formatted: SparkConvertORCIDToOAF.scala Correctly formatted: GenerateCrossrefDataset.scala Correctly formatted: Crossref2Oaf.scala Correctly formatted: CrossrefDataset.scala Correctly formatted: SparkMapDumpIntoOAF.scala Correctly formatted: UnpackCrtossrefEntries.scala Correctly formatted: SparkMapUnpayWallToOAF.scala Correctly formatted: UnpayWallToOAF.scala Correctly formatted: SparkGenerateDOIBoostActionSet.scala Correctly formatted: SparkImportMagIntoDataset.scala Correctly formatted: MagDataModel.scala Correctly formatted: SparkProcessMAG.scala Correctly formatted: MappingORCIDToOAFTest.scala Correctly formatted: DoiBoostHostedByMapTest.scala Correctly formatted: NormalizeDoiTest.scala Correctly formatted: CrossrefMappingTest.scala Correctly formatted: UnpayWallMappingTest.scala Correctly formatted: MAGMappingTest.scala [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-doiboost --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-doiboost --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-doiboost --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 16 Scala sources and 32 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/oaf/PublicationToOaf.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/oaf/PublicationToOaf.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/oaf/PublicationToOaf.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-doiboost --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 37 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 37 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-doiboost --- [INFO] Total Files Processed: 37 in 00:00.124 [INFO] Already Sorted: 37 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-doiboost --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 37 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-doiboost --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 32 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/oaf/PublicationToOaf.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/oaf/PublicationToOaf.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/src/main/java/eu/dnetlib/doiboost/orcidnodoi/oaf/PublicationToOaf.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-doiboost --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 47 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-doiboost --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 6 Scala sources and 5 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/test-classes ... [WARNING] [Warn] : there was one feature warning; re-run with -feature for details [WARNING] one warning found [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-doiboost --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 5 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-doiboost --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-doiboost --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-doiboost --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/dhp-doiboost-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-doiboost --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/dhp-doiboost-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-doiboost --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/dhp-doiboost-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-doiboost/1.2.5-SNAPSHOT/dhp-doiboost-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-doiboost/1.2.5-SNAPSHOT/dhp-doiboost-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-doiboost/target/dhp-doiboost-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-doiboost/1.2.5-SNAPSHOT/dhp-doiboost-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] ----------------< eu.dnetlib.dhp:dhp-impact-indicators >---------------- [INFO] Building dhp-impact-indicators 1.2.5-SNAPSHOT [23/24] [INFO] --------------------------------[ jar ]--------------------------------- Downloading from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/log4j/log4j/1.2.17/log4j-1.2.17.jar Downloaded from cloudera: https://repository.cloudera.com/artifactory/cloudera-repos/log4j/log4j/1.2.17/log4j-1.2.17.jar (0 B at 0 B/s) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-impact-indicators --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-impact-indicators --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-impact-indicators --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-impact-indicators --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-impact-indicators --- [INFO] Total Files Processed: 0 in 00:00.000 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-impact-indicators --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 9 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-impact-indicators --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-impact-indicators --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-impact-indicators --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-impact-indicators --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-impact-indicators --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-scm-plugin:1.8.1:checkout (checkout-bip-ranker) @ dhp-impact-indicators --- [INFO] Removing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app && git clone --branch v1.0.0 https://github.com/athenarc/Bip-Ranker.git /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app [INFO] Executing: /bin/sh -c cd /tmp && git ls-remote https://github.com/athenarc/Bip-Ranker.git [INFO] Working directory: /tmp [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker && git fetch https://github.com/athenarc/Bip-Ranker.git [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker && git checkout v1.0.0 [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker && git ls-files [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-impact-indicators --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/dhp-impact-indicators-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-impact-indicators --- [WARNING] JAR will be empty - no content was marked for inclusion! [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/dhp-impact-indicators-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-impact-indicators --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/dhp-impact-indicators-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-impact-indicators/1.2.5-SNAPSHOT/dhp-impact-indicators-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-impact-indicators/1.2.5-SNAPSHOT/dhp-impact-indicators-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/dhp-impact-indicators-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-impact-indicators/1.2.5-SNAPSHOT/dhp-impact-indicators-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] -----------------------< eu.dnetlib.dhp:dhp-swh >----------------------- [INFO] Building dhp-swh 1.2.5-SNAPSHOT [24/24] [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-swh --- [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-swh --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-swh --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-swh --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 11 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 11 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-swh --- [INFO] Total Files Processed: 11 in 00:00.021 [INFO] Already Sorted: 11 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-swh --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 7 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-swh --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 8 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/src/main/java/eu/dnetlib/dhp/swh/PrepareSWHActionsets.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/src/main/java/eu/dnetlib/dhp/swh/PrepareSWHActionsets.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/src/main/java/eu/dnetlib/dhp/swh/PrepareSWHActionsets.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-swh --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-swh --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 3 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-swh --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-swh --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-swh --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/dhp-swh-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (integration-test-package) @ dhp-swh --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/dhp-swh-1.2.5-SNAPSHOT-tests.jar [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ dhp-swh --- [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/dhp-swh-1.2.5-SNAPSHOT.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-swh/1.2.5-SNAPSHOT/dhp-swh-1.2.5-SNAPSHOT.jar [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/pom.xml to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-swh/1.2.5-SNAPSHOT/dhp-swh-1.2.5-SNAPSHOT.pom [INFO] Installing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-swh/target/dhp-swh-1.2.5-SNAPSHOT-tests.jar to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-swh/1.2.5-SNAPSHOT/dhp-swh-1.2.5-SNAPSHOT-tests.jar [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary for dhp 1.2.5-SNAPSHOT: [INFO] [INFO] dhp-code-style ..................................... SUCCESS [ 1.227 s] [INFO] dhp ................................................ SUCCESS [ 1.343 s] [INFO] dhp-build .......................................... SUCCESS [ 0.092 s] [INFO] dhp-build-assembly-resources ....................... SUCCESS [ 0.640 s] [INFO] dhp-build-properties-maven-plugin .................. SUCCESS [ 5.447 s] [INFO] dhp-pace-core ...................................... SUCCESS [ 11.420 s] [INFO] dhp-common ......................................... SUCCESS [ 37.852 s] [INFO] dhp-workflows ...................................... SUCCESS [ 0.721 s] [INFO] dhp-workflow-profiles .............................. SUCCESS [ 0.304 s] [INFO] dhp-aggregation .................................... SUCCESS [ 48.203 s] [INFO] dhp-actionmanager .................................. SUCCESS [ 3.917 s] [INFO] dhp-graph-mapper ................................... SUCCESS [ 33.238 s] [INFO] dhp-dedup-openaire ................................. SUCCESS [ 14.291 s] [INFO] dhp-enrichment ..................................... SUCCESS [ 2.873 s] [INFO] dhp-graph-provision ................................ SUCCESS [ 5.113 s] [INFO] dhp-blacklist ...................................... SUCCESS [ 1.206 s] [INFO] dhp-stats-update ................................... SUCCESS [ 0.151 s] [INFO] dhp-stats-promote .................................. SUCCESS [ 0.255 s] [INFO] dhp-usage-stats-build .............................. SUCCESS [ 3.853 s] [INFO] dhp-usage-raw-data-update .......................... SUCCESS [ 1.260 s] [INFO] dhp-broker-events .................................. SUCCESS [ 3.713 s] [INFO] dhp-doiboost ....................................... SUCCESS [ 36.680 s] [INFO] dhp-impact-indicators .............................. SUCCESS [ 2.258 s] [INFO] dhp-swh ............................................ SUCCESS [ 1.552 s] [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 03:38 min [INFO] Finished at: 2024-01-11T21:21:26Z [INFO] ------------------------------------------------------------------------ [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (aggregatorGraph) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5832043643477641505tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5832043643477641505tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-YyfWiVqkKNbx/agent.27396 SSH_AGENT_PID=27398 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_2734385441063979733.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/raw_all -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:21:36+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.613 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- Downloading from iis-releases: https://maven.ceon.pl/artifactory/iis-releases/log4j/log4j/maven-metadata.xml Downloading from dnet4-releases: http://maven.research-infrastructures.eu/nexus/content/repositories/dnet4-releases/log4j/log4j/maven-metadata.xml Downloading from ceon: https://maven.ceon.pl/artifactory/repo/log4j/log4j/maven-metadata.xml Progress (1): 892 B Downloaded from ceon: https://maven.ceon.pl/artifactory/repo/log4j/log4j/maven-metadata.xml (892 B at 245 B/s) [INFO] Priming eu/dnetlib/dhp/oa/graph/raw_all into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/raw_all/2024-01-11_21_21/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/raw_all 24/01/11 21:22:16 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/raw_all' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/raw_all + hadoop fs -mkdir -p /user/git.dnet/oa/graph/raw_all + hadoop fs -mkdir -p /user/git.dnet/oa/graph/raw_all/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/raw_all/2024-01-11_21_21/oozie_app /user/git.dnet/oa/graph/raw_all [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 58.097 s [INFO] Finished at: 2024-01-11T21:22:26Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/raw_all /lib/dnet/BETA oa/graph/raw_all + app_dir=oa/graph/raw_all + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/raw_all ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/raw_all/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/raw_all + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/raw_all 24/01/11 21:22:29 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/raw_all' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/raw_all + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/raw_all + hdfs dfs -mv /user/git.dnet/oa/graph/raw_all/oozie_app /lib/dnet/BETA/oa/graph/raw_all [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 27398 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (patchHostedBy) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config993925853116522381tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config993925853116522381tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-Ro2JAfZd8DYo/agent.27572 SSH_AGENT_PID=27574 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7222228682390096853.