123 lines
5.0 KiB
XML
123 lines
5.0 KiB
XML
<workflow-app name="BipAffiliations" xmlns="uri:oozie:workflow:0.5">
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<parameters>
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<property>
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<name>crossrefInputPath</name>
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<description>the path where to find the inferred affiliation relations from Crossref</description>
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</property>
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<property>
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<name>pubmedInputPath</name>
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<description>the path where to find the inferred affiliation relations from Pubmed</description>
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</property>
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<property>
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<name>openapcInputPath</name>
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<description>the path where to find the inferred affiliation relations from OpenAPC</description>
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</property>
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<property>
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<name>dataciteInputPath</name>
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<description>the path where to find the inferred affiliation relations from Datacite</description>
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</property>
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<property>
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<name>outputPath</name>
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<description>the path where to store the actionset</description>
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</property>
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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>sparkExecutorCores</name>
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<description>number of cores used by single executor</description>
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</property>
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<property>
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<name>oozieActionShareLibForSpark2</name>
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<description>oozie action sharelib for spark 2.*</description>
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</property>
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<property>
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<name>spark2ExtraListeners</name>
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<value>com.cloudera.spark.lineage.NavigatorAppListener</value>
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<description>spark 2.* extra listeners classname</description>
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</property>
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<property>
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<name>spark2SqlQueryExecutionListeners</name>
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<value>com.cloudera.spark.lineage.NavigatorQueryListener</value>
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<description>spark 2.* sql query execution listeners classname</description>
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</property>
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<property>
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<name>spark2YarnHistoryServerAddress</name>
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<description>spark 2.* yarn history server address</description>
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</property>
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<property>
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<name>spark2EventLogDir</name>
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<description>spark 2.* event log dir location</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>mapreduce.job.queuename</name>
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<value>${queueName}</value>
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</property>
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<property>
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<name>oozie.launcher.mapred.job.queue.name</name>
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<value>${oozieLauncherQueueName}</value>
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</property>
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<property>
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<name>oozie.action.sharelib.for.spark</name>
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<value>${oozieActionShareLibForSpark2}</value>
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</property>
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</configuration>
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</global>
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<start to="deleteoutputpath"/>
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<kill name="Kill">
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<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
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</kill>
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<action name="deleteoutputpath">
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<fs>
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<delete path="${outputPath}"/>
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<mkdir path="${outputPath}"/>
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<delete path="${workingDir}"/>
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<mkdir path="${workingDir}"/>
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</fs>
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<ok to="atomicactions"/>
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<error to="Kill"/>
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</action>
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<action name="atomicactions">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Produces the atomic action with the inferred by BIP! affiliation relations (from Crossref and Pubmed)</name>
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<class>eu.dnetlib.dhp.actionmanager.bipaffiliations.PrepareAffiliationRelations</class>
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<jar>dhp-aggregation-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-memory=${sparkExecutorMemory}
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--executor-cores=${sparkExecutorCores}
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--driver-memory=${sparkDriverMemory}
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--conf spark.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}${spark2EventLogDir}
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--conf spark.sql.warehouse.dir=${sparkSqlWarehouseDir}
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</spark-opts>
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<arg>--crossrefInputPath</arg><arg>${crossrefInputPath}</arg>
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<arg>--pubmedInputPath</arg><arg>${pubmedInputPath}</arg>
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<arg>--openapcInputPath</arg><arg>${openapcInputPath}</arg>
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<arg>--dataciteInputPath</arg><arg>${dataciteInputPath}</arg>
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<arg>--outputPath</arg><arg>${outputPath}</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> |