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This commit is contained in:
Enrico Ottonello 2021-10-22 12:32:04 +02:00
parent 4a4da01d6b
commit 0010458a23
2 changed files with 15 additions and 10 deletions
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4
dnet-ariadneplus-graphdb-publisher/src/main/java/eu/dnetlib/ariadneplus/graphdb/GraphDBClient.java
View File

@ -348,7 +348,7 @@ public class GraphDBClient {
String recordsIndexReport = "";
String collectionIndexReport = "";
try {
log.info("Start indexing from "+ datasource + " " + collectionId);
log.debug("Start indexing from "+ datasource + " " + collectionId);
runSPQRLQuery.setupConnection( getWriterUser(), getWriterPwd(), this.graphDBServerUrl, getRepository());
runSPQRLQuery.setParser(parseRDFJSON);
runSPQRLQuery.setResourceManager(resourceManager);
@ -409,7 +409,7 @@ public class GraphDBClient {
return "empty identifier";
}
List <String> identifiers = Arrays.asList(identifier);
log.info("Start indexing from "+ datasource + " " + collectionId);
log.info("Indexing "+ datasource + " " + collectionId + " " + identifier);
runSPQRLQuery.setupConnection( getWriterUser(), getWriterPwd(), this.graphDBServerUrl, getRepository());
runSPQRLQuery.setParser(parseRDFJSON);
runSPQRLQuery.setResourceManager(resourceManager);

21
dnet-ariadneplus-graphdb-publisher/src/main/java/eu/dnetlib/ariadneplus/reader/RunSPARQLQueryService.java
View File

@ -77,7 +77,7 @@ public class RunSPARQLQueryService {
recordIds.forEach(recordId -> {
int waitAmount=1;
int retryResult = 0;
int operationResult = executeQueryGraph(selectQueryTemplate, recordId, isCollection);
int operationResult = executeQueryGraph(selectQueryTemplate, datasource, collectionId, recordId, isCollection);
if (operationResult!=200) {
log.error(recordId + " error_code: "+ operationResult);
if (operationResult==-5) {
@ -90,7 +90,7 @@ public class RunSPARQLQueryService {
} catch (InterruptedException ie) {
log.error(ie);
}
retryResult = executeQueryGraph(selectQueryTemplate, recordId, isCollection);
retryResult = executeQueryGraph(selectQueryTemplate, datasource, collectionId, recordId, isCollection);
log.debug("retryResult: " + retryResult);
} while (retryResult!=200);
operationResult = retryResult;
@ -125,11 +125,11 @@ public class RunSPARQLQueryService {
String report = "Total indexed records: "+ successCodesCount.get(0).intValue() +
" , " + "Total errors: "+ errorCodesCount.get(0).intValue();
log.info(report);
log.debug(report);
return report;
}
private int executeQueryGraph(String selectQueryTemplate, String recordId, boolean isCollection){
private int executeQueryGraph(String selectQueryTemplate, String datasource, String collectionId, String recordId, boolean isCollection){
// decrease queries execution rate to avoid heap overload on graphdb
try {
Thread.sleep(50);
@ -149,6 +149,7 @@ public class RunSPARQLQueryService {
long end = System.currentTimeMillis();
int triples = resultsModel.size();
if (resultsModel.size()==0) {
log.error("No data found on graphdb for "+datasource+" "+collectionId+" "+recordId);
return -2;
}
recordWriter = new StringWriter();
@ -156,23 +157,27 @@ public class RunSPARQLQueryService {
Rio.write(resultsModel, rdfRecordWriter);
parser.setCollection(isCollection);
String bufferedRecord = recordWriter.toString();
// log.debug(bufferedRecord);
int size = parser.parse(bufferedRecord);
log.debug(recordId+" is_coll: "+isCollection+" query_time(sec): "+(end-start)/1000 +" triples: "+triples +" json: "+size);
if (size==-1) {
log.error("RDF parsing failed for "+datasource+" "+collectionId+" "+recordId);
return -4;
}
resourceManager.manage(parser);
return bulkUpload.index(resourceManager, isCollection);
int ret = bulkUpload.index(resourceManager, isCollection);
if (ret!=200) {
log.error("Indexing error for "+datasource+" "+collectionId+" "+recordId);
}
return ret;
} catch (HTTPQueryEvaluationException qe) {
log.error(qe);
log.error("HTTPQueryEvaluationException for "+datasource+" "+collectionId+" "+recordId, qe);
if (qe.getMessage()!=null &&
qe.getMessage().contains("Insufficient free Heap Memory")) {
return -5;
}
return -6;
} catch(Exception e){
log.error(e);
log.error("Generic error for "+datasource+" "+collectionId+" "+recordId, e);
return -1;
} finally{
closeConnection();