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/hostedbymap -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:22:44+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.624 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/hostedbymap into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 3 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/hostedbymap/2024-01-11_21_22/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/hostedbymap 24/01/11 21:23:24 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/hostedbymap' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/hostedbymap + hadoop fs -mkdir -p /user/git.dnet/oa/graph/hostedbymap + hadoop fs -mkdir -p /user/git.dnet/oa/graph/hostedbymap/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/hostedbymap/2024-01-11_21_22/oozie_app /user/git.dnet/oa/graph/hostedbymap [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 58.549 s [INFO] Finished at: 2024-01-11T21:23:34Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/hostedbymap /lib/dnet/BETA oa/graph/hostedbymap + app_dir=oa/graph/hostedbymap + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/hostedbymap ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/hostedbymap/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/hostedbymap + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/hostedbymap 24/01/11 21:23:37 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/hostedbymap' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/hostedbymap + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/hostedbymap + hdfs dfs -mv /user/git.dnet/oa/graph/hostedbymap/oozie_app /lib/dnet/BETA/oa/graph/hostedbymap [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 27574 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (raw_openorgs) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2546138177730648385tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2546138177730648385tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-kjwGLorMftRu/agent.27762 SSH_AGENT_PID=27764 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_5351350328374721556.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/raw_organizations -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:23:52+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.567 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/raw_organizations into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/raw_organizations/2024-01-11_21_23/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/raw_organizations 24/01/11 21:24:31 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/raw_organizations' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/raw_organizations + hadoop fs -mkdir -p /user/git.dnet/oa/graph/raw_organizations + hadoop fs -mkdir -p /user/git.dnet/oa/graph/raw_organizations/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/raw_organizations/2024-01-11_21_23/oozie_app /user/git.dnet/oa/graph/raw_organizations [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 56.915 s [INFO] Finished at: 2024-01-11T21:24:41Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/raw_organizations /lib/dnet/BETA oa/graph/raw_openorgs + app_dir=oa/graph/raw_organizations + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/raw_openorgs ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/raw_organizations/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/raw_openorgs + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/raw_openorgs 24/01/11 21:24:43 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/raw_openorgs' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/raw_openorgs + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/raw_openorgs + hdfs dfs -mv /user/git.dnet/oa/graph/raw_organizations/oozie_app /lib/dnet/BETA/oa/graph/raw_openorgs [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 27764 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (mergeAggregatorGraphs) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config7731694608934721552tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config7731694608934721552tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-pKvy2Pu0URDV/agent.27976 SSH_AGENT_PID=27978 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7734437634363873284.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/merge -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:24:58+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.607 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/merge into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/merge/2024-01-11_21_24/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/merge 24/01/11 21:25:38 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/merge' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/merge + hadoop fs -mkdir -p /user/git.dnet/oa/graph/merge + hadoop fs -mkdir -p /user/git.dnet/oa/graph/merge/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/merge/2024-01-11_21_24/oozie_app /user/git.dnet/oa/graph/merge [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 01:04 min [INFO] Finished at: 2024-01-11T21:25:55Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/merge /lib/dnet/BETA oa/graph/merge + app_dir=oa/graph/merge + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/merge ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/merge/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/merge + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/merge 24/01/11 21:25:57 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/merge' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/merge + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/merge + hdfs dfs -mv /user/git.dnet/oa/graph/merge/oozie_app /lib/dnet/BETA/oa/graph/merge [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 27978 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (promoteActions) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config8131258244857939210tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config8131258244857939210tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-eXpoovyQg78x/agent.28182 SSH_AGENT_PID=28184 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_1420146689413472344.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-actionmanager + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/actionmanager/wf/main -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-actionmanager >------------------ [INFO] Building dhp-actionmanager 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-actionmanager --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-actionmanager --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-actionmanager --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-actionmanager --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-actionmanager --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-actionmanager --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-actionmanager --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:26:07+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package/oozie_app/version.properties ] (for module dhp-actionmanager )... [info] dhp-actionmanager ] project dhp-actionmanager [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-actionmanager --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 9 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 9 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-actionmanager --- [INFO] Total Files Processed: 9 in 00:00.480 [INFO] Already Sorted: 9 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-actionmanager --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 12 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-actionmanager --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-actionmanager --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 5 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-actionmanager --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 35 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-actionmanager --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 4 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-actionmanager --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-actionmanager --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-actionmanager --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-actionmanager --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-actionmanager --- [INFO] Priming eu/dnetlib/dhp/actionmanager/wf/main into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-actionmanager --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-actionmanager --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-actionmanager --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-actionmanager --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/dhp-actionmanager-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-actionmanager --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-actionmanager --- [INFO] Executing tasks [copy] Copying 9 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package/oozie_app/lib [copy] Copying 74 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-actionmanager/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-actionmanager --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-actionmanager --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-actionmanager --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/actionmanager/wf/main/2024-01-11_21_26/oozie_app + hadoop fs -rm -r /user/git.dnet/actionmanager/wf/main 24/01/11 21:26:23 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/actionmanager/wf/main' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/actionmanager/wf/main + hadoop fs -mkdir -p /user/git.dnet/actionmanager/wf/main + hadoop fs -mkdir -p /user/git.dnet/actionmanager/wf/main/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/actionmanager/wf/main/2024-01-11_21_26/oozie_app /user/git.dnet/actionmanager/wf/main [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 28.631 s [INFO] Finished at: 2024-01-11T21:26:33Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh actionmanager/wf/main /lib/dnet/BETA actionmanager/wf/main + app_dir=actionmanager/wf/main + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=actionmanager/wf/main ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/actionmanager/wf/main/oozie_app + hdfs_target_dir=/lib/dnet/BETA/actionmanager/wf/main + hdfs dfs -rm -r -f /lib/dnet/BETA/actionmanager/wf/main 24/01/11 21:26:35 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/actionmanager/wf/main' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/actionmanager/wf/main + hdfs dfs -mkdir -p /lib/dnet/BETA/actionmanager/wf/main + hdfs dfs -mv /user/git.dnet/actionmanager/wf/main/oozie_app /lib/dnet/BETA/actionmanager/wf/main [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 28184 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (duplicateScan) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config3994668423402649406tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config3994668423402649406tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-EOe4r2G2kLeN/agent.28312 SSH_AGENT_PID=28314 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7652639904048974685.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-dedup-openaire + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/dedup/scan -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-dedup-openaire >------------------ [INFO] Building dhp-dedup-openaire 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-dedup-openaire --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-dedup-openaire --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/.scalafmt.conf [INFO] Scalafmt results: 0 of 1 were unformatted Details: Correctly formatted: ConnectedComponent.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-dedup-openaire --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-dedup-openaire --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-dedup-openaire --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-dedup-openaire --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-dedup-openaire --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:26:49+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/version.properties ] (for module dhp-dedup-openaire )... [info] dhp-dedup-openaire ] project dhp-dedup-openaire [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 1 Scala source and 23 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 33 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 33 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-dedup-openaire --- [INFO] Total Files Processed: 33 in 00:00.580 [INFO] Already Sorted: 33 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 20 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-dedup-openaire --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 23 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 59 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 10 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes ... [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 10 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-dedup-openaire --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-dedup-openaire --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-dedup-openaire --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-dedup-openaire --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-dedup-openaire --- [INFO] Priming eu/dnetlib/dhp/oa/dedup/scan into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-dedup-openaire --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-dedup-openaire --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-dedup-openaire --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-dedup-openaire --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-dedup-openaire --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-dedup-openaire --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [copy] Copying 77 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-dedup-openaire --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-dedup-openaire --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-dedup-openaire --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/dedup/scan/2024-01-11_21_26/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/dedup/scan 24/01/11 21:27:15 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/dedup/scan' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/dedup/scan + hadoop fs -mkdir -p /user/git.dnet/oa/dedup/scan + hadoop fs -mkdir -p /user/git.dnet/oa/dedup/scan/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/dedup/scan/2024-01-11_21_26/oozie_app /user/git.dnet/oa/dedup/scan [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 42.231 s [INFO] Finished at: 2024-01-11T21:27:25Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/dedup/scan /lib/dnet/BETA oa/dedup/scan + app_dir=oa/dedup/scan + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/dedup/scan ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/dedup/scan/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/dedup/scan + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/dedup/scan 24/01/11 21:27:27 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/dedup/scan' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/dedup/scan + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/dedup/scan + hdfs dfs -mv /user/git.dnet/oa/dedup/scan/oozie_app /lib/dnet/BETA/oa/dedup/scan [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 28314 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (dedup_openorgs) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5865261062618978139tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5865261062618978139tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-pyZWE0DSBnvg/agent.28468 SSH_AGENT_PID=28470 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7296526720495580492.