.env

@@ -1,5 +1,6 @@
-PROFILE=docker
-
-# Version of Elastic products
-ELK_VERSION=7.17.4
-STACK_VERSION=7.17.4
+TAG=6.3.0
+ENV=prod
+PROFILE=production
+AOT=aot
+ELASTIC_VERSION=6.3.0
+ELASTIC_PASSWORD=changeme

.gitignore

@@ -46,6 +46,3 @@ ELK.Docker/shared/data-elk/
 .settings/
 bin/
 *.classpath
-openDMP/dmp-backend/uploads/
-openDMP/dmp-backend/tmp/
-dmp-frontend/.angular/

README.md

@@ -1,69 +0,0 @@
-
-**Important note: The deployment, troubleshooting, maintenance and operation of on-premises / self-served OpenDMP instances for development, testing or production use, shall be the sole responsibility of the adopter. No support is guaranteed by OpenDMP implentation team for issues that may be encountered during deployment, extension or operation of such installations.**
-
-**Documentation is provided on a best-effort basis for the code and processes around the development, deployment and operation of OpenDMP. If you find any misalignment of the actual processes with the related documentation, please let us know so that the misalignment is addressed for the benefit of future adopters.**
-
-
-# Using Docker Compose with Argos
-
-ARGOS is an open extensible service that simplifies the management, validation, monitoring and maintenance and of Data Management Plans. It allows actors (researchers, managers, supervisors etc) to create actionable DMPs that may be freely exchanged among infrastructures for carrying out specific aspects of the Data management process in accordance with the intentions and commitment of Data owners.
-
-## Before running the docker compose commands, configurations must be set
-
-### Database
-
-First of all, database must be configured
-
-The only file that has to be changed is **/dmp-db-scema/Docker/dmp-db.env**
-
-```bash
-ADMIN_USER: Admin username (app)
-ADMIN_PASSWORD: Admin password (app)
-
-POSTGRES_DB: database name
-POSTGRES_USER: Admin username (database)
-POSTGRES_PASSWORD: Admin password (database)
-```
-
-### Backend
-
-Secondly, a few more options should be asigned
-
-The file **/dmp-backend/web/src/main/resources/config/application-docker.properties** contains all the necessary properties
-
-Values to be modified:
-```bash
-database.url: the url that is used to connect to database (JDBC based)
-database.username: database admin username
-database.password: database admin password
-
-elasticsearch.*(optional): setup elastic, check Elasticsearch(optional) section below
-
-google.login.clientId(optional): google as login provider
-```
-**NOTE:** if you want to configure and integrate other providers, check this reference [Setup configurable login](https://code-repo.d4science.org/MaDgiK-CITE/argos/wiki/Page-2A:-Setup-configurable-login)
-
-If you provide google.login.clientId, then the same value should be set in the field named **loginProviders.googleConfiguration.clientId** which belongs to **/dmp-frontend/src/assets/config/config.json**
-
-## You are ready to build and run the entire application using Docker-compose
-
-1. Go to the project's root directory
-2. Type in the **Terminal** `docker volume create --name=dmpdata`
-3. Type in the **Terminal** `docker-compose up -d --build`
-4. After it's complete your application is running on [http://localhost:8080](http://localhost:8080)
-
-### Elasticsearch(optional)
-If you want to set up elasticsearch, you will need the password for the **elastic** user
-
-After your application is running, type in the **Terminal** `docker exec -it elasticsearch /bin/sh`
-
-Run the command `cat data/passwords.txt` in the shell and save its output
-
-Finally, run `exit` to get back to your terminal
-
-The elastic's password that you get has to be set in the **elasticsearch.password** property in the backend configuration
-
-Rerun the application
-
-1. Type in the **Terminal** `docker-compose down`
-2. Type in the **Terminal** `docker-compose up -d --build`

dmp-backend/Docker/dmp-backend.env

@@ -1 +1 @@
-PROFILE=docker
+PROFILE=staging

dmp-backend/Dockerfile

@@ -1,22 +1,22 @@
-FROM maven:3-jdk-11 AS MAVEN_BUILD
+FROM maven:3-jdk-8-alpine AS MAVEN_BUILD
 
  
 
 COPY pom.xml /build/
 COPY data /build/data/
 COPY elastic /build/elastic/
-#COPY logging /build/logging/
+COPY logging /build/logging/
 COPY queryable /build/queryable/
 COPY web /build/web/
 
  
 
