This commit is contained in:
Lucio Lelii 2008-04-22 12:11:53 +00:00
parent e8813119e1
commit 7774f4ff7a
7 changed files with 1069 additions and 0 deletions

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package org.gcube.vremanagement.vremodeler.db;
import java.io.File;
import java.rmi.RemoteException;
import java.sql.Connection;
import java.sql.DriverManager;
import java.sql.ResultSet;
import java.sql.SQLException;
import java.sql.Statement;
import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;
import org.diligentproject.vdlgeneratorservice.model.impl.ModelService;
/**
*
* @author lucio
*
*/
public class DBInterface {
private static Log logger =LogFactory.getLog(ModelService.class.getName());
private static Connection conn;
private static String dbFile = System.getenv("GLOBUS_LOCATION") + File.separator + "etc" + File.separator + "org_diligentproject_vdlgeneratorservice_model" + File.separator + "hsqldb" + File.separator + "vdldb";
/**
*
* @return
* @throws SQLException
*/
public static Connection connect() throws SQLException{
if(conn==null)
{
// Load the HSQL Database Engine JDBC driver
// hsqldb.jar should be in the class path or made part of the current jar
try{
Class.forName("org.hsqldb.jdbcDriver");
}catch(ClassNotFoundException e){throw new SQLException(e.getMessage());}
// connect to the database. This will load the db files and start the
// database if it is not alread running.
// db_file_name_prefix is used to open or create files that hold the state
// of the db.
// It can contain directory names relative to the
// current working directory
conn = DriverManager.getConnection("jdbc:hsqldb:file:"
+ dbFile, // filenames
"sa", // username
""); // password
}
return conn;
}
/**
*
* @param query
*/
public static synchronized void ExecuteUpdate(String query) throws RemoteException{
Statement st = null;
try{
st = conn.createStatement(); // statement objects can be reused with
st.executeUpdate(query);
st.close();
}catch(SQLException e){logger.error("error executing Query");throw new RemoteException("error creating SQL statement",e);}
}
/**
*
* @param table
* @param values
* @throws RemoteException
*/
public static synchronized void InsertInto(String table, String[][] values, boolean deleteOne) throws RemoteException {
if (values==null) return;
Statement st = null;
ResultSet rs = null;
try{
st = conn.createStatement(); // statement objects can be reused with
}catch(SQLException e){logger.error("error creating SQL statement");throw new RemoteException("error creating SQL statement",e);}
String insertQuery="";
for (String[] row: values)
{
insertQuery="INSERT INTO "+table.toUpperCase()+" VALUES(";
try{
int decr=0;
if (deleteOne) decr=-1;
for (int i=0; i<row.length+decr; i++)
if (i==(row.length+decr-1)) insertQuery+="'"+row[i].replaceAll("'"," ")+"'";
else insertQuery+="'"+row[i].replaceAll("'"," ")+"',";
insertQuery+=");";
logger.debug(insertQuery);
//System.out.println(insertQuery);
st.executeUpdate(insertQuery); // run the query
}catch(SQLException e){logger.error("HSQLDB ERROR: Problem inserting data "+e.getMessage()+" -- "+insertQuery);}
catch(Exception e){logger.error("VDLModelService error: Problem inserting data "+e.getMessage());}
}
try{
st.close();
}catch(SQLException e){logger.error("error closing SQL statement");throw new RemoteException("error closing SQL statement",e);}
}
/**
*
* @param query
* @return
* @throws SQLException
*/
public static synchronized ResultSet queryDB(String query) throws SQLException {
Statement st = null;
ResultSet rs = null;
st = conn.createStatement(); // statement objects can be reused with
rs = st.executeQuery(query); // run the query
st.close();
return rs;
}
/**
*
* @param table
* @throws SQLException
*/
public static void deleteAll(String table) throws SQLException{
String query="DELETE FROM "+table.toUpperCase();
Statement st=conn.createStatement();
st.executeUpdate(query);
st.close();
}
}

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package org.gcube.vremanagement.vremodeler.db;
import java.io.StringReader;
import java.rmi.RemoteException;
import java.sql.ResultSet;
import java.sql.SQLException;
import java.util.ArrayList;
import java.util.regex.Matcher;
import java.util.regex.Pattern;
import javax.xml.parsers.DocumentBuilder;
import javax.xml.parsers.DocumentBuilderFactory;
import org.apache.axis.components.uuid.UUIDGen;
import org.apache.axis.components.uuid.UUIDGenFactory;
import org.apache.axis.message.addressing.AttributedURI;
import org.apache.axis.message.addressing.EndpointReferenceType;
import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;
import org.diligentproject.common.profile.service.DHNRequirements;
import org.diligentproject.dvos.authentication.util.ConfigureSecurity;
import org.diligentproject.informationservice.dishlsclient.impl.DISHLSClient;
import org.diligentproject.informationservice.dishlsclient.impl.DISHLSClientException;