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-dedup-openaire + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/dedup/openorgs -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-dedup-openaire >------------------ [INFO] Building dhp-dedup-openaire 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-dedup-openaire --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-dedup-openaire --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/.scalafmt.conf [INFO] Scalafmt results: 0 of 1 were unformatted Details: Correctly formatted: ConnectedComponent.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-dedup-openaire --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-dedup-openaire --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-dedup-openaire --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-dedup-openaire --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-dedup-openaire --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:27:41+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/version.properties ] (for module dhp-dedup-openaire )... [info] dhp-dedup-openaire ] project dhp-dedup-openaire [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 1 Scala source and 23 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 33 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 33 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-dedup-openaire --- [INFO] Total Files Processed: 33 in 00:00.471 [INFO] Already Sorted: 33 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 20 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-dedup-openaire --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 23 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 59 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 10 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes ... [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 10 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-dedup-openaire --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-dedup-openaire --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-dedup-openaire --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-dedup-openaire --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-dedup-openaire --- [INFO] Priming eu/dnetlib/dhp/oa/dedup/openorgs into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-dedup-openaire --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-dedup-openaire --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-dedup-openaire --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-dedup-openaire --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-dedup-openaire --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-dedup-openaire --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [copy] Copying 77 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-dedup-openaire --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-dedup-openaire --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-dedup-openaire --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/dedup/openorgs/2024-01-11_21_27/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/dedup/openorgs 24/01/11 21:28:08 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/dedup/openorgs' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/dedup/openorgs + hadoop fs -mkdir -p /user/git.dnet/oa/dedup/openorgs + hadoop fs -mkdir -p /user/git.dnet/oa/dedup/openorgs/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/dedup/openorgs/2024-01-11_21_27/oozie_app /user/git.dnet/oa/dedup/openorgs [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 43.923 s [INFO] Finished at: 2024-01-11T21:28:18Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/dedup/openorgs /lib/dnet/BETA oa/dedup_openorgs + app_dir=oa/dedup/openorgs + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/dedup_openorgs ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/dedup/openorgs/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/dedup_openorgs + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/dedup_openorgs 24/01/11 21:28:21 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/dedup_openorgs' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/dedup_openorgs + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/dedup_openorgs + hdfs dfs -mv /user/git.dnet/oa/dedup/openorgs/oozie_app /lib/dnet/BETA/oa/dedup_openorgs [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 28470 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (dedupConsistency) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config8013664342261974373tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config8013664342261974373tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-MAiYRZXWKuXB/agent.28645 SSH_AGENT_PID=28647 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_5125278570393746660.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-dedup-openaire + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/dedup/consistency -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-dedup-openaire >------------------ [INFO] Building dhp-dedup-openaire 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-dedup-openaire --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-dedup-openaire --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/.scalafmt.conf [INFO] Scalafmt results: 0 of 1 were unformatted Details: Correctly formatted: ConnectedComponent.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-dedup-openaire --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-dedup-openaire --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-dedup-openaire --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-dedup-openaire --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-dedup-openaire --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:28:34+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/version.properties ] (for module dhp-dedup-openaire )... [info] dhp-dedup-openaire ] project dhp-dedup-openaire [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 1 Scala source and 23 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/DedupRecordFactory.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 33 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 33 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-dedup-openaire --- [INFO] Total Files Processed: 33 in 00:00.475 [INFO] Already Sorted: 33 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 20 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-dedup-openaire --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 23 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/src/main/java/eu/dnetlib/dhp/oa/dedup/SparkUpdateEntity.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-dedup-openaire --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 59 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-dedup-openaire --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 10 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes ... [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-dedup-openaire --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 10 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-dedup-openaire --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-dedup-openaire --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-dedup-openaire --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-dedup-openaire --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-dedup-openaire --- [INFO] Priming eu/dnetlib/dhp/oa/dedup/consistency into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-dedup-openaire --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-dedup-openaire --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-dedup-openaire --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-dedup-openaire --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/dhp-dedup-openaire-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-dedup-openaire --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-dedup-openaire --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [copy] Copying 77 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-dedup-openaire/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-dedup-openaire --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-dedup-openaire --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-dedup-openaire --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/dedup/consistency/2024-01-11_21_28/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/dedup/consistency 24/01/11 21:29:01 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/dedup/consistency' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/dedup/consistency + hadoop fs -mkdir -p /user/git.dnet/oa/dedup/consistency + hadoop fs -mkdir -p /user/git.dnet/oa/dedup/consistency/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/dedup/consistency/2024-01-11_21_28/oozie_app /user/git.dnet/oa/dedup/consistency [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 43.615 s [INFO] Finished at: 2024-01-11T21:29:11Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/dedup/consistency /lib/dnet/BETA oa/dedup/consistency + app_dir=oa/dedup/consistency + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/dedup/consistency ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/dedup/consistency/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/dedup/consistency + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/dedup/consistency 24/01/11 21:29:14 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/dedup/consistency' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/dedup/consistency + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/dedup/consistency + hdfs dfs -mv /user/git.dnet/oa/dedup/consistency/oozie_app /lib/dnet/BETA/oa/dedup/consistency [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 28647 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (bipIndicators) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2943248230338454167tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2943248230338454167tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-f1q6l6kiH3sG/agent.28841 SSH_AGENT_PID=28843 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_8788127865920282665.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-impact-indicators + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/impact_indicators -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ----------------< eu.dnetlib.dhp:dhp-impact-indicators >---------------- [INFO] Building dhp-impact-indicators 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-impact-indicators --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-impact-indicators --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-impact-indicators --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-impact-indicators --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-impact-indicators --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-impact-indicators --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-impact-indicators --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:29:24+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/version.properties ] (for module dhp-impact-indicators )... [info] dhp-impact-indicators ] project dhp-impact-indicators [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-impact-indicators --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-impact-indicators --- [INFO] Total Files Processed: 0 in 00:00.003 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-impact-indicators --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 9 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-impact-indicators --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-impact-indicators --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-impact-indicators --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-impact-indicators --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-impact-indicators --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-impact-indicators --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-impact-indicators --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-impact-indicators --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-impact-indicators --- [INFO] Priming eu/dnetlib/dhp/oa/graph/impact_indicators into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-impact-indicators --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-impact-indicators --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/primed/job.properties [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-impact-indicators --- [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/job.properties [INFO] [INFO] --- maven-scm-plugin:1.8.1:checkout (checkout-bip-ranker) @ dhp-impact-indicators --- [INFO] Removing /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app && git clone --branch v1.0.0 https://github.com/athenarc/Bip-Ranker.git /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app [INFO] Executing: /bin/sh -c cd /tmp && git ls-remote https://github.com/athenarc/Bip-Ranker.git [INFO] Working directory: /tmp [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker && git fetch https://github.com/athenarc/Bip-Ranker.git [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker && git checkout v1.0.0 [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] Executing: /bin/sh -c cd /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker && git ls-files [INFO] Working directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/bip-ranker [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-impact-indicators --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/dhp-impact-indicators-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-impact-indicators --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-impact-indicators --- [INFO] Executing tasks [copy] Copying 8 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/lib [copy] Copying 83 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-impact-indicators/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-impact-indicators --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-impact-indicators --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-impact-indicators --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/impact_indicators/2024-01-11_21_29/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/impact_indicators 24/01/11 21:29:40 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/impact_indicators' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/impact_indicators + hadoop fs -mkdir -p /user/git.dnet/oa/graph/impact_indicators + hadoop fs -mkdir -p /user/git.dnet/oa/graph/impact_indicators/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/impact_indicators/2024-01-11_21_29/oozie_app /user/git.dnet/oa/graph/impact_indicators [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 31.491 s [INFO] Finished at: 2024-01-11T21:29:52Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/impact_indicators /lib/dnet/BETA oa/graph/impact_indicators + app_dir=oa/graph/impact_indicators + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/impact_indicators ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/impact_indicators/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/impact_indicators + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/impact_indicators 24/01/11 21:29:55 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/impact_indicators' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/impact_indicators + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/impact_indicators + hdfs dfs -mv /user/git.dnet/oa/graph/impact_indicators/oozie_app /lib/dnet/BETA/oa/graph/impact_indicators [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 28843 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (graphCleaning) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config605148517036401929tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config605148517036401929tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-xbbmYLZKFX80/agent.29001 SSH_AGENT_PID=29003 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_1908729980561874813.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/clean -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:30:10+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.562 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/clean into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/clean/2024-01-11_21_30/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/clean 24/01/11 21:30:49 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/clean' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/clean + hadoop fs -mkdir -p /user/git.dnet/oa/graph/clean + hadoop fs -mkdir -p /user/git.dnet/oa/graph/clean/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/clean/2024-01-11_21_30/oozie_app /user/git.dnet/oa/graph/clean [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 56.947 s [INFO] Finished at: 2024-01-11T21:30:59Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/clean /lib/dnet/BETA oa/graph/clean + app_dir=oa/graph/clean + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/clean ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/clean/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/clean + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/clean 24/01/11 21:31:02 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/clean' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/clean + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/clean + hdfs dfs -mv /user/git.dnet/oa/graph/clean/oozie_app /lib/dnet/BETA/oa/graph/clean [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 29003 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (graph_resolution) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5681233201995402524tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5681233201995402524tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-ewQjnVQOsYt2/agent.29198 SSH_AGENT_PID=29200 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7166692003794436762.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/resolution -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:31:17+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.552 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/resolution into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/resolution/2024-01-11_21_31/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/resolution 24/01/11 21:31:57 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/resolution' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/resolution + hadoop fs -mkdir -p /user/git.dnet/oa/graph/resolution + hadoop fs -mkdir -p /user/git.dnet/oa/graph/resolution/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/resolution/2024-01-11_21_31/oozie_app /user/git.dnet/oa/graph/resolution [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 58.940 s [INFO] Finished at: 2024-01-11T21:32:07Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/resolution /lib/dnet/BETA oa/graph/resolution + app_dir=oa/graph/resolution + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/resolution ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/resolution/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/resolution + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/resolution 24/01/11 21:32:10 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/resolution' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/resolution + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/resolution + hdfs dfs -mv /user/git.dnet/oa/graph/resolution/oozie_app /lib/dnet/BETA/oa/graph/resolution [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 29200 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (graph_grouping) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5771804854851667456tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5771804854851667456tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-pE2SlwCZz6XH/agent.29382 SSH_AGENT_PID=29384 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_6696205694761140407.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/group -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:32:25+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.518 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/group into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/group/2024-01-11_21_32/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/group 24/01/11 21:33:04 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/group' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/group + hadoop fs -mkdir -p /user/git.dnet/oa/graph/group + hadoop fs -mkdir -p /user/git.dnet/oa/graph/group/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/group/2024-01-11_21_32/oozie_app /user/git.dnet/oa/graph/group [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 57.038 s [INFO] Finished at: 2024-01-11T21:33:14Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/group /lib/dnet/BETA oa/graph/group + app_dir=oa/graph/group + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/group ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/group/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/group + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/group 24/01/11 21:33:17 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/group' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/group + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/group + hdfs dfs -mv /user/git.dnet/oa/graph/group/oozie_app /lib/dnet/BETA/oa/graph/group [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 29384 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (orcidEnrichment) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config7499034068755766036tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config7499034068755766036tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-Nl8mxJyt3sIl/agent.29574 SSH_AGENT_PID=29576 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_3821508689328730134.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/enrich/orcid -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:33:32+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.587 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/enrich/orcid into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/enrich/orcid/2024-01-11_21_33/oozie_app + hadoop fs -rm -r /user/git.dnet/enrich/orcid 24/01/11 21:34:11 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/enrich/orcid' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/enrich/orcid + hadoop fs -mkdir -p /user/git.dnet/enrich/orcid + hadoop fs -mkdir -p /user/git.dnet/enrich/orcid/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/enrich/orcid/2024-01-11_21_33/oozie_app /user/git.dnet/enrich/orcid [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 56.970 s [INFO] Finished at: 2024-01-11T21:34:21Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh enrich/orcid /lib/dnet/BETA oa/enrichment/orcid + app_dir=enrich/orcid + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/enrichment/orcid ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/enrich/orcid/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/enrichment/orcid + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/enrichment/orcid + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/enrichment/orcid + hdfs dfs -mv /user/git.dnet/enrich/orcid/oozie_app /lib/dnet/BETA/oa/enrichment/orcid [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 29576 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (enrichment_main) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config102642123667485269tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config102642123667485269tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-6QuT9BIzKQXy/agent.29802 SSH_AGENT_PID=29804 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_2017296567121865578.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-enrichment + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/wf/main -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] -------------------< eu.dnetlib.dhp:dhp-enrichment >-------------------- [INFO] Building dhp-enrichment 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-enrichment --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-enrichment --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-enrichment --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-enrichment --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-enrichment --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-enrichment --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-enrichment --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:34:34+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package/oozie_app/version.properties ] (for module dhp-enrichment )... [info] dhp-enrichment ] project dhp-enrichment [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-enrichment --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 89 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 89 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-enrichment --- [INFO] Total Files Processed: 89 in 00:00.675 [INFO] Already Sorted: 89 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-enrichment --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 43 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-enrichment --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-enrichment --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 75 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/criteria/VerbResolver.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/bulktag/criteria/VerbResolver.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-enrichment --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 122 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-enrichment --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 14 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-enrichment --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-enrichment --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-enrichment --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-enrichment --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-enrichment --- [INFO] Priming eu/dnetlib/dhp/wf/main into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-enrichment --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-enrichment --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/primed/job.properties [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-enrichment --- [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-enrichment --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/dhp-enrichment-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-enrichment --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-enrichment --- [INFO] Executing tasks [copy] Copying 20 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package/oozie_app/lib [copy] Copying 84 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-enrichment/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-enrichment --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-enrichment --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-enrichment --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/wf/main/2024-01-11_21_34/oozie_app + hadoop fs -rm -r /user/git.dnet/wf/main rm: `/user/git.dnet/wf/main': No such file or directory + hadoop fs -mkdir -p /user/git.dnet/wf/main + hadoop fs -mkdir -p /user/git.dnet/wf/main/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/wf/main/2024-01-11_21_34/oozie_app /user/git.dnet/wf/main [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 31.784 s [INFO] Finished at: 2024-01-11T21:35:02Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh wf/main /lib/dnet/BETA oa/enrichment/main + app_dir=wf/main + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/enrichment/main ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/wf/main/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/enrichment/main + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/enrichment/main + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/enrichment/main + hdfs dfs -mv /user/git.dnet/wf/main/oozie_app /lib/dnet/BETA/oa/enrichment/main [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 29804 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (blacklistRelations) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config646213709392849519tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config646213709392849519tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-A2tNuY5OocRL/agent.29949 SSH_AGENT_PID=29951 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_3703430763864574872.