 WORKDIR /build/
-RUN mvn package -q
+RUN mvn package
 
  
 
-FROM amazoncorretto:11
+FROM openjdk:8-jre-alpine
 WORKDIR /app
 
 COPY --from=MAVEN_BUILD /build/web/target/web-1.0-SNAPSHOT.jar /app.jar

dmp-backend/Dockerfile.CI

@@ -1,4 +1,4 @@
-FROM maven:3-openjdk-11 AS MAVEN_BUILD
+FROM maven:3-jdk-8-alpine AS MAVEN_BUILD
 
 COPY pom.xml /build/
 COPY data /build/data/
@@ -9,7 +9,7 @@ COPY web /build/web/
 WORKDIR /build/
 RUN mvn package
 
-FROM adoptopenjdk/openjdk11:alpine-jre
+FROM openjdk:8-jre-alpine
 WORKDIR /app
 COPY --from=MAVEN_BUILD /build/web/target/web-1.0-SNAPSHOT.jar /app/app.jar
-ENTRYPOINT ["java", "-Djava.security.egd=file:/dev/./urandom", "-Dspring.profiles.active=${PROF}", "-Dspring.config.additional-location=/files/config/", "-cp", "/app/app.jar", "-Dloader.path=/files/repo-jars", "org.springframework.boot.loader.PropertiesLauncher"]
+ENTRYPOINT ["java", "-Djava.security.egd=file:/dev/./urandom", "-Dspring.profiles.active=${PROF}", "-Dspring.config.location=/files/config/", "-jar","/app/app.jar"]

dmp-backend/data/pom.xml

@@ -25,10 +25,5 @@
             <artifactId>elastic</artifactId>
             <version>1.0.0-SNAPSHOT</version>
         </dependency>
-        <dependency>
-            <groupId>io.swagger</groupId>
-            <artifactId>swagger-annotations</artifactId>
-            <version>1.5.20</version>
-        </dependency>
     </dependencies>
 </project>

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/Criteria.java

@@ -1,9 +1,9 @@
 package eu.eudat.data.dao.criteria;
 
-import io.swagger.annotations.ApiModelProperty;
+
+import eu.eudat.queryable.queryableentity.DataEntity;
 
 public abstract class Criteria<T> {
-    @ApiModelProperty(value = "like", name = "like", dataType = "String", allowEmptyValue = true, example = "\"\"")
     private String like;
 
     public String getLike() {

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/DataManagementPlanBlueprintCriteria.java

@@ -1,16 +0,0 @@
-package eu.eudat.data.dao.criteria;
-
-import eu.eudat.data.entities.DMPProfile;
-
-public class DataManagementPlanBlueprintCriteria extends Criteria<DMPProfile> {
-
-    private Integer status;
-
-    public Integer getStatus() {
-        return status;
-    }
-    public void setStatus(Integer status) {
-        this.status = status;
-    }
-
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/DataManagementPlanCriteria.java

@@ -1,7 +1,6 @@
 package eu.eudat.data.dao.criteria;
 
 import eu.eudat.data.entities.DMP;
-import eu.eudat.data.entities.DMPProfile;
 import eu.eudat.data.entities.Grant;
 
 import java.util.Date;
@@ -11,7 +10,6 @@ import java.util.UUID;
 public class DataManagementPlanCriteria extends Criteria<DMP> {
     private Date periodStart;
     private Date periodEnd;
-    private DMPProfile profile;
     private List<eu.eudat.data.entities.Grant> grants;
     private boolean allVersions;
     private List<UUID> groupIds;
@@ -39,13 +37,6 @@ public class DataManagementPlanCriteria extends Criteria<DMP> {
         this.periodEnd = periodEnd;
     }
 
-    public DMPProfile getProfile() {
-        return profile;
-    }
-    public void setProfile(DMPProfile profile) {
-        this.profile = profile;
-    }
-
     public List<Grant> getGrants() {
         return grants;
     }

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/DatasetProfileCriteria.java

@@ -1,13 +1,11 @@
 package eu.eudat.data.dao.criteria;
 
 
-import eu.eudat.data.entities.DescriptionTemplate;
-
-import java.util.Date;
+import eu.eudat.data.entities.DatasetProfile;
 import java.util.List;
 import java.util.UUID;
 
