abcd import of siblings correct setting in configuration

[taxeditor.git] / eu.etaxonomy.taxeditor.store / src / main / java / eu / etaxonomy / taxeditor / view / dataimport / SpecimenSearchWizard.java

diff --git a/eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/SpecimenSearchWizard.java b/eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/SpecimenSearchWizard.java
old mode 100755 (executable)
new mode 100644 (file)
index 56397ae..1d559c1
--- a/eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/SpecimenSearchWizard.java
+++ b/eu.etaxonomy.taxeditor.store/src/main/java/eu/etaxonomy/taxeditor/view/dataimport/SpecimenSearchWizard.java
@@ -1,4 +1,3 @@
-// $Id$
 /**
 * Copyright (C) 2013 EDIT
 * European Distributed Institute of Taxonomy
@@ -34,7 +33,6 @@ import eu.etaxonomy.cdm.ext.common.ServiceWrapperBase;
 import eu.etaxonomy.cdm.ext.occurrence.OccurenceQuery;
 import eu.etaxonomy.cdm.ext.occurrence.bioCase.BioCaseQueryServiceWrapper;
 import eu.etaxonomy.cdm.io.specimen.abcd206.in.Abcd206ImportConfigurator;
-import eu.etaxonomy.cdm.io.specimen.abcd206.in.Abcd206ImportReport;
 import eu.etaxonomy.cdm.io.specimen.abcd206.in.AbcdParseUtility;
 import eu.etaxonomy.cdm.io.specimen.abcd206.in.SpecimenImportReport;
 import eu.etaxonomy.cdm.io.specimen.abcd206.in.UnitAssociationWrapper;
@@ -78,62 +76,69 @@ public class SpecimenSearchWizard extends Wizard implements IImportWizard {
         Abcd206ImportConfigurator configurator =  CdmStore.getImportManager().AbcdConfigurator();
         configurator.setOccurenceQuery(query);
         configurator.setSourceUri(providerSelectionPage.getEndPoint());
+        configurator.setAddMediaAsMediaSpecimen(true);
         configurator.setDbSchemaValidation(DbSchemaValidation.CREATE);
-        if(CdmStore.getCurrentSessionManager().isRemoting() ) {
-            //Job job = CdmStore.getImportManager().createIOServiceJob(configurator, new File(source), SOURCE_TYPE.INPUTSTREAM);
-            //CdmStore.getImportManager().run(job);
-            try {
-                serviceWrapper = providerSelectionPage.getQueryServiceWrapper();
-                InputStream stream = null;
-
-                final IWorkbenchWindow window = PlatformUI.getWorkbench().getActiveWorkbenchWindow();
-                IWorkbenchPage activePart = window.getActivePage();
-                if (providerSelectionPage.getQueryType().equals(QueryType.BIOCASE)){
-                    stream =((BioCaseQueryServiceWrapper) serviceWrapper).query(query, configurator.getSourceUri());
-                    SpecimenImportReport report = new SpecimenImportReport();
-                    UnitAssociationWrapper unitNodesList = AbcdParseUtility.parseUnitsNodeList(stream, report);
-                    NodeList nodeList = unitNodesList.getAssociatedUnits();
-                    String prefix = unitNodesList.getPrefix();
-                    String associationType = unitNodesList.getAssociationType();
+        configurator.setIgnoreAuthorship(true);
+        configurator.setMoveNewTaxaToDefaultClassification(false);
+
+
+        //Job job = CdmStore.getImportManager().createIOServiceJob(configurator, new File(source), SOURCE_TYPE.INPUTSTREAM);
+        //CdmStore.getImportManager().run(job);
+        try {
+            serviceWrapper = providerSelectionPage.getQueryServiceWrapper();
+            InputStream stream = null;
+
+            final IWorkbenchWindow window = PlatformUI.getWorkbench().getActiveWorkbenchWindow();
+            IWorkbenchPage activePart = window.getActivePage();
+            if (providerSelectionPage.getQueryType().equals(QueryType.BIOCASE)){
+                stream =((BioCaseQueryServiceWrapper) serviceWrapper).query(query, configurator.getSourceUri());
+                SpecimenImportReport report = new SpecimenImportReport();
+                UnitAssociationWrapper unitNodesList = AbcdParseUtility.parseUnitsNodeList(stream, report);
+                NodeList nodeList = unitNodesList.getAssociatedUnits();
+                String prefix = unitNodesList.getPrefix();
+                String associationType = unitNodesList.getAssociationType();
+                if (nodeList != null){
                     URI uri =AbcdParseUtility.parseFirstUri(nodeList, report);
                     String content = AbcdParseUtility.parseFirstTextContent(nodeList);
                     System.out.println(content);
+                }
+
 