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-blacklist + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/blacklist -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] --------------------< eu.dnetlib.dhp:dhp-blacklist >-------------------- [INFO] Building dhp-blacklist 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-blacklist --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-blacklist --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-blacklist --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-blacklist --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-blacklist --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-blacklist --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-blacklist --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:35:15+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package/oozie_app/version.properties ] (for module dhp-blacklist )... [info] dhp-blacklist ] project dhp-blacklist [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-blacklist --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 5 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 5 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-blacklist --- [INFO] Total Files Processed: 5 in 00:00.321 [INFO] Already Sorted: 5 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-blacklist --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 5 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-blacklist --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-blacklist --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 3 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-blacklist --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 6 resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-blacklist --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 2 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-blacklist --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-blacklist --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-blacklist --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-blacklist --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-blacklist --- [INFO] Priming eu/dnetlib/dhp/blacklist into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-blacklist --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-blacklist --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-blacklist --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-blacklist --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/dhp-blacklist-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-blacklist --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-blacklist --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package/oozie_app/lib [copy] Copying 69 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-blacklist/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-blacklist --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-blacklist --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-blacklist --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/blacklist/2024-01-11_21_35/oozie_app + hadoop fs -rm -r /user/git.dnet/blacklist 24/01/11 21:35:27 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/blacklist' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/blacklist + hadoop fs -mkdir -p /user/git.dnet/blacklist + hadoop fs -mkdir -p /user/git.dnet/blacklist/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/blacklist/2024-01-11_21_35/oozie_app /user/git.dnet/blacklist [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 25.420 s [INFO] Finished at: 2024-01-11T21:35:37Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh blacklist /lib/dnet/BETA oa/enrichment/blacklist + app_dir=blacklist + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/enrichment/blacklist ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/blacklist/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/enrichment/blacklist + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/enrichment/blacklist + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/enrichment/blacklist + hdfs dfs -mv /user/git.dnet/blacklist/oozie_app /lib/dnet/BETA/oa/enrichment/blacklist [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 29951 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (graph2hive) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5280879161362150564tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config5280879161362150564tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-LFlXZC81BaA0/agent.30074 SSH_AGENT_PID=30076 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7922172169440671505.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/hive -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:35:55+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.563 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/oa/graph/hive into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 4 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/hive/2024-01-11_21_35/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/hive 24/01/11 21:36:33 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/hive' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/hive + hadoop fs -mkdir -p /user/git.dnet/oa/graph/hive + hadoop fs -mkdir -p /user/git.dnet/oa/graph/hive/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/hive/2024-01-11_21_35/oozie_app /user/git.dnet/oa/graph/hive [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 56.221 s [INFO] Finished at: 2024-01-11T21:36:43Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/hive /lib/dnet/BETA oa/graph/hive + app_dir=oa/graph/hive + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/hive ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/hive/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/hive + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/hive 24/01/11 21:36:46 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/hive' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/hive + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/hive + hdfs dfs -mv /user/git.dnet/oa/graph/hive/oozie_app /lib/dnet/BETA/oa/graph/hive [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 30076 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (updateStatsDB) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2869898971338470430tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2869898971338470430tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-jQ2EsPHenaeE/agent.30288 SSH_AGENT_PID=30290 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_2430461675167028896.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-stats-update + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/stats -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-stats-update >------------------- [INFO] Building dhp-stats-update 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-stats-update --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-stats-update --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-stats-update --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-stats-update --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-stats-update --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-stats-update --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-stats-update --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:36:56+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package/oozie_app/version.properties ] (for module dhp-stats-update )... [info] dhp-stats-update ] project dhp-stats-update [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-stats-update --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-stats-update --- [INFO] Total Files Processed: 0 in 00:00.003 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-stats-update --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 39 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-stats-update --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-stats-update --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-stats-update --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-stats-update --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-stats-update --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-stats-update --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-stats-update --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-stats-update --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-stats-update --- [INFO] Priming eu/dnetlib/dhp/oa/graph/stats into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-stats-update --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-stats-update --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-stats-update --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-stats-update --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/dhp-stats-update-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-stats-update --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-stats-update --- [INFO] Executing tasks [copy] Copying 39 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-update/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-stats-update --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-stats-update --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-stats-update --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/stats/2024-01-11_21_36/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/stats 24/01/11 21:37:02 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/stats' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/stats + hadoop fs -mkdir -p /user/git.dnet/oa/graph/stats + hadoop fs -mkdir -p /user/git.dnet/oa/graph/stats/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/stats/2024-01-11_21_36/oozie_app /user/git.dnet/oa/graph/stats [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 17.041 s [INFO] Finished at: 2024-01-11T21:37:10Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/stats /lib/dnet/BETA oa/graph/stats_update + app_dir=oa/graph/stats + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/stats_update ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/stats/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/stats_update + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/stats_update 24/01/11 21:37:12 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/stats_update' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/stats_update + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/stats_update + hdfs dfs -mv /user/git.dnet/oa/graph/stats/oozie_app /lib/dnet/BETA/oa/graph/stats_update [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 30290 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (promoteStatsDB) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config6665243016708580787tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config6665243016708580787tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-m0VvZQCObPFm/agent.30397 SSH_AGENT_PID=30399 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_7084347689149075884.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-stats-promote + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/graph/stats -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-stats-promote >------------------ [INFO] Building dhp-stats-promote 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-stats-promote --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-stats-promote --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-stats-promote --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-stats-promote --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-stats-promote --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-stats-promote --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-stats-promote --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:37:22+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package/oozie_app/version.properties ] (for module dhp-stats-promote )... [info] dhp-stats-promote ] project dhp-stats-promote [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-stats-promote --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 0 [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-stats-promote --- [INFO] Total Files Processed: 0 in 00:00.003 [INFO] Already Sorted: 0 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-stats-promote --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 5 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-stats-promote --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-stats-promote --- [INFO] No sources to compile [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-stats-promote --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-stats-promote --- [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-stats-promote --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-stats-promote --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-stats-promote --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-stats-promote --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-stats-promote --- [INFO] Priming eu/dnetlib/dhp/oa/graph/stats into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-stats-promote --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-stats-promote --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-stats-promote --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-stats-promote --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/dhp-stats-promote-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-stats-promote --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-stats-promote --- [INFO] Executing tasks [copy] Copying 5 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-stats-promote/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-stats-promote --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-stats-promote --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-stats-promote --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/graph/stats/2024-01-11_21_37/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/graph/stats 24/01/11 21:37:28 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/graph/stats' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/graph/stats1705009048383 + hadoop fs -mkdir -p /user/git.dnet/oa/graph/stats + hadoop fs -mkdir -p /user/git.dnet/oa/graph/stats/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/graph/stats/2024-01-11_21_37/oozie_app /user/git.dnet/oa/graph/stats [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 15.691 s [INFO] Finished at: 2024-01-11T21:37:35Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/graph/stats /lib/dnet/BETA oa/graph/stats_promote + app_dir=oa/graph/stats + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/graph/stats_promote ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/graph/stats/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/graph/stats_promote + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/graph/stats_promote 24/01/11 21:37:37 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/graph/stats_promote' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/graph/stats_promote + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/graph/stats_promote + hdfs dfs -mv /user/git.dnet/oa/graph/stats/oozie_app /lib/dnet/BETA/oa/graph/stats_promote [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 30399 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (updateSolr) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config8278186688525548246tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config8278186688525548246tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-yvwaBM21Ve1O/agent.30508 SSH_AGENT_PID=30510 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_3548053673711401827.