-public class DatasetProfileCriteria extends Criteria<DescriptionTemplate> {
+public class DatasetProfileCriteria extends Criteria<DatasetProfile> {
 
     public enum DatasetProfileFilter {
         DMPs((short) 0), Datasets((short) 1);
@@ -25,7 +23,7 @@ public class DatasetProfileCriteria extends Criteria<DescriptionTemplate> {
                 case 1:
                     return Datasets;
                 default:
-                    throw new RuntimeException("Unsupported DescriptionTemplate filter");
+                    throw new RuntimeException("Unsupported DatasetProfile filter");
             }
         }
     }
@@ -38,7 +36,6 @@ public class DatasetProfileCriteria extends Criteria<DescriptionTemplate> {
     private Integer status;
     private Integer role;
     private List<UUID> ids;
-    private Date periodStart;
 
     public boolean getAllVersions() { return allVersions; }
     public void setAllVersions(boolean allVersions) { this.allVersions = allVersions; }
@@ -90,12 +87,4 @@ public class DatasetProfileCriteria extends Criteria<DescriptionTemplate> {
     public void setIds(List<UUID> ids) {
         this.ids = ids;
     }
-
-    public Date getPeriodStart() {
-        return periodStart;
-    }
-
-    public void setPeriodStart(Date periodStart) {
-        this.periodStart = periodStart;
-    }
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/DatasetProfileWizardCriteria.java

@@ -1,11 +1,11 @@
 package eu.eudat.data.dao.criteria;
 
-import eu.eudat.data.entities.DescriptionTemplate;
+import eu.eudat.data.entities.DatasetProfile;
 
 import java.util.UUID;
 
 
-public class DatasetProfileWizardCriteria extends Criteria<DescriptionTemplate> {
+public class DatasetProfileWizardCriteria extends Criteria<DatasetProfile> {
     private UUID id;
 
     public UUID getId() {

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/FunderCriteria.java

@@ -2,12 +2,9 @@ package eu.eudat.data.dao.criteria;
 
 import eu.eudat.data.entities.Funder;
 
-import java.util.Date;
-
 public class FunderCriteria extends Criteria<Funder> {
 	private String reference;
 	private String exactReference;
-	private Date periodStart;
 
 	public String getReference() {
 		return reference;
@@ -23,12 +20,4 @@ public class FunderCriteria extends Criteria<Funder> {
 	public void setExactReference(String exactReference) {
 		this.exactReference = exactReference;
 	}
-
-	public Date getPeriodStart() {
-		return periodStart;
-	}
-
-	public void setPeriodStart(Date periodStart) {
-		this.periodStart = periodStart;
-	}
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/ProjectCriteria.java

@@ -2,12 +2,9 @@ package eu.eudat.data.dao.criteria;
 
 import eu.eudat.data.entities.Project;
 
-import java.util.Date;
-
 public class ProjectCriteria extends Criteria<Project> {
 	private String reference;
 	private String exactReference;
-	private Date periodStart;
 
 	public String getReference() {
 		return reference;
@@ -23,12 +20,4 @@ public class ProjectCriteria extends Criteria<Project> {
 	public void setExactReference(String exactReference) {
 		this.exactReference = exactReference;
 	}
-
-	public Date getPeriodStart() {
-		return periodStart;
-	}
-
-	public void setPeriodStart(Date periodStart) {
-		this.periodStart = periodStart;
-	}
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/criteria/ResearcherCriteria.java

@@ -2,12 +2,9 @@ package eu.eudat.data.dao.criteria;
 
 import eu.eudat.data.entities.Researcher;
 
-import java.util.Date;
-
 public class ResearcherCriteria extends Criteria<Researcher> {
     private String name;
     private String reference;
-    private Date periodStart;
 
     public String getName() {
         return name;
@@ -24,12 +21,4 @@ public class ResearcherCriteria extends Criteria<Researcher> {
     public void setReference(String reference) {
         this.reference = reference;
     }
-
-    public Date getPeriodStart() {
-        return periodStart;
-    }
-
-    public void setPeriodStart(Date periodStart) {
-        this.periodStart = periodStart;
-    }
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/databaselayer/service/DatabaseService.java

@@ -7,7 +7,6 @@ import eu.eudat.queryable.queryableentity.DataEntity;
 import org.springframework.beans.factory.annotation.Autowired;
 import org.springframework.stereotype.Service;
 
-import javax.transaction.Transactional;
 import java.util.Set;
 
 
@@ -29,7 +28,6 @@ public class DatabaseService<T extends DataEntity> {
         return this.databaseCtx.getQueryable(tClass);
     }
 