import org.diligentproject.informationservice.dishlsclient.impl.DISHLSCredentialException;
import org.diligentproject.informationservice.dishlsclient.impl.GeneralQueryManager;
import org.diligentproject.informationservice.dishlsclient.impl.RunningInstanceManager;
import org.diligentproject.metadatamanagement.metadatabrokerlibrary.programs.TPIOType;
import org.diligentproject.metadatamanagement.metadatabrokerservice.stubs.FindPossibleTransformationPrograms;
import org.diligentproject.metadatamanagement.metadatabrokerservice.stubs.FindPossibleTransformationProgramsResponse;
import org.diligentproject.metadatamanagement.metadatabrokerservice.stubs.MetadataBrokerPortType;
import org.diligentproject.metadatamanagement.metadatabrokerservice.stubs.service.MetadataBrokerServiceAddressingLocator;
import org.diligentproject.vdlgeneratorservice.model.impl.CredentialManager;
import org.diligentproject.vdlgeneratorservice.model.impl.ModelService;
import org.gcube.vremanagement.vremodeler.impl.ModelFactoryService;
import org.globus.axis.gsi.GSIConstants;
import org.gridforum.jgss.ExtendedGSSCredential;
import org.ietf.jgss.GSSCredential;
import org.w3c.dom.Document;
import org.w3c.dom.Element;
import org.w3c.dom.NodeList;
import org.xml.sax.InputSource;
public class DIStoDBUtil {
private static Log logger =LogFactory.getLog(ModelService.class.getName());
private static UUIDGen uuidMFGEN=UUIDGenFactory.getUUIDGen();
/**
* Itialize all database tables
*
* @param epr
*/
public static void initDB(EndpointReferenceType epr, ExtendedGSSCredential cred) throws RemoteException{
cleanDB();
insertCollection(epr, cred);
logger.debug("initialization: collection");
insertMetadataCollection(epr, cred);
logger.debug("initialization: metadata");
insertCS(epr, cred);
logger.debug("initialization: cs");
insertServices(epr, cred);
insertDHN(epr, cred);
logger.debug("initialization: DHN");
}
private static void cleanDB() throws RemoteException
{
try{
DBInterface.connect();
DBInterface.deleteAll("DLRELATEDCOLLECTION");
DBInterface.deleteAll("DLRELATEDCS");
DBInterface.deleteAll("DLRELATEDMETADATAFORMAT");
DBInterface.deleteAll("DLRELATEDFUNCT");
DBInterface.deleteAll("DLRELATEDDHN");
DBInterface.deleteAll("DL");
DBInterface.deleteAll("nativemdf");
DBInterface.deleteAll("derivablemdf");
DBInterface.deleteAll("mdformat");
DBInterface.deleteAll("mdcollection");
DBInterface.deleteAll("collection");
DBInterface.deleteAll("relatedserviceid");
DBInterface.deleteAll("dhn");
DBInterface.deleteAll("runninginstance");
DBInterface.deleteAll("dhnrelatedri");
DBInterface.deleteAll("cs");
}catch (SQLException e){logger.error("error cleaning DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
}
/**
*
* @param results
*/
private static String[][] parseResults(String results, String tag) throws RemoteException{
ArrayList<String[]> returnedValues= new ArrayList<String[]>();
ArrayList<String> tempArray;
DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
factory.setNamespaceAware(true);
DocumentBuilder builder;
try {
builder = factory.newDocumentBuilder();
StringReader reader = new StringReader(results);
InputSource source = new InputSource(reader);
Document domDoc;
domDoc = builder.parse(source);
Element child, subChild;
Element root= domDoc.getDocumentElement();
NodeList childRoot= root.getElementsByTagName(tag);
if (childRoot.getLength()==0) return null;
for (int i=0; i<childRoot.getLength(); i++)
{
String textValue=null;
child=(Element) childRoot.item(i);
NodeList subList= child.getChildNodes();
tempArray= new ArrayList<String>();
for (int k=0; k<subList.getLength(); k++)
{
if ((subList.item(k) instanceof Element) && (subList.item(k)!=null)){
//String tmp;
subChild= (Element) subList.item(k);
textValue=subChild.getTextContent().compareTo("")==0 ? "none" : subChild.getTextContent();
tempArray.add(textValue);
//logger.info("VDLMOdel : child "+tmp);
}
}
returnedValues.add(tempArray.toArray(new String[0]));
}
} catch (Exception e) {
logger.error("VDL Model Service: parsing results error");
throw new RemoteException(e.getMessage(),e);
}
return returnedValues.toArray(new String[0][0]);
}
/**
*
* @param epr
* @param query
* @return
* @throws RemoteException
*/
private static String makeQueryDIS(EndpointReferenceType epr, ExtendedGSSCredential cred, String query) throws RemoteException{
GeneralQueryManager q;
String results;
try {
DISHLSClient.init();
q= DISHLSClient.getGeneralQueryManager(cred, epr);
results= q.queryDISIC(query, cred, epr);
} catch (Exception e1) {
// TODO Auto-generated catch block
logger.error("VDL Model Service: error initializing database");
throw new RemoteException(e1.getMessage(), e1);
}
return results;
}
/**
*
* @param epr
* @throws RemoteException
*/
private static void insertCollection(EndpointReferenceType epr, ExtendedGSSCredential cred) throws RemoteException {