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-provision + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/oa/provision -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-graph-provision >----------------- [INFO] Building dhp-graph-provision 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-provision --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-provision --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-provision --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-provision --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-provision --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-provision --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-provision --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:37:47+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-provision )... [info] dhp-graph-provision ] project dhp-graph-provision [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-provision --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-provision --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 31 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java:-1: Some input files use or override a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/CreateRelatedEntitiesJob_phase2.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/CreateRelatedEntitiesJob_phase2.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 42 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 42 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-provision --- [INFO] Total Files Processed: 42 in 00:00.505 [INFO] Already Sorted: 42 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 23 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-provision --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-provision --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 31 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java: Some input files use or override a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlSerializationUtils.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlSerializationUtils.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 119 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-provision --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 11 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/IndexRecordTransformerTest.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/IndexRecordTransformerTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-provision --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 11 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-provision --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-provision --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-provision --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-provision --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-provision --- [INFO] Priming eu/dnetlib/dhp/oa/provision into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-provision --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-provision --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-provision --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-provision --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/dhp-graph-provision-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-provision --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-provision --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/lib [copy] Copying 85 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-provision --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-provision --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-provision --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/oa/provision/2024-01-11_21_37/oozie_app + hadoop fs -rm -r /user/git.dnet/oa/provision 24/01/11 21:38:09 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/oa/provision' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/oa/provision + hadoop fs -mkdir -p /user/git.dnet/oa/provision + hadoop fs -mkdir -p /user/git.dnet/oa/provision/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/oa/provision/2024-01-11_21_37/oozie_app /user/git.dnet/oa/provision [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 34.665 s [INFO] Finished at: 2024-01-11T21:38:19Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh oa/provision /lib/dnet/BETA oa/provision + app_dir=oa/provision + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/provision ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/oa/provision/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/provision + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/provision 24/01/11 21:38:21 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/provision' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/provision + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/provision + hdfs dfs -mv /user/git.dnet/oa/provision/oozie_app /lib/dnet/BETA/oa/provision [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 30510 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (createBrokerEvents) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config3625389651671048497tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config3625389651671048497tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-yDall6jWYoZw/agent.30688 SSH_AGENT_PID=30690 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_2159488295210633495.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-broker-events + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/broker/oa/generate_all -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-broker-events >------------------ [INFO] Building dhp-broker-events 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-broker-events --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-broker-events --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-broker-events --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-broker-events --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-broker-events --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-broker-events --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-broker-events --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:38:32+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package/oozie_app/version.properties ] (for module dhp-broker-events )... [info] dhp-broker-events ] project dhp-broker-events [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-broker-events --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 87 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 87 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-broker-events --- [INFO] Total Files Processed: 87 in 00:00.563 [INFO] Already Sorted: 87 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-broker-events --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 20 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-broker-events --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-broker-events --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 80 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/classes [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-broker-events --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-broker-events --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 7 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/test-classes [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-broker-events --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-broker-events --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-broker-events --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-broker-events --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-broker-events --- [INFO] Priming eu/dnetlib/dhp/broker/oa/generate_all into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-broker-events --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-broker-events --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-broker-events --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-broker-events --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/dhp-broker-events-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-broker-events --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-broker-events --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package/oozie_app/lib [copy] Copying 74 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-broker-events/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-broker-events --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-broker-events --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-broker-events --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/broker/oa/generate_all/2024-01-11_21_38/oozie_app + hadoop fs -rm -r /user/git.dnet/broker/oa/generate_all 24/01/11 21:38:47 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/broker/oa/generate_all' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/broker/oa/generate_all + hadoop fs -mkdir -p /user/git.dnet/broker/oa/generate_all + hadoop fs -mkdir -p /user/git.dnet/broker/oa/generate_all/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/broker/oa/generate_all/2024-01-11_21_38/oozie_app /user/git.dnet/broker/oa/generate_all [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 28.103 s [INFO] Finished at: 2024-01-11T21:38:57Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh broker/oa/generate_all /lib/dnet/BETA oa/broker/generate_events + app_dir=broker/oa/generate_all + hdfs_target_root_dir=/lib/dnet/BETA + app_target_dir=oa/broker/generate_events ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/broker/oa/generate_all/oozie_app + hdfs_target_dir=/lib/dnet/BETA/oa/broker/generate_events + hdfs dfs -rm -r -f /lib/dnet/BETA/oa/broker/generate_events 24/01/11 21:38:59 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/oa/broker/generate_events' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/oa/broker/generate_events + hdfs dfs -mkdir -p /lib/dnet/BETA/oa/broker/generate_events + hdfs dfs -mv /user/git.dnet/broker/oa/generate_all/oozie_app /lib/dnet/BETA/oa/broker/generate_events [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 30690 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (createFinalGraph) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config4131163975318726895tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config4131163975318726895tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-6iP53LLfVieS/agent.30841 SSH_AGENT_PID=30843 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_3847076967341426327.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/sx/graph/finalGraph -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:39:15+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.609 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/sx/graph/finalGraph into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/sx/graph/finalGraph/2024-01-11_21_39/oozie_app + hadoop fs -rm -r /user/git.dnet/sx/graph/finalGraph 24/01/11 21:39:54 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/sx/graph/finalGraph' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/sx/graph/finalGraph + hadoop fs -mkdir -p /user/git.dnet/sx/graph/finalGraph + hadoop fs -mkdir -p /user/git.dnet/sx/graph/finalGraph/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/sx/graph/finalGraph/2024-01-11_21_39/oozie_app /user/git.dnet/sx/graph/finalGraph [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 57.197 s [INFO] Finished at: 2024-01-11T21:40:04Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh sx/graph/finalGraph /lib/dnet/BETA/scholix sx/graph/finalGraph + app_dir=sx/graph/finalGraph + hdfs_target_root_dir=/lib/dnet/BETA/scholix + app_target_dir=sx/graph/finalGraph ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/sx/graph/finalGraph/oozie_app + hdfs_target_dir=/lib/dnet/BETA/scholix/sx/graph/finalGraph + hdfs dfs -rm -r -f /lib/dnet/BETA/scholix/sx/graph/finalGraph 24/01/11 21:40:06 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/scholix/sx/graph/finalGraph' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/scholix/sx/graph/finalGraph + hdfs dfs -mkdir -p /lib/dnet/BETA/scholix/sx/graph/finalGraph + hdfs dfs -mv /user/git.dnet/sx/graph/finalGraph/oozie_app /lib/dnet/BETA/scholix/sx/graph/finalGraph [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 30843 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (indexScholexplorer) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2147170487665665547tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2147170487665665547tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-pU6rH55YxFst/agent.31028 SSH_AGENT_PID=31030 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_3580691406900995626.