Minor fixes in workflow.xml and job.properties
This commit is contained in:
Serafeim Chatzopoulos
parent
a1b9187039
commit
60f25b780d
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@ -102,4 +102,4 @@ actionSetOutputPath=${workingDir}/bip_actionsets/
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# The directory to store project impact indicators
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projectImpactIndicatorsOutput=${workingDir}/project_indicators
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resume=create-openaire-ranking-graph
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resume=entry-point-decision
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@ -33,7 +33,7 @@
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<default to="create-openaire-ranking-graph" />
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</switch>
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</decision>
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<!-- Script here written by Serafeim: maps openaire ids to their synonyms -->
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<action name="create-openaire-ranking-graph">
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<!-- This is required as a tag for spark jobs, regardless of programming language -->
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@ -44,12 +44,12 @@
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<prepare>
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<delete path="${synonymFolder}"/>
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</prepare>
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-->
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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-->
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<!-- This is the name of our job -->
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<name>Openaire Ranking Graph Creation</name>
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<!-- Script name goes here -->
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@ -141,8 +141,8 @@
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<!-- This is required as a tag for spark jobs, regardless of programming language -->
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<spark xmlns="uri:oozie:spark-action:0.2">
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<!-- This is the name of our job -->
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@ -244,8 +244,8 @@
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<!-- Reference says: The mode element if present indicates the mode of spark, where to run spark driver program. Ex: client,cluster. | In my case I always have a client -->
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<!-- <mode>client</mode> -->
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<!-- This is the name of our job -->
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@ -289,8 +289,8 @@
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<!-- This is required as a tag for spark jobs, regardless of programming language -->
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<spark xmlns="uri:oozie:spark-action:0.2">
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<!-- This is the name of our job -->
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@ -335,8 +335,8 @@
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</action>
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<!-- JOIN ITERATIVE METHODS AND THEN END -->
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<join name="join-iterative-rankings" to="end" />
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<!-- to="get-file-names"/> -->
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<join name="join-iterative-rankings" to="get-file-names" />
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<!-- to="get-file-names"/> -->
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<!-- This will be a shell action that will output key-value pairs for output files -->
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@ -349,7 +349,7 @@
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<!-- name of script to run -->
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<argument>get_ranking_files.sh</argument>
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<!-- We only pass the directory where we expect to find the rankings -->
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<argument>/${workingDir}</argument>
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<argument>${workingDir}</argument>
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<!-- the name of the file run -->
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<file>${wfAppPath}/get_ranking_files.sh#get_ranking_files.sh</file>
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@ -481,8 +481,8 @@
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<delete path="${synonymFolder}"/>
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</prepare>
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<!-- This is the name of our job -->
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@ -503,7 +503,7 @@
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</spark-opts>
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<!-- Script arguments here -->
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<arg>${openaireDataInput}</arg>
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<arg>${openaireDataInput}/</arg>
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<!-- number of partitions to be used on joins -->
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<arg>${synonymFolder}</arg>
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<!-- This needs to point to the file on the hdfs i think -->
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@ -523,8 +523,8 @@
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<!-- This is required as a tag for spark jobs, regardless of programming language -->
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<spark xmlns="uri:oozie:spark-action:0.2">
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<!-- using configs from an example on openaire -->
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<master>yarn-cluster</master>
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<mode>cluster</mode>
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<!-- This is the name of our job -->
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@ -561,47 +561,48 @@
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<!-- Do this after finishing okay -->
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<ok to="deleteOutputPathForActionSet" />
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<!-- This is the initial code <ok to="deleteOutputPathForActionSet" /> -->
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<!-- Go there if we have an error -->
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<error to="map-scores-fail" />
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</action>
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<action name="deleteOutputPathForActionSet">
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<fs>
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<delete path="${actionSetOutputPath}/results/"/>
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<fs>
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<delete path="${actionSetOutputPath}/results/"/>
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<delete path="${actionSetOutputPath}/projects/"/>
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<mkdir path="${actionSetOutputPath}/results/"/>
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<mkdir path="${actionSetOutputPath}/projects/"/>
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</fs>
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<ok to="createActionSetForResults"/>
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<error to="actionset-delete-fail"/>
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</action>
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<ok to="createActionSetForResults"/>
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<error to="actionset-delete-fail"/>
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</action>
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<action name="createActionSetForResults">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Produces the atomic action with the bip finder scores for publications</name>
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<class>eu.dnetlib.dhp.actionmanager.bipfinder.SparkAtomicActionScoreJob</class>
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<jar>dhp-aggregation-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-memory=${sparkNormalExecutorMemory}
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--executor-cores=${sparkExecutorCores}
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--driver-memory=${sparkNormalDriverMemory}
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--conf spark.extraListeners=${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=${sparkSqlWarehouseDir}
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</spark-opts>
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<arg>--inputPath</arg><arg>${bipScorePath}</arg>
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<arg>--outputPath</arg><arg>${actionSetOutputPath}/results/</arg>
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<action name="createActionSetForResults">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Produces the atomic action with the bip finder scores for publications</name>
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<class>eu.dnetlib.dhp.actionmanager.bipfinder.SparkAtomicActionScoreJob</class>
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<jar>dhp-aggregation-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-memory=${sparkNormalExecutorMemory}
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--executor-cores=${sparkExecutorCores}
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--driver-memory=${sparkNormalDriverMemory}
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--conf spark.extraListeners=${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=${sparkSqlWarehouseDir}
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</spark-opts>
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<arg>--inputPath</arg><arg>${bipScorePath}</arg>
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<arg>--outputPath</arg><arg>${actionSetOutputPath}/results/</arg>
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<arg>--targetEntity</arg><arg>result</arg>
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</spark>
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<ok to="project-impact-indicators"/>
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<error to="actionset-creation-fail"/>
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</action>
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<ok to="project-impact-indicators"/>
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<error to="actionset-creation-fail"/>
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</action>
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<action name="project-impact-indicators">
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<!-- This is required as a tag for spark jobs, regardless of programming language -->
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