String collectionQuery= "for $CollectionProfile in collection(\"/db/Profiles/Collection\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $CollectionProfile/Profile/IsUserCollection[string(@value) eq \"true\"] return <r><Id>{$CollectionProfile/UniqueID/string()}</Id><Name>{$CollectionProfile/Profile/Name/string()}</Name><Description>{$CollectionProfile/Profile/Description/string()}</Description><NumberOfMembers>{$CollectionProfile/Profile/NumberOfMembers/string()}</NumberOfMembers><CreationTime>{$CollectionProfile/Profile/CreationTime/string()}</CreationTime><LastUpdateTime>{$CollectionProfile/Profile/LastUpdateTime/string()}</LastUpdateTime></r>";
String results=makeQueryDIS(epr, cred, collectionQuery);
logger.debug(results);
String[][] resultsParsed= parseResults(results, "r");
//test
try{
DBInterface.connect();
DBInterface.InsertInto("collection", resultsParsed, false);
}catch (SQLException e){logger.error("VDLModel: DB error "+e.getMessage()); throw new RemoteException(e.getMessage(),e); }
}
private static String[] ParseTP(String[] tp){
logger.debug("ParseTP start");
String[] schemaNameURI=tp[1].split("=");
String lng="anylanguage";
logger.debug("MetadataFormatParsed: "+schemaNameURI[0]+ ", "+schemaNameURI[1]+", "+lng);
return new String[]{tp[0],schemaNameURI[0],schemaNameURI[1],lng};
}
/**
*
* @param item
* @param container
* @return
*/
private static String ContainsControl(String[] item, ArrayList<String[]> container){
for(String[] cont: container){
logger.debug("MDFormat: "+cont[1]+" "+cont[2]);
logger.debug("MDFormat: confr "+cont[1]+" "+cont[2]);
if((cont[1].compareTo(item[1])==0) && (cont[2].compareTo(item[2])==0)) //&& ((cont[3].compareTo("anylanguage")==0) || cont[3].compareTo(item[3])==0)
return cont[0];
}
logger.debug("MDFormat: not yet present");
return null;
}
/**
*
* @param epr
* @throws RemoteException
*/
private static void insertMetadataCollection(EndpointReferenceType epr, ExtendedGSSCredential cred) throws RemoteException {
ResultSet res=null;
String tempQuery="";
try {
DBInterface.connect();
res = DBInterface.queryDB("select id from collection");
while(res.next())
tempQuery+=" $CollectionProfile/Profile/RelatedCollection/CollectionID/string() eq '"+res.getString(1)+"' or ";
tempQuery=tempQuery.substring(0, tempQuery.length()-4);
} catch (SQLException e1) {
logger.error("VDLModel: initialization error on inserMetadataCollection");
throw new RemoteException("VDLModel: initialization error on inserMetadataCollection",e1);
}
String MDcollectionQuery= "for $CollectionProfile in collection(\"/db/Profiles/MetadataCollection\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where "+tempQuery+" return <r><Id>{$CollectionProfile/UniqueID/string()}</Id><Name>{$CollectionProfile/Profile/Name/string()}</Name><Description>{$CollectionProfile/Profile/Description/string()}</Description><RelatedCollectionId>{$CollectionProfile/Profile/RelatedCollection/CollectionID/string()}</RelatedCollectionId></r>";
String results=makeQueryDIS(epr, cred, MDcollectionQuery);
ArrayList<String[]> MDFormatArray=new ArrayList<String[]>();
ArrayList<String[]> MDNativeArray=new ArrayList<String[]>();
ArrayList<String[]> MDDerivableArray=new ArrayList<String[]>();
String[][] resultsParsed= parseResults(results, "r");
String uuid;
String metadataFormatQuery;
String[] singleNativeMDF;
String[] singleDerivableMDF;
/*
MetadataBrokerPortType metadataBroker=null;
MetadataBrokerServiceAddressingLocator mbLoc;
boolean brokerConnected=true;
//connecting to metadata broker service
try{
RunningInstanceManager ri=DISHLSClient.getRunningInstanceManager(cred, epr);
String[] eprs= ri.getEPRsRIFromClassAndName("MetadataManagement", "MetadataBrokerService", "diligentproject/metadatamanagement/metadatabrokerservice", cred, epr);
EndpointReferenceType eprTemp= new EndpointReferenceType();
eprTemp.setAddress(new AttributedURI(eprs[0]));
//metadata Broker Service connection
mbLoc = new MetadataBrokerServiceAddressingLocator() ;
metadataBroker=mbLoc.getMetadataBrokerPortTypePort(eprTemp);
if (ModelFactoryService.isSecurityEnabled){
ConfigureSecurity.setSecurity(((javax.xml.rpc.Stub) metadataBroker), true, cred, GSIConstants.GSI_MODE_FULL_DELEG );
}
}catch(Exception e){
logger.error("error contacting metadata broker Service "+e.getMessage());
//e.printStackTrace();
brokerConnected=false;
}
*/
for(String[] singleColl: resultsParsed)
{
//generate the uid for MetadataFormat
uuid=uuidMFGEN.nextUUID();
String existID;
//retriving the metadataFormat for the current MDCollection
metadataFormatQuery="for $MetadataFormat in collection(\"/db/Profiles/MetadataCollection\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $MetadataFormat/UniqueID/string() eq '"+singleColl[0]+"' return <r><id>"+uuid+"</id><Name>{$MetadataFormat/Profile/MetadataFormat/Name/string()}</Name><SchemaURI>{$MetadataFormat/Profile/MetadataFormat/SchemaURI/string()}</SchemaURI><lng>{$MetadataFormat/Profile/MetadataFormat/Language/string()}</lng></r>";
