forked from D-Net/dnet-hadoop
194 lines
7.3 KiB
XML
194 lines
7.3 KiB
XML
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<workflow-app name="preprocess DOIBoost ActionSet" xmlns="uri:oozie:workflow:0.5">
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<parameters>
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<property>
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<name>sparkDriverMemory</name>
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<description>memory for driver process</description>
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</property>
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<property>
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<name>sparkExecutorMemory</name>
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<description>memory for individual executor</description>
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</property>
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<property>
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<name>sparkExecutorIntersectionMemory</name>
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<description>memory for individual executor</description>
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</property>
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<property>
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<name>sparkExecutorCores</name>
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<description>number of cores used by single executor</description>
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</property>
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<!-- Crossref Parameters -->
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<property>
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<name>inputPathCrossref</name>
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<description>the Crossref input path</description>
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</property>
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<property>
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<name>crossrefTimestamp</name>
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<description>Timestamp for the Crossref incremental Harvesting</description>
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</property>
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<property>
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<name>esServer</name>
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<description>elasticsearch server url for the Crossref Harvesting</description>
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</property>
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<property>
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<name>esIndex</name>
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<description>elasticsearch index name for the Crossref Harvesting</description>
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</property>
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<!-- MAG Parameters -->
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<property>
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<name>MAGDumpPath</name>
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<description>the MAG dump working path</description>
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</property>
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<property>
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<name>inputPathMAG</name>
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<description>the MAG working path</description>
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</property>
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<!-- ORCID Parameters -->
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<property>
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<name>inputPathOrcid</name>
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<description>the ORCID input path</description>
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</property>
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<property>
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<name>workingPathOrcid</name>
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<description>the ORCID working path</description>
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</property>
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</parameters>
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<global>
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<job-tracker>${jobTracker}</job-tracker>
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<name-node>${nameNode}</name-node>
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<configuration>
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<property>
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<name>oozie.action.sharelib.for.spark</name>
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<value>${oozieActionShareLibForSpark2}</value>
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</property>
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</configuration>
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</global>
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<start to="ImportCrossRef"/>
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<kill name="Kill">
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<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
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</kill>
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<action name="ImportCrossRef">
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<java>
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<main-class>eu.dnetlib.doiboost.crossref.CrossrefImporter</main-class>
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<arg>--targetPath</arg><arg>${inputPathCrossref}/index_update</arg>
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<arg>--namenode</arg><arg>${nameNode}</arg>
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<arg>--esServer</arg><arg>${esServer}</arg>
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<arg>--esIndex</arg><arg>${esIndex}</arg>
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<arg>--timestamp</arg><arg>${crossrefTimestamp}</arg>
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</java>
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<ok to="GenerateCrossrefDataset"/>
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<error to="Kill"/>
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</action>
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<!-- CROSSREF SECTION -->
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<action name="GenerateCrossrefDataset">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<name>GenerateCrossrefDataset</name>
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<class>eu.dnetlib.doiboost.crossref.CrossrefDataset</class>
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<jar>dhp-doiboost-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-memory=${sparkExecutorMemory}
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--executor-cores=${sparkExecutorCores}
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--driver-memory=${sparkDriverMemory}
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--conf spark.sql.shuffle.partitions=3840
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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</spark-opts>
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<arg>--workingPath</arg><arg>${inputPathCrossref}</arg>
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<arg>--master</arg><arg>yarn-cluster</arg>
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</spark>
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<ok to="RenameDataset"/>
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<error to="Kill"/>
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</action>
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<action name="RenameDataset">
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<fs>
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<delete path="${inputPathCrossref}/crossref_ds"/>
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<move source="${inputPathCrossref}/crossref_ds_updated"
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target="${inputPathCrossref}/crossref_ds"/>
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</fs>
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<ok to="ResetMagWorkingPath"/>
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<error to="Kill"/>
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</action>
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<!-- MAG SECTION -->
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<action name="ResetMagWorkingPath">
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<fs>
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<delete path="${inputPathMAG}/dataset"/>
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<delete path="${inputPathMAG}/process"/>
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</fs>
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<ok to="ConvertMagToDataset"/>
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<error to="Kill"/>
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</action>
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<action name="ConvertMagToDataset">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<name>Convert Mag to Dataset</name>
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<class>eu.dnetlib.doiboost.mag.SparkImportMagIntoDataset</class>
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<jar>dhp-doiboost-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-memory=${sparkExecutorMemory}
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--executor-cores=${sparkExecutorCores}
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--driver-memory=${sparkDriverMemory}
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--conf spark.sql.shuffle.partitions=3840
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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</spark-opts>
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<arg>--sourcePath</arg><arg>${MAGDumpPath}</arg>
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<arg>--targetPath</arg><arg>${inputPathMAG}/dataset</arg>
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<arg>--master</arg><arg>yarn-cluster</arg>
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</spark>
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<ok to="PreprocessORCID"/>
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<error to="Kill"/>
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</action>
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<!-- ORCID SECTION -->
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<action name="PreprocessORCID">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<name>Convert ORCID to Dataset</name>
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<class>eu.dnetlib.doiboost.orcid.SparkPreprocessORCID</class>
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<jar>dhp-doiboost-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-memory=${sparkExecutorMemory}
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--executor-cores=${sparkExecutorCores}
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--driver-memory=${sparkDriverMemory}
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--conf spark.sql.shuffle.partitions=3840
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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</spark-opts>
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<arg>--sourcePath</arg><arg>${inputPathOrcid}</arg>
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<arg>--workingPath</arg><arg>${workingPathOrcid}</arg>
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<arg>--master</arg><arg>yarn-cluster</arg>
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</spark>
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<ok to="End"/>
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<error to="Kill"/>
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</action>
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<end name="End"/>
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</workflow-app>
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