-    @Transactional
     public T createOrUpdate(T item, Class<T> tClass) {
         return this.databaseCtx.createOrUpdate(item, tClass);
     }

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DMPDaoImpl.java

@@ -16,7 +16,6 @@ import org.springframework.stereotype.Component;
 
 import javax.persistence.criteria.Join;
 import javax.persistence.criteria.JoinType;
-import javax.transaction.Transactional;
 import java.util.Arrays;
 import java.util.Date;
 import java.util.List;
@@ -42,8 +41,6 @@ public class DMPDaoImpl extends DatabaseAccess<DMP> implements DMPDao {
 			query.where((builder, root) -> builder.lessThan(root.get("created"), criteria.getPeriodEnd()));
 		if (criteria.getPeriodStart() != null)
 			query.where((builder, root) -> builder.greaterThan(root.get("created"), criteria.getPeriodStart()));
-		if (criteria.getProfile() != null)
-			query.where((builder, root) -> builder.equal(root.get("profile"), criteria.getProfile()));
 		if (criteria.getGrants() != null && !criteria.getGrants().isEmpty())
 			query.where(((builder, root) -> root.get("grant").in(criteria.getGrants())));
 		if (!criteria.getAllVersions())
@@ -77,7 +74,7 @@ public class DMPDaoImpl extends DatabaseAccess<DMP> implements DMPDao {
 			query.where((builder, root) -> root.join("users", JoinType.LEFT).join("user", JoinType.LEFT).get("id").in(criteria.getCollaborators()));
 		}
 		if (criteria.getDatasetTemplates() != null && !criteria.getDatasetTemplates().isEmpty()) {
-			query.where((builder, root) -> root.join("associatedDmps", JoinType.LEFT).get("datasetprofile").get("id").in(criteria.getDatasetTemplates()));
+			query.where((builder, root) -> root.join("associatedDmps", JoinType.LEFT).get("id").in(criteria.getDatasetTemplates()));
 		}
 		if (criteria.getGrantStatus() != null) {
 			if (criteria.getGrantStatus().equals(GrantStateType.FINISHED.getValue().shortValue()))
@@ -89,7 +86,7 @@ public class DMPDaoImpl extends DatabaseAccess<DMP> implements DMPDao {
 		}
 
 		if (criteria.hasDoi()) {
-			query.where((builder, root) -> builder.not(builder.isNull(root.join("dois").get("id"))));
+			query.where((builder, root) -> builder.not(builder.isNull(root.get("doi"))));
 		}
 		query.where((builder, root) -> builder.notEqual(root.get("status"), DMP.DMPStatus.DELETED.getValue()));
 		return query;
@@ -109,7 +106,6 @@ public class DMPDaoImpl extends DatabaseAccess<DMP> implements DMPDao {
 	}
 
 	@Override
-	@Transactional
 	public DMP createOrUpdate(DMP item) {
 		return this.getDatabaseService().createOrUpdate(item, DMP.class);
 	}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DMPProfileDao.java

@@ -1,7 +1,6 @@
 package eu.eudat.data.dao.entities;
 
 import eu.eudat.data.dao.DatabaseAccessLayer;
-import eu.eudat.data.dao.criteria.DataManagementPlanBlueprintCriteria;
 import eu.eudat.data.dao.criteria.DataManagementPlanProfileCriteria;
 import eu.eudat.data.entities.DMP;
 import eu.eudat.data.entities.DMPProfile;
@@ -16,6 +15,4 @@ public interface DMPProfileDao extends DatabaseAccessLayer<DMPProfile, UUID> {
 
     QueryableList<DMPProfile> getWithCriteria(DataManagementPlanProfileCriteria criteria);
 
-    QueryableList<DMPProfile> getWithCriteriaBlueprint(DataManagementPlanBlueprintCriteria criteria);
-
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DMPProfileDaoImpl.java