results=makeQueryDIS(epr, cred, metadataFormatQuery);
String[][] resultsMDFParsed= parseResults(results, "r");
if((existID=ContainsControl(resultsMDFParsed[0], MDFormatArray))==null)
{
MDFormatArray.add(resultsMDFParsed[0]);
existID=uuid;
}
//keep the CollectionID and the MDFID to insert into NAtiveMDF
singleNativeMDF=new String[3];
singleNativeMDF[0]=singleColl[0];
singleNativeMDF[1]=existID;
singleNativeMDF[2]=singleColl[3]; //i need it to evaluate doble results
MDNativeArray.add(singleNativeMDF);
/*
//Retrive Derivable MDF
if (brokerConnected){
try{
FindPossibleTransformationPrograms request= new FindPossibleTransformationPrograms();
TPIOType tpin= TPIOType.fromParams("collection", resultsMDFParsed[0][3],resultsMDFParsed[0][1]+"="+resultsMDFParsed[0][2] , "");
request.setInputFormat(tpin.toXMLString());
request.setOutputFormat(null);
FindPossibleTransformationProgramsResponse response=metadataBroker.findPossibleTransformationPrograms(request);
String[] tp=response.getTransformationProgram();
String[] parsedTP;
logger.debug("VDLModel Derivable : "+tp.length);
for(String singleTP: tp){
try{
logger.debug("MDF Derivable : Single tp is parsing ");
parsedTP=ParseTP(singleTP);
if (parsedTP!=null){
String temp;
//temp will contains the MDF id if it exists
if((temp=ContainsControl(parsedTP, MDFormatArray))==null){
logger.debug("MDF Derivable : not exist ");
// if it doesn't exists, insert it into database else
//add it only on DerivableMDF with MDFuid
uuid=uuidMFGEN.nextUUID();
parsedTP[0]=uuid;
MDFormatArray.add(parsedTP);
MDDerivableArray.add(new String[]{singleColl[0], uuid, "nothing"});
}else{
MDDerivableArray.add(new String[]{singleColl[0], temp , "nothing"});
logger.debug("MDF Derivable : exist ");
}
}
}catch(Exception e) {logger.error("error in Derivable MDF parsing "+e.getMessage()); e.printStackTrace();}
}
}catch (Exception e1){logger.error("error retreiving metadataBroker "+e1.getMessage());
e1.printStackTrace();
}
}
*/
//trying to parse TransformationProgram from DIS-IC
existID=null;
String queryDerivableMDF="";
try{
queryDerivableMDF="for $tp in collection(\"/db/Profiles/TransformationProgram\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $tp/Profile/TransformationProgram/Input/Type/string() eq 'collection' and $tp/Profile/TransformationProgram/Input/Schema/string() eq '"+resultsMDFParsed[0][1]+"="+resultsMDFParsed[0][2]+"' and $tp/Profile/TransformationProgram/Output/Type/string() eq 'collection' return " +
"<r><id>{$tp/UniqueID/string()}</id><SchemaName>{$tp/Profile/TransformationProgram/Output/Schema/string()}</SchemaName><lng>anylanguage</lng></r>";
results=makeQueryDIS(epr, cred, queryDerivableMDF);
String[][] resultsDerivableMDFParsed= parseResults(results, "r");
for (String[] singleMDFDerived: resultsDerivableMDFParsed){
try{
String tpID=singleMDFDerived[0];
uuid=uuidMFGEN.nextUUID();
singleMDFDerived[0]=uuid;
String[] parsedTP=ParseTP(singleMDFDerived);
if((existID=ContainsControl(parsedTP, MDFormatArray))==null)
{
MDFormatArray.add(parsedTP);
existID=uuid;
}
singleDerivableMDF=new String[4];
singleDerivableMDF[0]=singleColl[0];
singleDerivableMDF[1]=existID;
singleDerivableMDF[2]=tpID;
singleDerivableMDF[3]=singleColl[3];
MDDerivableArray.add(singleDerivableMDF);
}catch(Exception e1){logger.error("VDLModel: error parsing derivable"); e1.printStackTrace();}
}
}catch(Exception e){logger.error("VDLModel: error retriving Derivable MDF for collection "+singleColl[0]); e.printStackTrace();}
}
//da cambiare (scandaloso)
ArrayList<String[]> tempRemove= new ArrayList<String[]>();
for(String[] tempDeriv:MDDerivableArray ){
for (String[] tempNative: MDNativeArray){
if (tempDeriv[3].compareTo(tempNative[2])==0 && (tempDeriv[1].compareTo(tempNative[1])==0)){
tempRemove.add(tempDeriv);
logger.debug("removed Doubled value");
}
}
}
for (String[] toRemove:tempRemove ) MDDerivableArray.remove(toRemove);
try{
DBInterface.connect();
DBInterface.InsertInto("mdcollection", resultsParsed, false);
DBInterface.InsertInto("mdformat", MDFormatArray.toArray(new String[0][0]), false);
DBInterface.InsertInto("nativemdf", MDNativeArray.toArray(new String[0][0]), true);
DBInterface.InsertInto("derivablemdf",MDDerivableArray.toArray(new String[0][0]), true);
}catch (SQLException e){logger.error("error DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
}
/**
*
* @param epr
* @throws RemoteException
*/
private static void insertCS(EndpointReferenceType epr, ExtendedGSSCredential cred) throws RemoteException {
String csQuery= "for $CS in collection(\"/db/Profiles/CS\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource return <r><Id>{$CS/UniqueID/string()}</Id><Name>{$CS/Profile/ProcessName/string()}</Name><Description>{$CS/Profile/Description/string()}</Description></r>";
String results=makeQueryDIS(epr, cred, csQuery);
String[][] resultsParsed= parseResults(results, "r");
try{
DBInterface.connect();
DBInterface.InsertInto("cs", resultsParsed, false);
