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dnet-hadoop
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try to make workflow and sub-workflow for making report and actual orcid cleaning

This commit is contained in:
Miriam Baglioni 2020-11-06 17:19:28 +01:00
parent c56a43c90b
commit 902b0db85a
6 changed files with 684 additions and 10 deletions
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21
dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/clean_orcid/oozie_app/workflow.xml
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@ -81,7 +81,7 @@
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>prepare publication</name>
<name>orcid prepare publication</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
@ -107,7 +107,7 @@
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>prepare publication</name>
<name>orcid prepare dataset</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
@ -133,7 +133,7 @@
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>prepare publication</name>
<name>orcid prepare software</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
@ -159,7 +159,7 @@
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>prepare publication</name>
<name>orcid prepare orp</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
@ -187,6 +187,7 @@
<switch>
<case to="make_report">${wf:conf('clean') eq false}</case>
<case to="clean_orcid_copy">${wf:conf('clean') eq true}</case>
<default to="make_report"/>
</switch>
</decision>
@ -242,7 +243,7 @@
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${workingDir}/dataset</arg>
<arg>--outputPath</arg><arg>${utputPath}/dataset</arg>
<arg>--outputPath</arg><arg>${outputPath}/dataset</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
<arg>--inputPath</arg><arg>${inputPath}/dataset</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
@ -269,7 +270,7 @@
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${workingDir}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${graphOutputPath}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${outputPath}/otherresearchproduct</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
<arg>--inputPath</arg><arg>${inputPath}/otherresearchproduct</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
@ -353,9 +354,9 @@
<fork name="clean_orcid">
<path start="clean_publication_orcid"/>
<path start="copy_organization"/>
<path start="copy_projects"/>
<path start="copy_datasources"/>
<path start="clean_dataset_orcid"/>
<path start="clean_orp_orcid"/>
<path start="clean_software_orcid"/>
</fork>
<action name="clean_publication_orcid">
@ -430,7 +431,7 @@
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${workingDir}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${graphOutputPath}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${outputPath}/otherresearchproduct</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
<arg>--inputPath</arg><arg>${inputPath}/otherresearchproduct</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>

232
dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/clean_orcid/wf/clean/oozie_app/workflow.xml Normal file
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@ -0,0 +1,232 @@
<workflow-app name="clean_orcid" xmlns="uri:oozie:workflow:0.5">
<parameters>
<property>
<name>inputPath</name>
<description>the input path to read graph content</description>
</property>
<property>
<name>outputPath</name>
<description>the target path to store cleaned graph</description>
</property>
<property>
<name>orcidInputPath</name>
<description>the input path where to find the orcid authoritative information</description>
</property>
<property>
<name>inputPreparedInputPath</name>
</property>
<property>
<name>sparkDriverMemory</name>
<description>memory for driver process</description>
</property>
<property>
<name>sparkExecutorMemory</name>
<description>memory for individual executor</description>
</property>
<property>
<name>sparkExecutorCores</name>
<description>number of cores used by single executor</description>
</property>
<property>
<name>oozieActionShareLibForSpark2</name>
<description>oozie action sharelib for spark 2.*</description>
</property>
<property>
<name>spark2ExtraListeners</name>
<value>com.cloudera.spark.lineage.NavigatorAppListener</value>
<description>spark 2.* extra listeners classname</description>
</property>
<property>
<name>spark2SqlQueryExecutionListeners</name>
<value>com.cloudera.spark.lineage.NavigatorQueryListener</value>
<description>spark 2.* sql query execution listeners classname</description>
</property>
<property>
<name>spark2YarnHistoryServerAddress</name>
<description>spark 2.* yarn history server address</description>
</property>
<property>
<name>spark2EventLogDir</name>
<description>spark 2.* event log dir location</description>
</property>
</parameters>