@@ -1,7 +1,6 @@
 package eu.eudat.data.dao.entities;
 
 import eu.eudat.data.dao.DatabaseAccess;
-import eu.eudat.data.dao.criteria.DataManagementPlanBlueprintCriteria;
 import eu.eudat.data.dao.criteria.DataManagementPlanProfileCriteria;
 import eu.eudat.data.dao.databaselayer.service.DatabaseService;
 import eu.eudat.data.entities.DMPProfile;
@@ -66,20 +65,4 @@ public class DMPProfileDaoImpl extends DatabaseAccess<DMPProfile> implements DMP
         query.where(((builder, root) -> builder.notEqual(root.get("status"), DMPProfile.Status.DELETED.getValue())));
         return query;
     }
-
-    @Override
-    public QueryableList<DMPProfile> getWithCriteriaBlueprint(DataManagementPlanBlueprintCriteria criteria){
-        QueryableList<DMPProfile> query = getDatabaseService().getQueryable(DMPProfile.class);
-        if (criteria.getLike() != null && !criteria.getLike().isEmpty())
-            query.where((builder, root) -> builder.like(builder.upper(root.get("label")), "%" + criteria.getLike().toUpperCase() + "%"));
-        if (criteria.getStatus() != null) {
-            if (criteria.getStatus() == DMPProfile.Status.FINALIZED.getValue()) {
-                query.where((builder, root) -> builder.equal(root.get("status"), DMPProfile.Status.FINALIZED.getValue()));
-            } else if (criteria.getStatus() == DMPProfile.Status.SAVED.getValue()) {
-                query.where((builder, root) -> builder.equal(root.get("status"), DMPProfile.Status.SAVED.getValue()));
-            }
-        }
-        query.where(((builder, root) -> builder.notEqual(root.get("status"), DMPProfile.Status.DELETED.getValue())));
-        return query;
-    }
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetDao.java

@@ -13,8 +13,6 @@ public interface DatasetDao extends DatabaseAccessLayer<Dataset, UUID> {
 
     QueryableList<Dataset> getWithCriteria(DatasetCriteria criteria);
 
-    QueryableList<Dataset> filterFromElastic(DatasetCriteria criteria, List<UUID> ids);
-
     QueryableList<Dataset> getAuthenticated(QueryableList<Dataset> query, UserInfo principal, List<Integer> roles);
 
     Dataset isPublicDataset(UUID id);

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetDaoImpl.java

@@ -35,9 +35,9 @@ public class DatasetDaoImpl extends DatabaseAccess<Dataset> implements DatasetDa
         if (criteria.getIsPublic() != null && criteria.getIsPublic()) {
             query.where((builder, root) -> builder.equal(root.get("dmp").get("isPublic"), true));
             query.where((builder, root) -> builder.equal(root.get("status"), Dataset.Status.FINALISED.getValue()));
-            /*query.initSubQuery(String.class).where((builder, root) -> builder.equal(root.get("dmp").get("version"),
+            query.initSubQuery(String.class).where((builder, root) -> builder.equal(root.get("dmp").get("version"),
                     query.<String>subQueryMax((builder1, externalRoot, nestedRoot) -> builder1.equal(externalRoot.get("dmp").get("groupId"), nestedRoot.get("dmp").get("groupId")),
-                            Arrays.asList(new SelectionField(FieldSelectionType.COMPOSITE_FIELD, "dmp:version")), String.class)));*/
+                            Arrays.asList(new SelectionField(FieldSelectionType.COMPOSITE_FIELD, "dmp:version")), String.class)));
         }
         if (criteria.getLike() != null && !criteria.getLike().isEmpty())
             query.where((builder, root) -> builder.or(
@@ -80,23 +80,13 @@ public class DatasetDaoImpl extends DatabaseAccess<Dataset> implements DatasetDa
             query.where((builder, root) -> root.get("profile").get("id").in(criteria.getDatasetTemplates()));
 
         if (criteria.hasDoi()) {
-            query.where((builder, root) -> builder.not(builder.isNull(root.join("dmp").join("dois").get("id"))));
+            query.where((builder, root) -> builder.not(builder.isNull(root.get("dmp").get("doi"))));
         }
         query.where((builder, root) -> builder.notEqual(root.get("status"), Dataset.Status.DELETED.getValue()));
         query.where((builder, root) -> builder.notEqual(root.get("status"), Dataset.Status.CANCELED.getValue()));
         return query;
     }
 
