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NIHVIVO-1499 Refactor merge and permanent URI utilities

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This commit is contained in:
ass92 2010-12-14 22:18:00 +00:00
parent c0cbbfacc5
commit e6b1b37326
1 changed files with 12 additions and 192 deletions
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200
webapp/src/edu/cornell/mannlib/vitro/webapp/controller/jena/JenaIngestController.java
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@ -512,7 +512,8 @@ public class JenaIngestController extends BaseEditController {
request.setAttribute("bodyJsp",PERMANENT_URI); request.setAttribute("bodyJsp",PERMANENT_URI);
} }
else if(oldModel!=null){ else if(oldModel!=null){
doPermanentURI(oldModel,newModel,oldNamespace,newNamespace,dNamespace,maker,vreq); JenaIngestUtils utils = new JenaIngestUtils();
utils.doPermanentURI(oldModel,newModel,oldNamespace,newNamespace,dNamespace,maker,vreq);
request.setAttribute("title","Ingest Menu"); request.setAttribute("title","Ingest Menu");
request.setAttribute("bodyJsp",INGEST_MENU_JSP); request.setAttribute("bodyJsp",INGEST_MENU_JSP);
} }
@ -523,7 +524,14 @@ public class JenaIngestController extends BaseEditController {
String uri1 = vreq.getParameter("uri1"); String uri1 = vreq.getParameter("uri1");
String uri2 = vreq.getParameter("uri2"); String uri2 = vreq.getParameter("uri2");
if(uri1!=null){ if(uri1!=null){
String result = doMerge(uri1,uri2,response,request); JenaIngestUtils utils = new JenaIngestUtils();
OntModel baseOntModel = (OntModel) getServletContext().getAttribute("baseOntModel");
OntModel ontModel = (OntModel)
getServletContext().getAttribute("jenaOntModel");
OntModel infOntModel = (OntModel)
getServletContext().getAttribute(JenaBaseDao.INFERENCE_ONT_MODEL_ATTRIBUTE_NAME);
String result = utils.doMerge(uri1,uri2,baseOntModel,ontModel,infOntModel);
request.getSession().setAttribute("leftoverModel", utils.getLeftOverModel());
request.setAttribute("result",result); request.setAttribute("result",result);
request.setAttribute("title","Merge Individuals"); request.setAttribute("title","Merge Individuals");
request.setAttribute("bodyJsp",MERGE_RESULT); request.setAttribute("bodyJsp",MERGE_RESULT);
@ -1032,196 +1040,8 @@ public class JenaIngestController extends BaseEditController {
new JenaIngestWorkflowProcessor(jenaOntModel.getIndividual(workflowURI),getVitroJenaModelMaker(vreq)).run(jenaOntModel.getIndividual(workflowStepURI)); new JenaIngestWorkflowProcessor(jenaOntModel.getIndividual(workflowURI),getVitroJenaModelMaker(vreq)).run(jenaOntModel.getIndividual(workflowStepURI));
} }
private void doPermanentURI(String oldModel,String newModel,String oldNamespace,
String newNamespace,String dNamespace,ModelMaker maker,VitroRequest vreq){
WebappDaoFactory wdf = vreq.getFullWebappDaoFactory();
Model m = maker.getModel(oldModel);
Model saveModel = maker.getModel(newModel);
Model tempModel = ModelFactory.createDefaultModel();
ResIterator rsItr = null;
ArrayList<String> urlCheck = new ArrayList<String>();
String changeNamespace = null;
boolean urlFound = false;
if(!oldModel.equals(newModel)){
StmtIterator stmtItr = m.listStatements();
while(stmtItr.hasNext()){
Statement stmt = stmtItr.nextStatement();
tempModel.add(stmt);
}
rsItr = tempModel.listResourcesWithProperty((Property)null);
}
else{
rsItr = m.listResourcesWithProperty((Property)null);
}
String uri = null;
while(rsItr.hasNext()){
Resource res = rsItr.next();
if(oldNamespace.equals(res.getNameSpace())){
if(!newNamespace.equals("")){
do{
uri = getUnusedURI(newNamespace,wdf);
if(!urlCheck.contains(uri)){
urlCheck.add(uri);
urlFound = true;
}
}while(!urlFound);
urlFound = false;
}
else if(dNamespace.equals(vreq.getFullWebappDaoFactory().getDefaultNamespace())){
try{
do{
uri = wdf.getIndividualDao().getUnusedURI(null);
if(!urlCheck.contains(uri)){
urlCheck.add(uri);
urlFound = true;
}
}while(!urlFound);
urlFound = false;
}catch(InsertException ex){
log.error("could not create uri");
}
}
ResourceUtils.renameResource(res, uri);
}
}
boolean statementDone = false;
if(!newNamespace.equals("")){
changeNamespace = newNamespace;
}
else if(dNamespace.equals(vreq.getFullWebappDaoFactory().getDefaultNamespace())){