<start to="reset_outputpath"/>
<kill name="Kill">
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
</kill>
<action name="reset_outputpath">
<fs>
<delete path="${outputPath}"/>
<mkdir path="${outputPath}"/>
</fs>
<ok to="clean_orcid_copy"/>
<error to="Kill"/>
</action>
<fork name="clean_orcid_copy">
<path start="copy_relation"/>
<path start="copy_organization"/>
<path start="copy_projects"/>
<path start="copy_datasources"/>
</fork>
<action name="copy_relation">
<distcp xmlns="uri:oozie:distcp-action:0.2">
<arg>${nameNode}/${inputPath}/relation</arg>
<arg>${nameNode}/${outputPath}/relation</arg>
</distcp>
<ok to="wait_copy"/>
<error to="Kill"/>
</action>
<action name="copy_organization">
<distcp xmlns="uri:oozie:distcp-action:0.2">
<arg>${nameNode}/${inputPath}/organization</arg>
<arg>${nameNode}/${outputPath}/organization</arg>
</distcp>
<ok to="wait_copy"/>
<error to="Kill"/>
</action>
<action name="copy_projects">
<distcp xmlns="uri:oozie:distcp-action:0.2">
<arg>${nameNode}/${inputPath}/project</arg>
<arg>${nameNode}/${outputPath}/project</arg>
</distcp>
<ok to="wait_copy"/>
<error to="Kill"/>
</action>
<action name="copy_datasources">
<distcp xmlns="uri:oozie:distcp-action:0.2">
<arg>${nameNode}/${sourcePath}/datasource</arg>
<arg>${nameNode}/${outputPath}/datasource</arg>
</distcp>
<ok to="wait_copy"/>
<error to="Kill"/>
</action>
<join name="wait_copy" to="clean_orcid"/>
<fork name="clean_orcid">
<path start="clean_publication_orcid"/>
<path start="clean_dataset_orcid"/>
<path start="clean_orp_orcid"/>
<path start="clean_software_orcid"/>
</fork>
<action name="clean_publication_orcid">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Clean ORCID for Publications</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.CleanAuthorPidsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--inputPath</arg><arg>${inputPath}/publication</arg>
<arg>--outputPath</arg><arg>${outputPath}/publication</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Publication</arg>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/publication</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_clean"/>
<error to="Kill"/>
</action>
<action name="clean_dataset_orcid">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Clean ORCID for Datasets</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.CleanAuthorPidsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/dataset</arg>
<arg>--outputPath</arg><arg>${outputPath}/dataset</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
<arg>--inputPath</arg><arg>${inputPath}/dataset</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_clean"/>
<error to="Kill"/>
</action>
<action name="clean_orp_orcid">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Clean ORCID for ORP</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.CleanAuthorPidsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${outputPath}/otherresearchproduct</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
<arg>--inputPath</arg><arg>${inputPath}/otherresearchproduct</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_clean"/>
<error to="Kill"/>
</action>
<action name="clean_software_orcid">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Clean ORCID for Software</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.CleanAuthorPidsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/software</arg>
<arg>--outputPath</arg><arg>${outputPath}/software</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Software</arg>
<arg>--inputPath</arg><arg>${inputPath}/software</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_clean"/>
<error to="Kill"/>
</action>
<join name="wait_clean" to="End"/>
<end name="End"/>
</workflow-app>

3
dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/clean_orcid/wf/main/import.txt Normal file
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@ -0,0 +1,3 @@
## This is a classpath-based import file (this header is required)
make_report classpath eu/dnetlib/dhp/oa/graph/clean_orcid/wf/report/oozie_app
clean_orcid classpath eu/dnetlib/dhp/oa/graph/clean_orcid/wf/clean/oozie_app

18
dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/clean_orcid/wf/main/oozie_app/config-default.xml Normal file
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@ -0,0 +1,18 @@
<configuration>
<property>
<name>jobTracker</name>
<value>yarnRM</value>
</property>
<property>
<name>nameNode</name>
<value>hdfs://nameservice1</value>
</property>
<property>
<name>oozie.use.system.libpath</name>
<value>true</value>
</property>
<property>
<name>oozie.action.sharelib.for.spark</name>
<value>spark2</value>
</property>
</configuration>

231
dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/clean_orcid/wf/main/oozie_app/workflow.xml Normal file
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@ -0,0 +1,231 @@