}catch (SQLException e){logger.error("error DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
}
private static void insertQuality(EndpointReferenceType epr) throws RemoteException {
}
private static void insertDHN(EndpointReferenceType epr, ExtendedGSSCredential cred) throws RemoteException {
String dhnQuery="for $DHN in collection(\"/db/Profiles/DHN\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $DHN/Profile/DHNDescription/Type/string() eq 'Dynamic' or $DHN/Profile/DHNDescription/Type/string() eq 'SelfCleaning' return <r><Id>{$DHN/UniqueID/string()}</Id><Name>{$DHN/Profile/DHNDescription/Name/string()}</Name>" +
"<Security>{$DHN/Profile/DHNDescription/SecurityEnabled/string(@value)}</Security><UpTime>{$DHN/Profile/DHNDescription/Uptime/string()}</UpTime><VirtualAvailable>{$DHN/Profile/DHNDescription/MainMemory/string(@VirtualAvailable)}</VirtualAvailable><VirtualSize>{string($DHN/Profile/DHNDescription/MainMemory/string(@VirtualSize))}</VirtualSize>" +
"<LocalAvailableSpace>{$DHN/Profile/DHNDescription/LocalAvailableSpace/string()}</LocalAvailableSpace><Location>{$DHN/Profile/Site/Location/string()}</Location><Country>{$DHN/Profile/Site/Country/string()}</Country><Domain>{$DHN/Profile/Site/Domain/string()}</Domain></r>";
String results=makeQueryDIS(epr, cred, dhnQuery);
String[][] resultsDHNParsed= parseResults(results, "r");
String RIQuery="for $RI in collection(\"/db/Profiles/RunningInstance\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource return <r><id>{$RI/UniqueID/string()}</id><name>{$RI/Profile/ServiceName/string()}</name></r>";
results=makeQueryDIS(epr, cred, RIQuery);
String[][] resultsRIParsed= parseResults(results, "r");
ArrayList<String[]> DNHRelatedRIArray= new ArrayList<String[]>();
for (String[] singleDHN:resultsDHNParsed)
{
String[] riID;
try {
riID=DISHLSClient.getRunningInstanceManager(cred,epr).getAllRunningInstancesOnDHN(singleDHN[0], cred, epr);
} catch (DISHLSClientException e) {
logger.error("VDLModel: Error initializing DB with DHN and RI (DISHLSClient error)");
throw new RemoteException("Error querying DIS-IP (DISHLSClient error)", e);
} catch (DISHLSCredentialException e) {
logger.error("VDLModel: Error initializing DB with DHN and RI (Credential error)");
throw new RemoteException("Error querying DIS-IP (Credential error)", e);
}
//retreiving related RIID with DHNID
String[] temp;
for (String id: riID){
temp=new String[2];
temp[0]=singleDHN[0];
temp[1]=id;
DNHRelatedRIArray.add(temp);
}
}
/*
ArrayList<String[]> RIRelatedPKGArray= new ArrayList<String[]>();
for (String[] singleRI: resultsRIParsed){
}
*/
try{
DBInterface.connect();
DBInterface.InsertInto("dhn", resultsDHNParsed, false);
DBInterface.InsertInto("runninginstance", resultsRIParsed, false);
DBInterface.InsertInto("dhnrelatedri", DNHRelatedRIArray.toArray(new String[0][0]), false);
}catch (SQLException e){logger.error("error DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
}
private static void insertServices(EndpointReferenceType epr, ExtendedGSSCredential cred) throws RemoteException {
String csQuery= "for $SERVICE in collection(\"/db/Profiles/Service\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource return <r><Id>{$SERVICE/UniqueID/string()}</Id><Name>{$SERVICE/Profile/Name/string()}</Name><Class>{$SERVICE/Profile/Class/string()}</Class></r>";
String results=makeQueryDIS(epr, cred, csQuery);
String[][] resultsParsed= parseResults(results, "r");
try{
DBInterface.connect();
DBInterface.InsertInto("relatedserviceid", resultsParsed, false);
}catch (SQLException e){logger.error("error DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
}
public static void updateServices(EndpointReferenceType epr, ExtendedGSSCredential cred, String resourceID, int op) throws RemoteException {
switch (op){
case 0:
{
String serviceUpdateQuery="for $SERVICE in collection(\"/db/Profiles/Service\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $SERVICE/UniqueID/string() eq '"+op+"' return <r><Id>{$SERVICE/UniqueID/string()}</Id><Name>{$SERVICE/Profile/Name/string()}</Name><Class>{$SERVICE/Profile/Class/string()}</Class></r>";
String results=makeQueryDIS(epr, cred, serviceUpdateQuery);
String[][] resultsParsed= parseResults(results, "r");
try{
DBInterface.connect();
DBInterface.InsertInto("relatedserviceid", resultsParsed, false);
}catch (SQLException e){logger.error("error DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
case 1:
{
try{
DBInterface.connect();
DBInterface.ExecuteUpdate("Delete from relatedserviceid where id='"+resourceID+"'");
}catch (SQLException e){logger.error("error DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
}
}
public static void updateCollection(EndpointReferenceType epr, ExtendedGSSCredential cred, String resourceID, int op) throws RemoteException {
switch (op){
case 0:
{