 
-                    SpecimenImportView specimenImportView = new SpecimenImportView();
-                    try {
-                        specimenImportView = (SpecimenImportView) activePart.showView(SpecimenImportView.ID);
-                        specimenImportView.setEndpoint(providerSelectionPage.getEndPoint());
-                        specimenImportView.setQuery(query);
-                        dataImportView = specimenImportView;
-                    } catch (PartInitException e) {
-                        // TODO Auto-generated catch block
-                        e.printStackTrace();
+                SpecimenImportView specimenImportView = new SpecimenImportView();
+                try {
+                    specimenImportView = (SpecimenImportView) activePart.showView(SpecimenImportView.ID);
+                    specimenImportView.setEndpoint(providerSelectionPage.getEndPoint());
+                    specimenImportView.setQuery(query);
+                    dataImportView = specimenImportView;
+                } catch (PartInitException e) {
+                    // TODO Auto-generated catch block
+                    e.printStackTrace();
 
-                    }
+                }
 
-                } else{
-                    try {
-                       
-                        dataImportView = (GbifResponseImportView) activePart.showView(GbifResponseImportView.ID, "query_"+query.toString().replaceAll(",", ""), IWorkbenchPage.VIEW_ACTIVATE);
-                        dataImportView.setQuery(query);                
-                               //      (GbifResponseImportView) activePart.showView(GbifResponseImportView.ID);getWorkbench().getActiveWorkbenchWindow().getActivePage()
-                             // .showView(GbifResponseImportView.ID, "query_"+query.toString().replaceAll(",", ""),IWorkbenchPage.VIEW_ACTIVATE);
+            } else{
+                try {
 
-                    } catch (PartInitException e) {
-                        // TODO Auto-generated catch block
-                        e.printStackTrace();
-                    }
+                    dataImportView = (GbifResponseImportView) activePart.showView(GbifResponseImportView.ID, "query_"+query.toString().replaceAll(",", ""), IWorkbenchPage.VIEW_ACTIVATE);
+                    dataImportView.setQuery(query);
+                       //      (GbifResponseImportView) activePart.showView(GbifResponseImportView.ID);getWorkbench().getActiveWorkbenchWindow().getActivePage()
+                         // .showView(GbifResponseImportView.ID, "query_"+query.toString().replaceAll(",", ""),IWorkbenchPage.VIEW_ACTIVATE);
 
+                } catch (PartInitException e) {
+                    // TODO Auto-generated catch block
+                    e.printStackTrace();
                 }
 
-
-            } catch (IOException e) {
-                // TODO Auto-generated catch block
-                e.printStackTrace();
             }
-           // CdmStore.getImportManager().run(configurator);
+
+
+        } catch (IOException e) {
+            // TODO Auto-generated catch block
+            e.printStackTrace();
         }
+       // CdmStore.getImportManager().run(configurator);
+
 //        try {
 //            switch (providerSelectionPage.getQueryType()) {
 //            case BIOCASE:
@@ -161,7 +166,7 @@ public class SpecimenSearchWizard extends Wizard implements IImportWizard {
 ////                }
 ////            });
             Job queryJob = new QueryJob("Query specimen provider", dataImportView);
-            queryJob.schedule();
+           queryJob.schedule();
 
         return true;
     }