<workflow-app name="orcid_status" xmlns="uri:oozie:workflow:0.5">
<parameters>
<property>
<name>inputPath</name>
<description>the input path to read graph content</description>
</property>
<property>
<name>outputPath</name>
<description>the target path to store cleaned graph</description>
</property>
<property>
<name>orcidInputPath</name>
<description>the input path where to find the orcid authoritative information</description>
</property>
<property>
<name>clean</name>
<value>false</value>
<description>determines if the orcid should be cleaned in the graph (true) or the report should be produced (false)
</description>
</property>
<property>
<name>sparkDriverMemory</name>
<description>memory for driver process</description>
</property>
<property>
<name>sparkExecutorMemory</name>
<description>memory for individual executor</description>
</property>
<property>
<name>sparkExecutorCores</name>
<description>number of cores used by single executor</description>
</property>
<property>
<name>oozieActionShareLibForSpark2</name>
<description>oozie action sharelib for spark 2.*</description>
</property>
<property>
<name>spark2ExtraListeners</name>
<value>com.cloudera.spark.lineage.NavigatorAppListener</value>
<description>spark 2.* extra listeners classname</description>
</property>
<property>
<name>spark2SqlQueryExecutionListeners</name>
<value>com.cloudera.spark.lineage.NavigatorQueryListener</value>
<description>spark 2.* sql query execution listeners classname</description>
</property>
<property>
<name>spark2YarnHistoryServerAddress</name>
<description>spark 2.* yarn history server address</description>
</property>
<property>
<name>spark2EventLogDir</name>
<description>spark 2.* event log dir location</description>
</property>
</parameters>
<start to="reset_outputpath"/>
<kill name="Kill">
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
</kill>
<action name="reset_outputpath">
<fs>
<delete path="${outputPath}"/>
<mkdir path="${outputPath}"/>
</fs>
<ok to="perpare_result"/>
<error to="Kill"/>
</action>
<fork name="perpare_result">
<path start="prepare_publication"/>
<path start="prepare_dataset"/>
<path start="prepare_software"/>
<path start="prepare_orp"/>
</fork>
<action name="prepare_publication">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>orcid prepare publication</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--inputPath</arg><arg>${inputPath}/publication</arg>
<arg>--outputPath</arg><arg>${workingDir}/publication</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Publication</arg>
</spark>
<ok to="wait_prepare"/>
<error to="Kill"/>
</action>
<action name="prepare_dataset">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>orcid prepare dataset</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--inputPath</arg><arg>${inputPath}/dataset</arg>
<arg>--outputPath</arg><arg>${workingDir}/dataset</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
</spark>
<ok to="wait_prepare"/>
<error to="Kill"/>
</action>
<action name="prepare_software">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>orcid prepare software</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--inputPath</arg><arg>${inputPath}/software</arg>
<arg>--outputPath</arg><arg>${workingDir}/software</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Software</arg>
</spark>
<ok to="wait_prepare"/>
<error to="Kill"/>
</action>
<action name="prepare_orp">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>orcid prepare orp</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.PrepareResultsSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--inputPath</arg><arg>${inputPath}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${workingDir}/otherresearchproduct</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
</spark>
<ok to="wait_prepare"/>
<error to="Kill"/>
</action>
<join name="wait_prepare" to="cleanorreport"/>
<decision name="cleanorreport">
<switch>
<case to="make_report">${wf:conf('clean') eq false}</case>
<case to="clean_orcid_copy">${wf:conf('clean') eq true}</case>
<default to="make_report"/>
</switch>
</decision>
<action name="make_report">
<sub-workflow>
<app-path>${wf:appPath()}/make_report</app-path>
<propagate-configuration/>
<configuration>
<property>
<name>inputPreparedInfoPath</name>
<value>${workingDir}</value>
</property>
<property>
<name>orcidInputPath</name>
<value>${orcidInputPath}</value>
</property>
</configuration>
</sub-workflow>
<ok to="End"/>
<error to="Kill"/>
</action>
<action name="clean_orcid">
<sub-workflow>
<app-path>${wf:appPath()}/clean_orcid</app-path>
<propagate-configuration/>
<configuration>
<property>
<name>inputPreparedInfoPath</name>
<value>${workingDir}</value>
</property>
<property>
<name>orcidInputPath</name>
<value>${orcidInputPath}</value>
</property>
</configuration>
</sub-workflow>
<ok to="End"/>
