Docker fixes

Author: ablx

service/src/main/java/ml/anon/docmgmt/controller/DocumentController.java

@@ -41,6 +41,9 @@ public class DocumentController {
     @Autowired
     private EntityLinks links;
 
+    @Autowired
+    private ListPreparation listPreparation = new ListPreparation();
+
     @Autowired
     private TokenizerService tokenizerService;
 
@@ -64,7 +67,7 @@ public ResponseEntity<Document> bulkUpload(@RequestParam("doc") String file,
     @RequestMapping(value = "/document/{id}", method = RequestMethod.PUT)
     public ResponseEntity<Document> update(@PathVariable String id, @RequestBody Document doc) throws OutdatedException {
         log.info("update id " + id);
-        ListPreparation listPreparation = new ListPreparation();
+
         Document one = repo.findOne(id);
         checkVersion(doc);
         one.setState(doc.getState());

service/src/main/java/ml/anon/docmgmt/extraction/ListPreparation.java

@@ -7,6 +7,7 @@
 import ml.anon.anonymization.model.Anonymization;
 import ml.anon.docmgmt.service.TokenizerService;
 import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.stereotype.Component;
 
 import java.lang.reflect.Array;
 import java.util.*;
@@ -15,30 +16,33 @@
  * Compares the originals of the anonymizations and dismisses duplicates
  * Created by matthias on 20.08.2017
  */
+@Component
 public class ListPreparation {
 
     @Autowired
-    TokenizerService tokenizerService = new TokenizerService();
+    private TokenizerService tokenizerService;
 
     /**
      * Removes the duplicates by looking at the original value of the anonymization objects
+     *
      * @param anonymizations list of anonymizations from ml and rulebased approaches
      * @return the list of anonymizations without duplicates
      */
     private ArrayList<Anonymization> removeDuplicates(List<Anonymization> anonymizations) {
         ArrayList<Anonymization> noDuplicate = new ArrayList<Anonymization>();
 
         ObjectMapper mapper = new ObjectMapper();
-        anonymizations = mapper.convertValue(anonymizations, new TypeReference<List<Anonymization>>(){});
+        anonymizations = mapper.convertValue(anonymizations, new TypeReference<List<Anonymization>>() {
+        });
         boolean contained = false;
         for (Anonymization anon1 : anonymizations) {
             for (Anonymization anon2 : noDuplicate) {
-                if(anon1.getData().getOriginal().equals(anon2.getData().getOriginal())){
+                if (anon1.getData().getOriginal().equals(anon2.getData().getOriginal())) {
                     contained = true;
                     break;
                 }
             }
-            if(!contained){
+            if (!contained) {
                 noDuplicate.add(anon1);
             }
             contained = false;
@@ -49,15 +53,16 @@ private ArrayList<Anonymization> removeDuplicates(List<Anonymization> anonymizat
     /**
      * Sorts the Anonymization list by the number of tokens the original holds, to cope with encapsulated
      * anonymizations.
+     *
      * @param anonymizations list to sort by token number
      * @return the sorted list of {@link Anonymization}s
      */
     private List<Anonymization> sortByTokenNumber(List<Anonymization> anonymizations) {
 
         HashMap<Anonymization, Integer> anonymizationTokenNumber = new HashMap<>();
         anonymizations.forEach(anonymization ->
-            anonymizationTokenNumber.put(anonymization, tokenizerService
-                    .tokenize(anonymization.getData().getOriginal()).size())
+                anonymizationTokenNumber.put(anonymization, tokenizerService
+                        .tokenize(anonymization.getData().getOriginal()).size())
         );
 
         Collections.sort(anonymizations,
@@ -70,10 +75,11 @@ private List<Anonymization> sortByTokenNumber(List<Anonymization> anonymizations
 
     /**
      * Applies the duplicate removal and sort by number of tokens
+     *
      * @param anonymizations list to apply operations on
      * @return sorted {@link Anonymization} list without duplicates
      */
-    public List<Anonymization> prepareAnonymizationList(List<Anonymization> anonymizations){
+    public List<Anonymization> prepareAnonymizationList(List<Anonymization> anonymizations) {
 
         anonymizations = this.removeDuplicates(anonymizations);
         anonymizations = this.sortByTokenNumber(anonymizations);