forked from D-Net/dnet-hadoop
125 lines
4.7 KiB
XML
125 lines
4.7 KiB
XML
<workflow-app name="BioSchemaHarvester" xmlns="uri:oozie:workflow:0.5">
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<parameters>
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<property>
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<name>workingPath</name>
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<value>/data/bioschema/mobidb/</value>
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<description>the working path</description>
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</property>
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<property>
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<name>sitemapUrl</name>
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<value>https://mobidb.org/sitemap2.xml.gz</value>
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</property>
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<property>
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<name>sitemapURLKey</name>
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<value>loc</value>
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</property>
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<property>
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<name>dynamic</name>
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<value>true</value>
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<description>the dynamic boolean determines if the scraper should start using selenium or JSOUP to scrape the information (dynamic and static respectively)</description>
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</property>
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<property>
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<name>maxScrapedPages</name>
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<value>100</value>
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<description>max number of pages that will be scraped, default: no limit</description>
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</property>
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<property>
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<name>rdfOutput</name>
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<value>nquads.seq</value>
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<description>rdf output of scraping step</description>
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</property>
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<property>
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<name>oozie.launcher.mapreduce.map.java.opts</name>
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<value>-Xmx4g</value>
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</property>
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<property>
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<name>spark2MaxExecutors</name>
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<value>1</value>
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</property>
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<property>
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<name>sparkDriverMemory</name>
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<value>7G</value>
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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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<value>4G</value>
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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>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>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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</global>
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<start to="ResetWorkingPath"/>
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<kill name="Kill">
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<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
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</kill>
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<action name="ResetWorkingPath">
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<fs>
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<delete path='${workingPath}${rdfOutput}'/>
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</fs>
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<ok to="bmuseScrapingSpark"/>
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<error to="Kill"/>
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</action>
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<action name="bmuseScraping">
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<java>
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<name-node>${nameNode}</name-node>
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<main-class>eu.dnetlib.dhp.bmuse.bioschema.ScrapingJob</main-class>
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<arg>--nameNode</arg><arg>${nameNode}</arg>
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<arg>--workingPath</arg><arg>${workingPath}</arg>
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<arg>--rdfOutput</arg><arg>${rdfOutput}</arg>
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<arg>--sitemapUrl</arg><arg>${sitemapUrl}</arg>
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<arg>--sitemapURLKey</arg><arg>${sitemapURLKey}</arg>
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<arg>--dynamic</arg><arg>${dynamic}</arg>
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</java>
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<ok to="End"/>
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<error to="Kill"/>
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</action>
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<action name="bmuseScrapingSpark">
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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>bmuseScrapingSpark</name>
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<class>eu.dnetlib.dhp.bmuse.bioschema.SparkScraper</class>
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<jar>dhp-bmuse-${projectVersion}.jar</jar>
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<spark-opts>
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--conf spark.dynamicAllocation.enabled=true
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--conf spark.dynamicAllocation.maxExecutors=${spark2MaxExecutors}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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</spark-opts>
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<arg>--nameNode</arg><arg>${nameNode}</arg>
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<arg>--workingPath</arg><arg>${workingPath}</arg>
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<arg>--rdfOutput</arg><arg>${rdfOutput}</arg>
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<arg>--sitemapUrl</arg><arg>${sitemapUrl}</arg>
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<arg>--sitemapURLKey</arg><arg>${sitemapURLKey}</arg>
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<arg>--dynamic</arg><arg>${dynamic}</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> |