String collectionQuery= "for $CollectionProfile in collection(\"/db/Profiles/Collection\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $CollectionProfile/Profile/IsUserCollection[string(@value) eq \"true\"] and $CollectionProfile/UniqueID/string() eq '"+resourceID+"' return <r><Id>{$CollectionProfile/UniqueID/string()}</Id><Name>{$CollectionProfile/Profile/Name/string()}</Name><Description>{$CollectionProfile/Profile/Description/string()}</Description><NumberOfMembers>{$CollectionProfile/Profile/NumberOfMembers/string()}</NumberOfMembers><CreationTime>{$CollectionProfile/Profile/CreationTime/string()}</CreationTime><LastUpdateTime>{$CollectionProfile/Profile/LastUpdateTime/string()}</LastUpdateTime></r>";
String results=makeQueryDIS(epr, cred, collectionQuery);
String[][] resultsParsed= parseResults(results, "r");
try{
DBInterface.connect();
DBInterface.InsertInto("collection", resultsParsed, false);
}catch (SQLException e){logger.error("error updating collection on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
case 1:
{
try{
DBInterface.connect();
DBInterface.ExecuteUpdate("Delete from collection where id='"+resourceID+"'");
}catch (SQLException e){logger.error("error updating collection on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
}
}
public static void updateDHN(EndpointReferenceType epr, ExtendedGSSCredential cred, String resourceID, int op) throws RemoteException {
switch (op){
case 0:
{
String dhnQuery="for $DHN in collection(\"/db/Profiles/DHN\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where ($DHN/Profile/DHNDescription/Type/string() eq 'Dynamic' or $DHN/Profile/DHNDescription/Type/string() eq 'SelfCleaning') and $DHN/UniqueID/string() eq '"+resourceID+"' return <r><Id>{$DHN/UniqueID/string()}</Id><Name>{$DHN/Profile/DHNDescription/Name/string()}</Name>" +
"<Security>{$DHN/Profile/DHNDescription/SecurityEnabled/string(@value)}</Security><UpTime>{$DHN/Profile/DHNDescription/Uptime/string()}</UpTime><VirtualAvailable>{$DHN/Profile/DHNDescription/MainMemory/string(@VirtualAvailable)}</VirtualAvailable><VirtualSize>{string($DHN/Profile/DHNDescription/MainMemory/string(@VirtualSize))}</VirtualSize>" +
"<LocalAvailableSpace>{$DHN/Profile/DHNDescription/LocalAvailableSpace/string()}</LocalAvailableSpace><Location>{$DHN/Profile/Site/Location/string()}</Location><Country>{$DHN/Profile/Site/Country/string()}</Country><Domain>{$DHN/Profile/Site/Domain/string()}</Domain></r>";
String results=makeQueryDIS(epr, cred, dhnQuery);
String[][] resultsDHNParsed= parseResults(results, "r");
ArrayList<String[]> DNHRelatedRIArray= new ArrayList<String[]>();
String RIQuery="for $RI in collection(\"/db/Profiles/RunningInstance\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource return <r><id>{$RI/UniqueID/string()}</id><name>{$RI/Profile/ServiceName/string()}</name></r>";
results=makeQueryDIS(epr, cred, RIQuery);
String[][] resultsRIParsed= parseResults(results, "r");
String[] riID;
try {
riID=DISHLSClient.getRunningInstanceManager(cred,epr).getAllRunningInstancesOnDHN(resourceID, cred, epr);
} catch (DISHLSClientException e) {
logger.error("VDLModel: Error initializing DB with DHN and RI (DISHLSClient error)");
throw new RemoteException("Error querying DIS-IP (DISHLSClient error)", e);
} catch (DISHLSCredentialException e) {
logger.error("VDLModel: Error initializing DB with DHN and RI (Credential error)");
throw new RemoteException("Error querying DIS-IP (Credential error)", e);
}
//retreiving related RIID with DHNID
String[] temp;
for (String id: riID){
temp=new String[2];
temp[0]=resourceID;
temp[1]=id;
DNHRelatedRIArray.add(temp);
}
try{
DBInterface.connect();
DBInterface.InsertInto("dhn", resultsDHNParsed, false);
DBInterface.InsertInto("runninginstance", resultsRIParsed, false);
DBInterface.InsertInto("dhnrelatedri", DNHRelatedRIArray.toArray(new String[0][0]), false);
}catch (SQLException e){logger.error("error updating DHN on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
case 1:
{
try{
DBInterface.connect();
DBInterface.ExecuteUpdate("Delete from dhn where id='"+resourceID+"'");
DBInterface.ExecuteUpdate("Delete from dhnrelatedri where DHNID='"+resourceID+"'");
}catch (SQLException e){logger.error("error updating DHN on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
}
}
public static void updateCS(EndpointReferenceType epr, ExtendedGSSCredential cred, String resourceID, int op) throws RemoteException {
switch (op){
case 0:
{
String csQuery= "for $CS in collection(\"/db/Profiles/CS\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $CS/UniqueID/string() eq '"+resourceID+"' return <r><Id>{$CS/UniqueID/string()}</Id><Name>{$CS/Profile/ProcessName/string()}</Name><Description>{$CS/Profile/Description/string()}</Description></r>";
String results=makeQueryDIS(epr, cred, csQuery);
String[][] resultsParsed= parseResults(results, "r");
try{
DBInterface.connect();
DBInterface.InsertInto("cs", resultsParsed, false);
}catch (SQLException e){logger.error("error updating CS on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