-    public QueryableList<Dataset> filterFromElastic(DatasetCriteria criteria, List<UUID> ids) {
-        QueryableList<Dataset> query = getDatabaseService().getQueryable(Dataset.getHints(), Dataset.class);
-
-        query.where(((builder, root) -> root.get("id").in(ids)));
-        if (!criteria.getAllVersions())
-            query.initSubQuery(String.class).where((builder, root) -> builder.equal(root.get("dmp").get("version"), query.<String>subQueryMax((builder1, externalRoot, nestedRoot) -> builder1.and(builder1.equal(externalRoot.get("dmp").get("groupId"), nestedRoot.get("dmp").get("groupId")), builder1.notEqual(nestedRoot.get("dmp").get("status"), DMP.DMPStatus.DELETED.getValue())), Arrays.asList(new SelectionField(FieldSelectionType.COMPOSITE_FIELD, "dmp:version")), String.class)));
-
-        return query;
-    }
-
     @Override
     public Dataset createOrUpdate(Dataset item) {
         return getDatabaseService().createOrUpdate(item, Dataset.class);
@@ -131,7 +121,6 @@ public class DatasetDaoImpl extends DatabaseAccess<Dataset> implements DatasetDa
             });
         } else {
             query.where((builder, root) -> builder.equal(root.join("dmp", JoinType.LEFT).join("users", JoinType.LEFT).join("user", JoinType.LEFT).get("id"), principal.getId()));
-
         }
         return query;
     }

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetExternalDatasetDaoImpl.java

@@ -3,6 +3,7 @@ package eu.eudat.data.dao.entities;
 import eu.eudat.data.dao.DatabaseAccess;
 import eu.eudat.data.dao.databaselayer.service.DatabaseService;
 import eu.eudat.data.entities.DatasetExternalDataset;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.queryable.QueryableList;
 import org.springframework.beans.factory.annotation.Autowired;
 import org.springframework.scheduling.annotation.Async;

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetProfileDao.java

@@ -2,23 +2,18 @@ package eu.eudat.data.dao.entities;
 
 import eu.eudat.data.dao.DatabaseAccessLayer;
 import eu.eudat.data.dao.criteria.DatasetProfileCriteria;
-import eu.eudat.data.entities.DescriptionTemplate;
-import eu.eudat.data.entities.DescriptionTemplateType;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.queryable.QueryableList;
 
 import java.util.List;
 import java.util.UUID;
 
-public interface DatasetProfileDao extends DatabaseAccessLayer<DescriptionTemplate, UUID> {
+public interface DatasetProfileDao extends DatabaseAccessLayer<DatasetProfile, UUID> {
 
-    QueryableList<DescriptionTemplate> getWithCriteria(DatasetProfileCriteria criteria);
+    QueryableList<DatasetProfile> getWithCriteria(DatasetProfileCriteria criteria);
 
-    QueryableList<DescriptionTemplate> getAll();
+    QueryableList<DatasetProfile> getAll();
 
-    QueryableList<DescriptionTemplate> getAuthenticated(QueryableList<DescriptionTemplate> query, UUID principal, List<Integer> roles);
-
-    List<DescriptionTemplate> getAllIds();
-
-    Long countWithType(DescriptionTemplateType type);
+    QueryableList<DatasetProfile> getAuthenticated(QueryableList<DatasetProfile> query, UUID principal, List<Integer> roles);
 
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetProfileDaoImpl.java

@@ -3,8 +3,8 @@ package eu.eudat.data.dao.entities;
 import eu.eudat.data.dao.DatabaseAccess;
 import eu.eudat.data.dao.criteria.DatasetProfileCriteria;
 import eu.eudat.data.dao.databaselayer.service.DatabaseService;
-import eu.eudat.data.entities.DescriptionTemplate;
-import eu.eudat.data.entities.DescriptionTemplateType;
+import eu.eudat.data.entities.DMP;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.queryable.QueryableList;
 import eu.eudat.queryable.types.FieldSelectionType;
 import eu.eudat.queryable.types.SelectionField;
@@ -15,22 +15,21 @@ import org.springframework.stereotype.Component;
 import javax.persistence.criteria.Join;
 import javax.persistence.criteria.JoinType;
 import java.util.Arrays;
-import java.util.Collections;
 import java.util.List;
 import java.util.UUID;
 import java.util.concurrent.CompletableFuture;
 
 @Component("datasetProfileDao")
-public class DatasetProfileDaoImpl extends DatabaseAccess<DescriptionTemplate> implements DatasetProfileDao {
+public class DatasetProfileDaoImpl extends DatabaseAccess<DatasetProfile> implements DatasetProfileDao {
 
     @Autowired
-    public DatasetProfileDaoImpl(DatabaseService<DescriptionTemplate> databaseService) {
+    public DatasetProfileDaoImpl(DatabaseService<DatasetProfile> databaseService) {
         super(databaseService);
     }
 