changeNamespace = dNamespace;
}
if(!oldModel.equals(newModel)){
StmtIterator stmtItr = tempModel.listStatements();
while(stmtItr.hasNext()){
statementDone = false;
Statement stmt = stmtItr.nextStatement();
Resource sRes = stmt.getSubject();
Resource oRes = null;
if(sRes.getNameSpace().equals(changeNamespace)){
saveModel.add(stmt);
statementDone = true;
}
try{
oRes = (Resource)stmt.getObject();
if(oRes.getNameSpace().equals(changeNamespace) && !statementDone){
saveModel.add(stmt);
statementDone = true;
}
}
catch(Exception e){
continue;
}
}
}
}
private String getUnusedURI(String newNamespace,WebappDaoFactory wdf){
String uri = null;
String errMsg = null;
Random random = new Random();
boolean uriIsGood = false;
int attempts = 0;
while( uriIsGood == false && attempts < 30 ){
uri = newNamespace + "n" + random.nextInt( Math.min(Integer.MAX_VALUE,(int)Math.pow(2,attempts + 13)) );
errMsg = wdf.checkURI(uri);
if( errMsg != null)
uri = null;
else
uriIsGood = true;
attempts++;
}
return uri;
}
private String doMerge(String uri1, String uri2,HttpServletResponse response,HttpServletRequest request){
OntModel baseOntModel = (OntModel) getServletContext().getAttribute("baseOntModel");
OntModel ontModel = (OntModel)
getServletContext().getAttribute("jenaOntModel");
OntModel infOntModel = (OntModel)
getServletContext().getAttribute(JenaBaseDao.INFERENCE_ONT_MODEL_ATTRIBUTE_NAME);
boolean functionalPresent = false;
Resource res1 = baseOntModel.getResource(uri1);
Resource res2 = baseOntModel.getResource(uri2);
String result = null;
baseOntModel.enterCriticalSection(Lock.WRITE);
StmtIterator stmtItr1 = baseOntModel.listStatements(res1,(Property)null,(RDFNode)null);
StmtIterator stmtItr2 = baseOntModel.listStatements(res2,(Property)null,(RDFNode)null);
StmtIterator stmtItr3 = baseOntModel.listStatements((Resource)null,(Property)null,(RDFNode)res2);
if(!stmtItr1.hasNext()){
result = "resource 1 not present";
res1.removeAll((Property)null);
baseOntModel.leaveCriticalSection();
return result;
}
else if(!stmtItr2.hasNext()){
result = "resource 2 not present";
res2.removeAll((Property)null);
baseOntModel.leaveCriticalSection();
return result;
}
int counter = 0;
Model leftoverModel = ModelFactory.createDefaultModel();
ontModel.enterCriticalSection(Lock.WRITE);
infOntModel.enterCriticalSection(Lock.WRITE);
try{
while(stmtItr2.hasNext()){
Statement stmt = stmtItr2.next();
Property prop = stmt.getPredicate();
OntProperty oprop = baseOntModel.getOntProperty(prop.getURI());
if(oprop!=null && oprop.isFunctionalProperty()){
leftoverModel.add(res2,stmt.getPredicate(),stmt.getObject());
functionalPresent = true;
}
else{
baseOntModel.add(res1,stmt.getPredicate(),stmt.getObject());
ontModel.add(res1,stmt.getPredicate(),stmt.getObject());
infOntModel.add(res1,stmt.getPredicate(),stmt.getObject());
counter++;
}
}
while(stmtItr3.hasNext()){
Statement stmt = stmtItr3.nextStatement();
Resource sRes = stmt.getSubject();
Property sProp = stmt.getPredicate();
baseOntModel.add(sRes,sProp,res1);
ontModel.add(sRes,sProp,res1);
infOntModel.add(sRes,sProp,res1);
}
Resource ontRes = ontModel.getResource(res2.getURI());
Resource infRes = infOntModel.getResource(res2.getURI());
baseOntModel.removeAll((Resource)null,(Property)null,(RDFNode)res2);
ontModel.removeAll((Resource)null,(Property)null,(RDFNode)res2);
infOntModel.removeAll((Resource)null,(Property)null,(RDFNode)res2);
res2.removeAll((Property)null);
ontRes.removeAll((Property)null);
infRes.removeAll((Property)null);
}
finally{
baseOntModel.leaveCriticalSection();
infOntModel.leaveCriticalSection();
ontModel.leaveCriticalSection();
}
request.getSession().setAttribute("leftoverModel", leftoverModel);
if(counter>0 && functionalPresent)
result = "merged " + counter + " statements. Some statements could not be merged.";
else if(counter>0 && !functionalPresent)
result = "merged " + counter + " statements.";
else if(counter==0)
result = "No statements merged";
return result;
}
private String doRename(String oldNamespace,String newNamespace,HttpServletResponse response){ private String doRename(String oldNamespace,String newNamespace,HttpServletResponse response){
String userURI = null; String userURI = null;