case 1:
{
try{
DBInterface.connect();
DBInterface.ExecuteUpdate("Delete from cs where id='"+resourceID+"'");
}catch (SQLException e){logger.error("error updating CS on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
}
}
public static void updateRI(EndpointReferenceType epr, ExtendedGSSCredential cred, String resourceID, int op) throws RemoteException {
switch (op){
case 0:
{
String RIQuery="for $RI in collection(\"/db/Profiles/RunningInstance\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $RI/UniqueID/string() eq '"+resourceID+"' return <r><id>{$RI/UniqueID/string()}</id><name>{$RI/Profile/ServiceName/string()}</name></r>";
String relatedDHNQuery="for $RI in collection(\"/db/Profiles/RunningInstance\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource where $RI/UniqueID/string() eq '"+resourceID+"' return <r><dhnRelated>{$RI/Profile/DHN/string(@UniqueID)}</dhnRelated><id>{$RI/UniqueID/string()}</id></r>";
String results=makeQueryDIS(epr, cred, RIQuery);
String resultsRelatedDhn=makeQueryDIS(epr, cred, relatedDHNQuery);
String[][] resultsRIParsed= parseResults(results, "r");
String[][] resultRelatedDhn= parseResults(resultsRelatedDhn, "r");
try{
DBInterface.connect();
DBInterface.InsertInto("runninginstance", resultsRIParsed, false);
DBInterface.InsertInto("dhnrelatedri", resultRelatedDhn, false);
}catch (SQLException e){logger.error("error updating RI on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
case 1:
{
try{
DBInterface.connect();
DBInterface.ExecuteUpdate("Delete from runninginstance where id='"+resourceID+"'");
DBInterface.ExecuteUpdate("Delete from dhnrelatedri where RIID='"+resourceID+"'");
}catch (SQLException e){logger.error("error updating RI on DB"); e.printStackTrace(); throw new RemoteException(e.getMessage(),e); }
break;
}
}
}
}

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package org.gcube.vremanagement.vremodeler.impl;
import java.io.StringReader;
import java.net.URL;
import java.rmi.RemoteException;
import java.sql.ResultSet;
import java.util.ArrayList;
import javax.naming.Context;
import javax.naming.InitialContext;
import javax.naming.NameNotFoundException;
import javax.naming.NamingException;
import javax.xml.namespace.QName;
import javax.xml.rpc.server.ServiceLifecycle;
import org.apache.axis.message.addressing.AttributedURI;
import org.apache.axis.message.addressing.EndpointReferenceType;
import org.gcube.common.core.contexts.GCUBEServiceContext;
import org.gcube.common.core.porttypes.GCUBEStartupPortType;
import org.globus.wsrf.Constants;
import org.globus.wsrf.NoResourceHomeException;
import org.globus.wsrf.ResourceContext;
import org.globus.wsrf.ResourceContextException;
import org.globus.wsrf.ResourceHome;
import org.globus.wsrf.ResourceKey;
import org.globus.wsrf.container.ServiceHost;
import org.globus.wsrf.encoding.ObjectDeserializer;
import org.globus.wsrf.impl.SimpleResourceKey;
import org.globus.wsrf.tests.basic.CreateResource;
import org.globus.wsrf.tests.basic.CreateResourceResponse;
import org.globus.wsrf.utils.AddressingUtils;
import org.gridforum.jgss.ExtendedGSSCredential;
import org.oasis.wsrf.lifetime.Destroy;
import org.xml.sax.InputSource;
import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;
public class ModelFactoryService extends GCUBEStartupPortType{
@Override
protected GCUBEServiceContext getServiceContext() {
// TODO Auto-generated method stub
return null;
}
/* Implementation of createResource Operation */
public CreateResourceResponse createResource(CreateResource request) throws RemoteException {
return null;
}
/**
* return the existing DL Name
*
* @param request void
* @return array of string qith exististin dl names
* @throws RemoteException -
*/
public GetExistingNamesResponseMessage getExistingNamesDLs(GetExistingNamesRequestMessage request) throws RemoteException {
GetExistingNamesResponseMessage response=new GetExistingNamesResponseMessage();
ArrayList<String> toReturn= new ArrayList<String>();
ResultSet res=null;
ExtendedGSSCredential cred;
if (isSecurityEnabled){
try {
cred=credentialsListener.getCredentials(new NAL().getDefaultVO());
if (cred==null) logger.debug("null cerdentials");
logger.debug("VDLModel - initDB - with credential");
} catch (Exception e) {
logger.debug("VDLModel - initDB - null credential");
cred=null;
}
}else cred=null;
try{
DBInterface.connect();
res= DBInterface.queryDB("select DL.name from DL;");
while (res.next()) toReturn.add(res.getString(1));
String customXquery="for $query in collection(\"/db/Profiles/VDL\")//Document/Data/child::*[local-name()='Profile']/DILIGENTResource return <name>$query/Profile/Name/string()</name>";
String queryResult= DISHLSClient.getGeneralQueryManager(cred, factoryEPR).queryDISIC(customXquery,cred, factoryEPR);
logger.debug("VDL get Name QUERY: "+queryResult);
}catch(Exception e) {logger.error("VDL Model: error on DB"); throw new RemoteException("VDLModel: error on DB",e);}
