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dataset based provision WIP

This commit is contained in:
Claudio Atzori 2020-04-06 19:37:27 +02:00
parent e355961997
commit 77f59b1b10
3 changed files with 30 additions and 15 deletions
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10
dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/SparkXmlIndexingJob.java → dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/oa/provision/XmlIndexingJob.java
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@ -2,7 +2,6 @@ package eu.dnetlib.dhp.oa.provision;
import com.lucidworks.spark.util.SolrSupport;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.oa.provision.utils.ContextMapper;
import eu.dnetlib.dhp.oa.provision.utils.StreamingInputDocumentFactory;
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
import eu.dnetlib.dhp.utils.saxon.SaxonTransformerFactory;
@ -11,14 +10,11 @@ import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
import org.apache.commons.io.IOUtils;
import org.apache.commons.lang3.StringUtils;
import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;
import org.apache.hadoop.io.Text;
import org.apache.solr.common.SolrInputDocument;
import org.apache.spark.SparkConf;
import org.apache.spark.api.java.JavaSparkContext;
import org.apache.spark.rdd.RDD;
import org.apache.spark.sql.SparkSession;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
@ -35,9 +31,9 @@ import java.util.Optional;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
public class SparkXmlIndexingJob {
public class XmlIndexingJob {
private static final Logger log = LoggerFactory.getLogger(SparkXmlIndexingJob.class);
private static final Logger log = LoggerFactory.getLogger(XmlIndexingJob.class);
private static final Integer DEFAULT_BATCH_SIZE = 1000;
@ -50,7 +46,7 @@ public class SparkXmlIndexingJob {
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
IOUtils.toString(
SparkXmlIndexingJob.class.getResourceAsStream(
XmlIndexingJob.class.getResourceAsStream(
"/eu/dnetlib/dhp/oa/provision/input_params_update_index.json")));
parser.parseArgument(args);

29
dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/input_params_update_index.json
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@ -1,7 +1,26 @@
[
{"paramName":"mt", "paramLongName":"master", "paramDescription": "should be local or yarn", "paramRequired": true},
{"paramName":"is", "paramLongName":"isLookupUrl", "paramDescription": "URL of the isLookUp Service", "paramRequired": true},
{"paramName":"i", "paramLongName":"inputPath", "paramDescription": "the path of the sequence file to read the XML records", "paramRequired": true},
{"paramName":"f", "paramLongName":"format", "paramDescription": "MDFormat name found in the IS profile", "paramRequired": true},
{"paramName":"b", "paramLongName":"batchSize", "paramDescription": "size of the batch of documents sent to solr", "paramRequired": false}
{
"paramName": "is",
"paramLongName": "isLookupUrl",
"paramDescription": "URL of the isLookUp Service",
"paramRequired": true
},
{
"paramName": "i",
"paramLongName": "inputPath",
"paramDescription": "the path of the sequence file to read the XML records",
"paramRequired": true
},
{
"paramName": "f",
"paramLongName": "format",
"paramDescription": "MDFormat name found in the IS profile",
"paramRequired": true
},
{
"paramName": "b",
"paramLongName": "batchSize",
"paramDescription": "size of the batch of documents sent to solr",
"paramRequired": false
}
]

6
dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml
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@ -393,12 +393,12 @@
<master>yarn</master>
<mode>cluster</mode>
<name>to_solr_index</name>
<class>eu.dnetlib.dhp.oa.provision.SparkXmlIndexingJob</class>
<class>eu.dnetlib.dhp.oa.provision.XmlIndexingJob</class>
<jar>dhp-graph-provision-${projectVersion}.jar</jar>
<spark-opts>
--executor-cores ${sparkExecutorCoresForIndexing}
--executor-memory ${sparkExecutorMemoryForIndexing}
--executor-memory=${sparkExecutorMemoryForIndexing}
--driver-memory=${sparkDriverMemoryForIndexing}
--conf spark.dynamicAllocation.enabled=true
--conf spark.dynamicAllocation.maxExecutors=${sparkExecutorCoresForIndexing}
--conf spark.extraListeners=${spark2ExtraListeners}
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}