<error to="Kill"/>
</action>
<end name="End"/>
</workflow-app>

189
dhp-workflows/dhp-graph-mapper/src/main/resources/eu/dnetlib/dhp/oa/graph/clean_orcid/wf/report/oozie_app/workflow.xml Normal file
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@ -0,0 +1,189 @@
<workflow-app name="orcid_report" xmlns="uri:oozie:workflow:0.5">
<parameters>
<property>
<name>inputPath</name>
<description>the input path to read graph content</description>
</property>
<property>
<name>outputPath</name>
<description>the target path to store cleaned graph</description>
</property>
<property>
<name>orcidInputPath</name>
<description>the input path where to find the orcid authoritative information</description>
</property>
<property>
<name>inputPreparedInfoPath</name>
</property>
<property>
<name>sparkDriverMemory</name>
<description>memory for driver process</description>
</property>
<property>
<name>sparkExecutorMemory</name>
<description>memory for individual executor</description>
</property>
<property>
<name>sparkExecutorCores</name>
<description>number of cores used by single executor</description>
</property>
<property>
<name>oozieActionShareLibForSpark2</name>
<description>oozie action sharelib for spark 2.*</description>
</property>
<property>
<name>spark2ExtraListeners</name>
<value>com.cloudera.spark.lineage.NavigatorAppListener</value>
<description>spark 2.* extra listeners classname</description>
</property>
<property>
<name>spark2SqlQueryExecutionListeners</name>
<value>com.cloudera.spark.lineage.NavigatorQueryListener</value>
<description>spark 2.* sql query execution listeners classname</description>
</property>
<property>
<name>spark2YarnHistoryServerAddress</name>
<description>spark 2.* yarn history server address</description>
</property>
<property>
<name>spark2EventLogDir</name>
<description>spark 2.* event log dir location</description>
</property>
</parameters>
<start to="reset_outputpath"/>
<kill name="Kill">
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
</kill>
<action name="reset_outputpath">
<fs>
<delete path="${outputPath}"/>
<mkdir path="${outputPath}"/>
</fs>
<ok to="make_report"/>
<error to="Kill"/>
</action>
<fork name="make_report">
<path start="report_publication"/>
<path start="report_dataset"/>
<path start="report_software"/>
<path start="report_orp"/>
</fork>
<action name="report_publication">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Report ORCID on Publication</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.MakeReportSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--inputPath</arg><arg>${inputPath}/publication</arg>
<arg>--outputPath</arg><arg>${outputPath}/publication</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Publication</arg>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/publication</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_report"/>
<error to="Kill"/>
</action>
<action name="report_dataset">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Report ORCID on Dataset</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.MakeReportSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/dataset</arg>
<arg>--outputPath</arg><arg>${outputPath}/dataset</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
<arg>--inputPath</arg><arg>${inputPath}/dataset</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_report"/>
<error to="Kill"/>
</action>
<action name="report_orp">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Report ORCID on ORP</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.MakeReportSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/otherresearchproduct</arg>
<arg>--outputPath</arg><arg>${outputPath}/otherresearchproduct</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
<arg>--inputPath</arg><arg>${inputPath}/otherresearchproduct</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_report"/>
<error to="Kill"/>
</action>
<action name="report_software">
<spark xmlns="uri:oozie:spark-action:0.2">
<master>yarn</master>
<mode>cluster</mode>
<name>Report ORCID on Softwar</name>
<class>eu.dnetlib.dhp.oa.graph.clean.authorpids.MakeReportSparkJob</class>
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores=${sparkExecutorCores}
--executor-memory=${sparkExecutorMemory}
--driver-memory=${sparkDriverMemory}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
--conf spark.sql.shuffle.partitions=7680
</spark-opts>
<arg>--preparedInfoPath</arg><arg>${inputPreparedInfoPath}/software</arg>
<arg>--outputPath</arg><arg>${outputPath}/software</arg>
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Software</arg>
<arg>--inputPath</arg><arg>${inputPath}/software</arg>
<arg>--orcidInputPath</arg><arg>${orcidInputPath}</arg>
</spark>
<ok to="wait_report"/>
<error to="Kill"/>
</action>
<join name="wait_report" to="End"/>
<end name="End"/>
</workflow-app>