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-provision + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/sx/provision -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] -----------------< eu.dnetlib.dhp:dhp-graph-provision >----------------- [INFO] Building dhp-graph-provision 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-provision --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-provision --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/.scalafmt.conf [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/scala [WARNING] Could not locate Scala source at /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/scala [INFO] Scalafmt results: 0 of 0 were unformatted Details: [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-provision --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-provision --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-provision --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-provision --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-provision --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:40:17+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-provision )... [info] dhp-graph-provision ] project dhp-graph-provision [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-provision --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-provision --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 31 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java:-1: Some input files use or override a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/CreateRelatedEntitiesJob_phase2.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/CreateRelatedEntitiesJob_phase2.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 42 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 42 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 1s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-provision --- [INFO] Total Files Processed: 42 in 00:00.548 [INFO] Already Sorted: 42 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 23 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-provision --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-provision --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 31 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java: Some input files use or override a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/RelationComparator.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlSerializationUtils.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/utils/XmlSerializationUtils.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-provision --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 119 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-provision --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 11 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/IndexRecordTransformerTest.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/IndexRecordTransformerTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-provision --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 11 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/src/test/java/eu/dnetlib/dhp/oa/provision/XmlRecordFactoryTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-provision --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-provision --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-provision --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-provision --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-provision --- [INFO] Priming eu/dnetlib/dhp/sx/provision into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-provision --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-provision --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-provision --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-provision --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/dhp-graph-provision-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-provision --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-provision --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/lib [copy] Copying 85 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-provision/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-provision --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-provision --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-provision --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/sx/provision/2024-01-11_21_40/oozie_app + hadoop fs -rm -r /user/git.dnet/sx/provision 24/01/11 21:40:39 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/sx/provision' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/sx/provision + hadoop fs -mkdir -p /user/git.dnet/sx/provision + hadoop fs -mkdir -p /user/git.dnet/sx/provision/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/sx/provision/2024-01-11_21_40/oozie_app /user/git.dnet/sx/provision [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 35.342 s [INFO] Finished at: 2024-01-11T21:40:49Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh sx/provision /lib/dnet/BETA/scholix sx/provision + app_dir=sx/provision + hdfs_target_root_dir=/lib/dnet/BETA/scholix + app_target_dir=sx/provision ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/sx/provision/oozie_app + hdfs_target_dir=/lib/dnet/BETA/scholix/sx/provision + hdfs dfs -rm -r -f /lib/dnet/BETA/scholix/sx/provision 24/01/11 21:40:51 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/scholix/sx/provision' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/scholix/sx/provision + hdfs dfs -mkdir -p /lib/dnet/BETA/scholix/sx/provision + hdfs dfs -mv /user/git.dnet/sx/provision/oozie_app /lib/dnet/BETA/scholix/sx/provision [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 31030 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (dumpScholexplorer) [Pipeline] configFileProvider provisioning config files... copy managed file [dnet-hadoop-build.properties] to file:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2695500117108174084tmp [Pipeline] { [Pipeline] load [Pipeline] { (/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/config2695500117108174084tmp) [Pipeline] } [Pipeline] // load [Pipeline] tool [Pipeline] tool [Pipeline] withEnv [Pipeline] { [Pipeline] sshagent [ssh-agent] Using credentials git.dnet (User for CI/CD) [ssh-agent] Looking for ssh-agent implementation... [ssh-agent] Exec ssh-agent (binary ssh-agent on a remote machine) $ ssh-agent SSH_AUTH_SOCK=/tmp/ssh-tG6iOkaIpwt0/agent.31200 SSH_AGENT_PID=31202 Running ssh-add (command line suppressed) Identity added: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/private_key_4613464209794293599.key (git.dnet) [ssh-agent] Started. [Pipeline] { [Pipeline] sh + cd dnet-hadoop/dhp-workflows/dhp-graph-mapper + mvn clean package -Poozie-package,deploy -Dworkflow.source.dir=eu/dnetlib/dhp/sx/graph/dumpScholix -DdhpConnectionProperties=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties -DskipTests -Dmaven.repo.local=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2 [INFO] Scanning for projects... [INFO] [INFO] ------------------< eu.dnetlib.dhp:dhp-graph-mapper >------------------- [INFO] Building dhp-graph-mapper 1.2.5-SNAPSHOT [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ dhp-graph-mapper --- [INFO] Deleting /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target [INFO] [INFO] --- mvn-scalafmt_2.11:1.0.1640073709.733712b:format (default) @ dhp-graph-mapper --- [INFO] Reading config from https://code-repo.d4science.org/D-Net/dnet-hadoop/raw/branch/beta/dhp-build/dhp-code-style/src/main/resources/scalafmt/scalafmt.conf [INFO] Writing remote config to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf IndentOperator: top-level presets deprecated; use 'preset' subsection DanglingParentheses: top-level presets deprecated; use 'preset' subsection [INFO] parsed config (v2.7.5): /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/.scalafmt.conf [INFO] Scalafmt results: 0 of 24 were unformatted Details: Correctly formatted: SparkApplyHostedByMapToResult.scala Correctly formatted: Aggregators.scala Correctly formatted: SparkApplyHostedByMapToDatasource.scala Correctly formatted: SparkPrepareHostedByInfoToApply.scala Correctly formatted: SparkProduceHostedByMap.scala Correctly formatted: CopyHdfsOafSparkApplication.scala Correctly formatted: SparkResolveEntities.scala Correctly formatted: SparkResolveRelation.scala Correctly formatted: SparkDataciteToOAF.scala Correctly formatted: SparkConvertDatasetToJsonRDD.scala Correctly formatted: SparkCreateScholix.scala Correctly formatted: SparkConvertObjectToJson.scala Correctly formatted: SparkCreateInputGraph.scala Correctly formatted: SparkCreateSummaryObject.scala Correctly formatted: SparkConvertRDDtoDataset.scala Correctly formatted: AuthorEnricher.scala Correctly formatted: SparkEnrichGraphWithOrcidAuthors.scala Correctly formatted: TestApply.scala Correctly formatted: TestPreprocess.scala Correctly formatted: TestPrepare.scala Correctly formatted: ResolveEntitiesTest.scala Correctly formatted: RetrieveDataciteDeltaTest.scala Correctly formatted: ScholixGraphTest.scala Correctly formatted: EnrichOrcidTest.scala [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:generate-properties (default) @ dhp-graph-mapper --- [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:prepare-agent (default-prepare-agent) @ dhp-graph-mapper --- [INFO] argLine set to -javaagent:/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/org/jacoco/org.jacoco.agent/0.7.9/org.jacoco.agent-0.7.9-runtime.jar=destfile=/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/jacoco.exec,excludes=**/schemas/*:**/com/cloudera/**/*:**/org/apache/avro/io/**/* [INFO] [INFO] --- maven-enforcer-plugin:1.4.1:enforce (enforce-connection-properties-file-existence) @ dhp-graph-mapper --- [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (reading-dhp-properties) @ dhp-graph-mapper --- [INFO] Loading /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/connection-properties/iis-cdh5-test-gw.properties [INFO] [INFO] --- git-commit-id-plugin:2.1.11:revision (default) @ dhp-graph-mapper --- [info] dotGitDirectory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/.git [info] git.build.user.name null [info] git.build.user.email null [info] Using environment variable based branch name. GIT_BRANCH = origin/master [info] git.branch origin/master [info] Tag refs [ [Ref[refs/tags/1.0.1=26bd6211a3c51d2d2358b6cc72004808d8e318ce], Ref[refs/tags/archive/bipFinder_master_test=d6686dd7cf7b73d5efa8b333aca59c54e83fcf0a], Ref[refs/tags/archive/dedupTest=36f8f2ea66412f909cd8983cc0718b0ab6e10641], Ref[refs/tags/archive/islookup_timeout=2c4196ab22872046d6d7ae994d70a5dc57e47e19], Ref[refs/tags/archive/junit5=9dff4adbc3d4bbc2d1a4587f5424d7b7190ace4d], Ref[refs/tags/archive/master_pre_stable_ids=ef612105ba883c9a4b12a35f62eec420185db0ef], Ref[refs/tags/dhp-1.0.2=fdf024d17efe96629fdcafc00888429233e8a42b], Ref[refs/tags/dhp-1.0.3=d9fdf571c86cfdbd27e1153c587a1da7f2525e33], Ref[refs/tags/dhp-1.0.4=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1], Ref[refs/tags/dhp-1.1.5=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570], Ref[refs/tags/dhp-1.1.6=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10], Ref[refs/tags/dhp-1.1.7=cb5f978660ee4bc6f8d547caf7709a5736a3a24d], Ref[refs/tags/dhp-1.2.0=85c96bd95517be30d93692630f29806f39c68b8c], Ref[refs/tags/dhp-1.2.1=2b632494536e76ba5b190d8bda8841e79b7a4704], Ref[refs/tags/dhp-1.2.2=40bb2202a2df622928ce367d205d2a3c18ec4000], Ref[refs/tags/dhp-1.2.3=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd], Ref[refs/tags/dhp-1.2.4=fdbee9aadd3ee119c777c94b53d762ece6352061], Ref[refs/tags/september-2023=77a21998373e4bfe909faaec599202514cfd5daa]] ] [info] Resolved tag [ 1.0.1 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 11:47:41 2019 +0100] ], points at [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ] [info] Resolved tag [ dhp-1.0.2 ] [ PersonIdent[sandro.labruzzo, sandro.labruzzo@isti.cnr.it, Thu Oct 31 12:08:50 2019 +0100] ], points at [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ] [info] Resolved tag [ dhp-1.0.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Nov 4 12:34:47 2019 +0100] ], points at [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ] [info] Resolved tag [ dhp-1.0.