response.setNames(toReturn.toArray(new String[0]));
return response;
}
/**
* Initialize the DB
*
* @param request void
* @return void
* @throws RemoteException remote exception
*/
public VoidType initDB(VoidType request) throws RemoteException {
logger.debug("initDB method");
ExtendedGSSCredential cred;
if (isSecurityEnabled){
try {
cred=credentialsListener.getCredentials(new NAL().getDefaultVO());
if (cred==null) logger.debug("null cerdentials");
logger.debug("VDLModel - initDB - with credential");
} catch (Exception e) {
logger.debug("VDLModel - initDB - null credential");
cred=null;
}
}else cred=null;
new InitThread(factoryEPR, cred).start();
return new VoidType();
}
/**
*
* @param request void
* @return String
* @throws RemoteException -
*/
public String getAllDLs(GetAllDLsMessageRequest request) throws RemoteException{
String toReturn = null;
ResultSet res=null;
try{
DBInterface.connect();
res= DBInterface.queryDB("select DL.name, DL.description, DL.status, DL.epr from DL;");
}catch(Exception e) {logger.error("VDL Model: error on DB"); throw new RemoteException("VDLModel: error on DB",e);}
try {
toReturn=XMLUtil.PrepareAllDLsXML(res);
} catch (Exception e) {
logger.error("VDLModel parsing error in function getAllDLs "+e.getMessage());
throw new RemoteException("VDLModel parsing error in function getAllDLs",e);
}
return toReturn;
}
protected ResourceHome getInstanceResourceHome() throws NoResourceHomeException, ResourceContextException {
ResourceHome home;
ResourceContext ctx;
logger.debug("DILIGENT: getInstanceResourceHome on ModelFactoryService");
ctx = ResourceContext.getResourceContext();
logger.debug("DILIGENT: Resource Context = " + ctx.toString() + "on getInstanceResourceHome on ModelFactoryService");
String homeLoc = Constants.JNDI_SERVICES_BASE_NAME + ctx.getService() + "/instanceHome";
try {
Context initialContext = new InitialContext();
home = (ResourceHome) initialContext.lookup(homeLoc);
} catch (NameNotFoundException e) {
throw new NoResourceHomeException();
} catch (NamingException e) {
throw new ResourceContextException("", e);
}
return home;
}
/**
*
* remove the DL instance
*
* @param request the id of DL to remove
* @return void
* @throws RemoteException -
*/
public RemoveDLResponseMessage removeDL(String request) throws RemoteException{
ResourceManager rMan;
try{
ResultSet res=DBInterface.queryDB("Select DL.epr from DL where DL.id='"+request+"';");
EndpointReferenceType dlEpr;
if (res.next()){
StringReader stringReader = new StringReader(res.getString(1));
InputSource inputSource = new InputSource(stringReader);
dlEpr = (EndpointReferenceType) ObjectDeserializer.deserialize(inputSource, EndpointReferenceType.class);
}else throw new Exception("DL not retreived in DB");
ModelServiceAddressingLocator msal=new ModelServiceAddressingLocator();
ModelPortType vdlModelPT=msal.getModelPortTypePort(dlEpr);
if (ModelFactoryService.isSecurityEnabled){
ExtendedGSSCredential cred=org.gcube.vremanagement.vremodeler.impl.credentialsListener.getCredentials((new NAL()).getDefaultVO());
rMan= DISIP.getResourceManager(cred,dlEpr);
ConfigureSecurity.setSecurity(((javax.xml.rpc.Stub) vdlModelPT), cred);
}else rMan= DISIP.getResourceManager(null,dlEpr);
rMan.remove(dlEpr);
vdlModelPT.destroy(new Destroy());
DBInterface.ExecuteUpdate("DELETE FROM DL where DL.id='"+request+"';");
}catch(Exception e){
logger.error("VDLModel: "+e.getMessage());
throw new RemoteException(e.getMessage(), e);}
return new RemoveDLResponseMessage();
}
}

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package org.gcube.vremanagement.vremodeler.impl;
import org.gcube.common.core.contexts.GCUBEPortTypeContext;
import org.gcube.common.core.contexts.GCUBEServiceContext;
public class ModelerContext extends GCUBEPortTypeContext{
@Override
public String getJNDIName() {
// TODO Auto-generated method stub
return null;
}
@Override
public String getNamespace() {
// TODO Auto-generated method stub
return null;
}
@Override
public GCUBEServiceContext getServiceContext() {
return null;
}
}

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package org.gcube.vremanagement.vremodeler.impl;
import org.gcube.common.core.contexts.GCUBEStatefulPortTypeContext;
import org.gcube.common.core.state.GCUBEWSHome;
public class ModelerHome extends GCUBEWSHome{
@Override
public GCUBEStatefulPortTypeContext getPortTypeContext() {
// TODO Auto-generated method stub
return null;
}
}

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package org.gcube.vremanagement.vremodeler.impl;
public class ModelerResource {
}

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package org.gcube.vremanagement.vremodeler.impl;
import org.gcube.common.core.contexts.GCUBEServiceContext;
public class ServiceContext extends GCUBEServiceContext{
@Override
protected String getJNDIName() {
// TODO Auto-generated method stub
return null;
}
}