     @Override
-    public QueryableList<DescriptionTemplate> getWithCriteria(DatasetProfileCriteria criteria) {
-        QueryableList<DescriptionTemplate> query = getDatabaseService().getQueryable(DescriptionTemplate.class);
+    public QueryableList<DatasetProfile> getWithCriteria(DatasetProfileCriteria criteria) {
+        QueryableList<DatasetProfile> query = getDatabaseService().getQueryable(DatasetProfile.class);
         if (criteria.getLike() != null && !criteria.getLike().isEmpty())
             query.where((builder, root) -> builder.like(builder.upper(root.get("label")), "%" + criteria.getLike().toUpperCase() + "%"));
         if (!criteria.getAllVersions())
@@ -63,58 +62,51 @@ public class DatasetProfileDaoImpl extends DatabaseAccess<DescriptionTemplate> i
             query.where(((builder, root) -> root.get("id").in(criteria.getIds())));
         }
         if (criteria.getFinalized()) {
-            query.where(((builder, root) -> builder.equal(root.get("status"), DescriptionTemplate.Status.FINALIZED.getValue())));
+            query.where(((builder, root) -> builder.equal(root.get("status"), DatasetProfile.Status.FINALIZED.getValue())));
         } else {
-            query.where(((builder, root) -> builder.notEqual(root.get("status"), DescriptionTemplate.Status.DELETED.getValue())));
+            query.where(((builder, root) -> builder.notEqual(root.get("status"), DatasetProfile.Status.DELETED.getValue())));
         }
-        if (criteria.getPeriodStart() != null)
-            query.where((builder, root) -> builder.greaterThanOrEqualTo(root.get("created"), criteria.getPeriodStart()));
         return query;
     }
 
     @Override
-    public DescriptionTemplate createOrUpdate(DescriptionTemplate item) {
-        return this.getDatabaseService().createOrUpdate(item, DescriptionTemplate.class);
+    public DatasetProfile createOrUpdate(DatasetProfile item) {
+        return this.getDatabaseService().createOrUpdate(item, DatasetProfile.class);
     }
 
     @Override
-    public DescriptionTemplate find(UUID id) {
-        return getDatabaseService().getQueryable(DescriptionTemplate.class).where((builder, root) -> builder.equal(root.get("id"), id)).getSingle();
+    public DatasetProfile find(UUID id) {
+        return getDatabaseService().getQueryable(DatasetProfile.class).where((builder, root) -> builder.equal(root.get("id"), id)).getSingle();
     }
 
     @Override
-    public QueryableList<DescriptionTemplate> getAll() {
-        return getDatabaseService().getQueryable(DescriptionTemplate.class);
+    public QueryableList<DatasetProfile> getAll() {
+        return getDatabaseService().getQueryable(DatasetProfile.class);
     }
 
     @Override
-    public List<DescriptionTemplate> getAllIds(){
-        return getDatabaseService().getQueryable(DescriptionTemplate.class).withFields(Collections.singletonList("id")).toList();
-    }
-
-    @Override
-    public void delete(DescriptionTemplate item) {
+    public void delete(DatasetProfile item) {
         this.getDatabaseService().delete(item);
     }
 
     @Override
-    public QueryableList<DescriptionTemplate> asQueryable() {
-        return this.getDatabaseService().getQueryable(DescriptionTemplate.class);
+    public QueryableList<DatasetProfile> asQueryable() {
+        return this.getDatabaseService().getQueryable(DatasetProfile.class);
     }
 
     @Async
     @Override
-    public CompletableFuture<DescriptionTemplate> createOrUpdateAsync(DescriptionTemplate item) {
+    public CompletableFuture<DatasetProfile> createOrUpdateAsync(DatasetProfile item) {
         return CompletableFuture.supplyAsync(() -> this.createOrUpdate(item));
     }
 
     @Override
-    public DescriptionTemplate find(UUID id, String hint) {
+    public DatasetProfile find(UUID id, String hint) {
         throw new UnsupportedOperationException();
     }
 
     @Override
-    public QueryableList<DescriptionTemplate> getAuthenticated(QueryableList<DescriptionTemplate> query, UUID principal, List<Integer> roles) {
+    public QueryableList<DatasetProfile> getAuthenticated(QueryableList<DatasetProfile> query, UUID principal, List<Integer> roles) {
         if (roles != null && !roles.isEmpty()) {
             query.where((builder, root) -> {
                 Join userJoin = root.join("users", JoinType.LEFT);
@@ -126,9 +118,4 @@ public class DatasetProfileDaoImpl extends DatabaseAccess<DescriptionTemplate> i
 
         return query;
     }
-
-    @Override
-    public Long countWithType(DescriptionTemplateType type) {
-        return this.getDatabaseService().getQueryable(DescriptionTemplate.class).where((builder, root) -> builder.equal(root.get("type"), type)).count();
-    }
 }