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Nov 7 17:39:28 2019 +0100] ], points at [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ] [info] Resolved tag [ dhp-1.1.5 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Feb 13 18:11:32 2020 +0100] ], points at [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ] [info] Resolved tag [ dhp-1.1.6 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Mar 30 20:05:58 2020 +0200] ], points at [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ] [info] Resolved tag [ dhp-1.1.7 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri May 8 17:01:29 2020 +0200] ], points at [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ] [info] Resolved tag [ dhp-1.2.0 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 11 10:17:12 2020 +0200] ], points at [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ] [info] Resolved tag [ dhp-1.2.1 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon May 25 19:48:16 2020 +0200] ], points at [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ] [info] Resolved tag [ dhp-1.2.2 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Fri Jun 12 12:21:05 2020 +0200] ], points at [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ] [info] Resolved tag [ dhp-1.2.3 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Mon Jun 22 11:27:41 2020 +0200] ], points at [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ] [info] Resolved tag [ dhp-1.2.4 ] [ PersonIdent[Claudio Atzori, claudio.atzori@isti.cnr.it, Thu Apr 7 13:32:21 2022 +0200] ], points at [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ] [info] key [ commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------ ], tags => [ [DatedRevTag{id=cb5f978660ee4bc6f8d547caf7709a5736a3a24d, tagName='dhp-1.1.7', date=May 8, 2020 3:01:29 PM +00:00}] ] [info] key [ commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------ ], tags => [ [DatedRevTag{id=40bb2202a2df622928ce367d205d2a3c18ec4000, tagName='dhp-1.2.2', date=June 12, 2020 10:21:05 AM +00:00}] ] [info] key [ commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------ ], tags => [ [DatedRevTag{id=13ba91334cb0bc12d3d4f059f6f0e3f10de220e1, tagName='dhp-1.0.4', date=November 7, 2019 4:39:28 PM +00:00}] ] [info] key [ commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------ ], tags => [ [DatedRevTag{id=eb2af119a744c2cd8a7ccbea73e76ab0240de8fd, tagName='dhp-1.2.3', date=June 22, 2020 9:27:41 AM +00:00}] ] [info] key [ commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------ ], tags => [ [DatedRevTag{id=9d28b5d7c56b368e7a84efd1ada56b27ac55bb10, tagName='dhp-1.1.6', date=March 30, 2020 6:05:58 PM +00:00}] ] [info] key [ commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------ ], tags => [ [DatedRevTag{id=85c96bd95517be30d93692630f29806f39c68b8c, tagName='dhp-1.2.0', date=May 11, 2020 8:17:12 AM +00:00}] ] [info] key [ commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------ ], tags => [ [DatedRevTag{id=d9fdf571c86cfdbd27e1153c587a1da7f2525e33, tagName='dhp-1.0.3', date=November 4, 2019 11:34:47 AM +00:00}] ] [info] key [ commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------ ], tags => [ [DatedRevTag{id=fdbee9aadd3ee119c777c94b53d762ece6352061, tagName='dhp-1.2.4', date=April 7, 2022 11:32:21 AM +00:00}] ] [info] key [ commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------ ], tags => [ [DatedRevTag{id=1406b298f27fc42fd5aeaf5be1b92c7bd2a61570, tagName='dhp-1.1.5', date=February 13, 2020 5:11:32 PM +00:00}] ] [info] key [ commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------ ], tags => [ [DatedRevTag{id=2b632494536e76ba5b190d8bda8841e79b7a4704, tagName='dhp-1.2.1', date=May 25, 2020 5:48:16 PM +00:00}] ] [info] key [ commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------ ], tags => [ [DatedRevTag{id=26bd6211a3c51d2d2358b6cc72004808d8e318ce, tagName='1.0.1', date=October 31, 2019 10:47:41 AM +00:00}] ] [info] key [ commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------ ], tags => [ [DatedRevTag{id=fdf024d17efe96629fdcafc00888429233e8a42b, tagName='dhp-1.0.2', date=October 31, 2019 11:08:50 AM +00:00}] ] [info] Created map: [ {commit 6e47c724c6fdd9ed34c510af4e2e69ceb3e0dbc3 0 ------=[dhp-1.1.7], commit f0746a76055527b5b4855af4533bebe76f4e7c30 0 ------=[dhp-1.2.2], commit 58918967d9a8880bbd409b62e256b443f16e2d4d 0 ------=[dhp-1.0.4], commit 1e3dab06318516b1eda81fe42dd370aa2c726d0b 0 ------=[dhp-1.2.3], commit 76d9315129ba009ca020a79e34ff6ec07f0e2560 0 ------=[dhp-1.1.6], commit c267d958d5e82abe44680740533c7dcfb48057c0 0 ------=[dhp-1.2.0], commit 34b0e7b40a9a4bb21ab1df6263a7130422b1b8d3 0 ------=[dhp-1.0.3], commit 86585a6b274ad8e0beaa9e7f43d123b7320739be 0 ------=[dhp-1.2.4], commit 6ed9a15bc8319f1d19453f49119bd19a29defb46 0 ------=[dhp-1.1.5], commit 01c2e933958a17d6a23b150d5d8fdccf371baf09 0 ------=[dhp-1.2.1], commit 3150c7ce6d7607bbd302f0a4967aa165fddaef84 0 ------=[1.0.1], commit f224613b402ede31257601bdf7d81f30e081c4d3 0 ------=[dhp-1.0.2]} ] [info] HEAD is [ c67467723b010a385c234fc015d47023f2e852a1 ] [info] Repo is in dirty state [ true ] [info] git.commit.id.describe dhp-1.2.4-1136-gc674677 [info] git.commit.id c67467723b010a385c234fc015d47023f2e852a1 [info] git.commit.id.abbrev c674677 [info] git.commit.user.name Claudio Atzori [info] git.commit.user.email claudio.atzori@isti.cnr.it [info] git.commit.message.full Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta Reviewed-on: https://code-repo.d4science.org/D-Net/dnet-hadoop/pulls/374 [info] git.commit.message.short Merge pull request 'refined mapping for the extraction of the original resource type' (#374) from resource_types into beta [info] git.commit.time 2024-01-11T15:29:47+0000 [info] git.remote.origin.url https://code-repo.d4science.org/D-Net/dnet-hadoop [info] git.tags [info] git.build.time 2024-01-11T21:41:06+0000 [info] git.commit.id.describe-short dhp-1.2.4-1136 [info] found property git.tags [info] found property git.commit.id.abbrev [info] found property git.commit.user.email [info] found property git.commit.message.full [info] found property git.commit.id [info] found property git.commit.id.describe-short [info] found property git.commit.message.short [info] found property git.commit.user.name [info] found property git.build.user.name [info] found property git.commit.id.describe [info] found property git.build.user.email [info] found property git.branch [info] found property git.commit.time [info] found property git.build.time [info] found property git.remote.origin.url [info] Writing properties file to [ /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/version.properties ] (for module dhp-graph-mapper )... [info] dhp-graph-mapper ] project dhp-graph-mapper [INFO] [INFO] --- scala-maven-plugin:4.0.1:add-source (scala-compile-first) @ dhp-graph-mapper --- [INFO] Add Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala [INFO] Add Test Source directory: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/scala [INFO] [INFO] --- scala-maven-plugin:4.0.1:compile (scala-compile-first) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 17 Scala sources and 51 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes ... [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:97: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/enrich/orcid/SparkEnrichGraphWithOrcidAuthors.scala:99: abstract type pattern T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/sx/graph/SparkCreateInputGraph.scala:113: abstract type T is unchecked since it is eliminated by erasure [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/scala/eu/dnetlib/dhp/oa/graph/resolution/SparkResolveEntities.scala:87: match may not be exhaustive. It would fail on the following inputs: datasource, organization, project [WARNING] four warnings found [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] : unknown enum constant org.apache.http.annotation.ThreadingBehavior.SAFE reason: class file for org.apache.http.annotation.ThreadingBehavior not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP reason: class file for javax.persistence.TemporalType not found [WARNING] [Warn] : unknown enum constant javax.persistence.TemporalType.TIMESTAMP [WARNING] [Warn] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:104: non-varargs call of varargs method with inexact argument type for last parameter; cast to java.lang.Object for a varargs call cast to java.lang.Object[] for a non-varargs call and to suppress this warning [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java:-1: Recompile with -Xlint:deprecation for details. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Some input files use unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/clean/CleanGraphSparkJob.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- formatter-maven-plugin:2.11.0:format (default) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to format source files. [INFO] Number of files to be formatted: 66 [INFO] Successfully formatted: 0 file(s) [INFO] Fail to format: 0 file(s) [INFO] Skipped: 66 file(s) [INFO] Read only skipped: 0 file(s) [INFO] Approximate time taken: 0s [INFO] [INFO] --- impsort-maven-plugin:1.4.1:sort (sort-imports) @ dhp-graph-mapper --- [INFO] Total Files Processed: 66 in 00:00.517 [INFO] Already Sorted: 66 [INFO] Needed Sorting: 0 [INFO] [INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 84 resources [INFO] [INFO] --- maven-antrun-plugin:1.3:run (installer-copy-custom) @ dhp-graph-mapper --- [INFO] Executing tasks [unjar] Expanding: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA@tmp/.m2/eu/dnetlib/dhp/dhp-build-assembly-resources/1.2.5-SNAPSHOT/dhp-build-assembly-resources-1.2.5-SNAPSHOT.jar into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/assembly-resources [INFO] Executed tasks [INFO] [INFO] --- maven-compiler-plugin:3.6.0:compile (default-compile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 51 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java uses or overrides a deprecated API. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplication.java: Recompile with -Xlint:deprecation for details. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Some input files use unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/merge/MergeGraphTableSparkJob.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-resources-plugin:2.6:testResources (default-testResources) @ dhp-graph-mapper --- [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 121 resources [INFO] [INFO] --- scala-maven-plugin:4.0.1:testCompile (scala-test-compile) @ dhp-graph-mapper --- [INFO] Using incremental compilation using Mixed compile order [INFO] Compiling 7 Scala sources and 15 Java sources to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes ... [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] [Info] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java:-1: Recompile with -Xlint:unchecked for details. [INFO] Done compiling. [INFO] [INFO] --- maven-compiler-plugin:3.6.0:testCompile (default-testCompile) @ dhp-graph-mapper --- [INFO] Changes detected - recompiling the module! [INFO] Compiling 15 source files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/test-classes [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java uses unchecked or unsafe operations. [INFO] /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/raw/MigrateDbEntitiesApplicationTest.java: Recompile with -Xlint:unchecked for details. [INFO] [INFO] --- maven-surefire-plugin:3.0.0-M4:test (default-test) @ dhp-graph-mapper --- [INFO] Tests are skipped. [INFO] [INFO] --- jacoco-maven-plugin:0.7.9:report (default-report) @ dhp-graph-mapper --- [INFO] Skipping JaCoCo execution due to missing execution data file. [INFO] [INFO] --- maven-dependency-plugin:3.6.0:copy-dependencies (copy dependencies) @ dhp-graph-mapper --- [INFO] [INFO] --- maven-jar-plugin:3.0.2:test-jar (attach-test-resources-package) @ dhp-graph-mapper --- [INFO] Skipping packaging of the test-jar [INFO] [INFO] --- primer-maven-plugin:1.2.0:prime (priming) @ dhp-graph-mapper --- [INFO] Priming eu/dnetlib/dhp/sx/graph/dumpScholix into /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-default-properties) @ dhp-graph-mapper --- [INFO] Loading classpath:project-default.properties [INFO] [INFO] --- properties-maven-plugin:2.0.1:read-project-properties (read-job-properties) @ dhp-graph-mapper --- [INFO] [INFO] --- dhp-build-properties-maven-plugin:1.2.5-SNAPSHOT:write-project-properties (write-job-properties) @ dhp-graph-mapper --- [INFO] Ignoring non-existent properties file '/var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/primed/job.properties' [INFO] Ignoring non-existent properties file 'job-override.properties' [INFO] Creating /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/job.properties [INFO] [INFO] --- maven-jar-plugin:3.0.2:jar (default-jar) @ dhp-graph-mapper --- [INFO] Building jar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/dhp-graph-mapper-1.2.5-SNAPSHOT.jar [INFO] [INFO] --- maven-assembly-plugin:3.0.0:single (assembly-oozie-installer) @ dhp-graph-mapper --- [WARNING] The assembly descriptor contains a filesystem-root relative reference, which is not cross platform compatible / [INFO] Copying files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [WARNING] Assembly file: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts is not a regular file (it may be a directory). It cannot be attached to the project build for installation or deployment. [INFO] [INFO] --- maven-antrun-plugin:1.3:run (default) @ dhp-graph-mapper --- [INFO] Executing tasks [copy] Copying 2 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app [mkdir] Created dir: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 81 files to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [copy] Copying 1 file to /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package/oozie_app/lib [tar] Building tar: /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package.tar.gz [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package [delete] Deleting directory /var/lib/jenkins/workspace/dnet-hadoop_CD_BETA/dnet-hadoop/dhp-workflows/dhp-graph-mapper/target/oozie-package_shell_scripts [INFO] Executed tasks [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (create-target-dir) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (upload-oozie-package) @ dhp-graph-mapper --- [INFO] [INFO] --- exec-maven-plugin:1.5.0:exec (extract-and-upload-to-hdfs) @ dhp-graph-mapper --- + '[' 0 = 0 ']' ++ pwd + target_dir_root=/home/git.dnet/oozie-packages/sx/graph/dumpScholix/2024-01-11_21_40/oozie_app + hadoop fs -rm -r /user/git.dnet/sx/graph/dumpScholix 24/01/11 21:41:41 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/user/git.dnet/sx/graph/dumpScholix' to trash at: hdfs://nameservice1/user/git.dnet/.Trash/Current/user/git.dnet/sx/graph/dumpScholix + hadoop fs -mkdir -p /user/git.dnet/sx/graph/dumpScholix + hadoop fs -mkdir -p /user/git.dnet/sx/graph/dumpScholix/working_dir + hadoop fs -put /home/git.dnet/oozie-packages/sx/graph/dumpScholix/2024-01-11_21_40/oozie_app /user/git.dnet/sx/graph/dumpScholix [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 53.341 s [INFO] Finished at: 2024-01-11T21:41:51Z [INFO] ------------------------------------------------------------------------ + ssh git.dnet@iis-cdh5-test-gw.ocean.icm.edu.pl cd /tmp2/git.dnet/dnet-hadoop/BETA/2024-01-11 && sh deploy_release.sh sx/graph/dumpScholix /lib/dnet/BETA/scholix sx/dumpScholix + app_dir=sx/graph/dumpScholix + hdfs_target_root_dir=/lib/dnet/BETA/scholix + app_target_dir=sx/dumpScholix ++ whoami + user_name=git.dnet + export HADOOP_USER_NAME=hdfs + HADOOP_USER_NAME=hdfs + hdfs_app_source_dir=/user/git.dnet/sx/graph/dumpScholix/oozie_app + hdfs_target_dir=/lib/dnet/BETA/scholix/sx/dumpScholix + hdfs dfs -rm -r -f /lib/dnet/BETA/scholix/sx/dumpScholix 24/01/11 21:41:54 INFO fs.TrashPolicyDefault: Moved: 'hdfs://nameservice1/lib/dnet/BETA/scholix/sx/dumpScholix' to trash at: hdfs://nameservice1/user/hdfs/.Trash/Current/lib/dnet/BETA/scholix/sx/dumpScholix + hdfs dfs -mkdir -p /lib/dnet/BETA/scholix/sx/dumpScholix + hdfs dfs -mv /user/git.dnet/sx/graph/dumpScholix/oozie_app /lib/dnet/BETA/scholix/sx/dumpScholix [Pipeline] } $ ssh-agent -k unset SSH_AUTH_SOCK; unset SSH_AGENT_PID; echo Agent pid 31202 killed; [ssh-agent] Stopped. [Pipeline] // sshagent [Pipeline] } [Pipeline] // withEnv [Pipeline] } Deleting 1 temporary files [Pipeline] // configFileProvider [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] cleanWs [WS-CLEANUP] Deleting project workspace... [WS-CLEANUP] Deferred wipeout is used... [WS-CLEANUP] done [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline Finished: SUCCESS