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetServiceDao.java

@@ -1,6 +1,7 @@
 package eu.eudat.data.dao.entities;
 
 import eu.eudat.data.dao.DatabaseAccessLayer;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.data.entities.DatasetService;
 
 import java.util.UUID;

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DatasetServiceDaoImpl.java

@@ -2,6 +2,8 @@ package eu.eudat.data.dao.entities;
 
 import eu.eudat.data.dao.DatabaseAccess;
 import eu.eudat.data.dao.databaselayer.service.DatabaseService;
+import eu.eudat.data.entities.DatasetExternalDataset;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.data.entities.DatasetService;
 import eu.eudat.queryable.QueryableList;
 import org.springframework.beans.factory.annotation.Autowired;

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DescriptionTemplateTypeDao.java

@@ -1,10 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccessLayer;
-import eu.eudat.data.entities.DescriptionTemplateType;
-
-import java.util.UUID;
-
-public interface DescriptionTemplateTypeDao extends DatabaseAccessLayer<DescriptionTemplateType, UUID> {
-    DescriptionTemplateType findFromName(String name);
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DescriptionTemplateTypeDaoImpl.java

@@ -1,65 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccess;
-import eu.eudat.data.dao.databaselayer.service.DatabaseService;
-import eu.eudat.data.entities.DescriptionTemplateType;
-import eu.eudat.queryable.QueryableList;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.scheduling.annotation.Async;
-import org.springframework.stereotype.Component;
-
-import javax.transaction.Transactional;
-import java.util.UUID;
-import java.util.concurrent.CompletableFuture;
-
-@Component("descriptionTemplateTypeDao")
-public class DescriptionTemplateTypeDaoImpl extends DatabaseAccess<DescriptionTemplateType> implements DescriptionTemplateTypeDao {
-
-    @Autowired
-    public DescriptionTemplateTypeDaoImpl(DatabaseService<DescriptionTemplateType> databaseService) {
-        super(databaseService);
-    }
-
-    @Override
-    public DescriptionTemplateType findFromName(String name){
-        try {
-            return this.getDatabaseService().getQueryable(DescriptionTemplateType.class).where((builder, root) -> builder.and(builder.equal(root.get("name"), name), builder.notEqual(root.get("status"), DescriptionTemplateType.Status.DELETED.getValue()))).getSingle();
-        }
-        catch(Exception e){
-            return null;
-        }
-    }
-
-    @Override
-    @Transactional
-    public DescriptionTemplateType createOrUpdate(DescriptionTemplateType item) {
-        return this.getDatabaseService().createOrUpdate(item, DescriptionTemplateType.class);
-    }
-
-    @Override
-    public DescriptionTemplateType find(UUID id) {
-        return getDatabaseService().getQueryable(DescriptionTemplateType.class).where((builder, root) -> builder.equal((root.get("id")), id)).getSingle();
-    }
-
-    @Override
-    public void delete(DescriptionTemplateType item) {
-        this.getDatabaseService().delete(item);
-    }
-
-    @Override
-    public QueryableList<DescriptionTemplateType> asQueryable() {
-        return this.getDatabaseService().getQueryable(DescriptionTemplateType.class).where((builder, root) -> builder.notEqual((root.get("status")), DescriptionTemplateType.Status.DELETED.getValue()));
-    }
-
-    @Async
-    @Override
-    public CompletableFuture<DescriptionTemplateType> createOrUpdateAsync(DescriptionTemplateType item) {
-        return CompletableFuture.supplyAsync(() -> this.createOrUpdate(item));
-    }
-
-    @Override
-    public DescriptionTemplateType find(UUID id, String hint) {
-        throw new UnsupportedOperationException();
-    }
-
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DmpDatasetProfileDao.java

@@ -1,9 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccessLayer;
-import eu.eudat.data.entities.DMPDatasetProfile;
-
-import java.util.UUID;
-
-public interface DmpDatasetProfileDao extends DatabaseAccessLayer<DMPDatasetProfile, UUID> {
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DmpDatasetProfileDaoImpl.java

@@ -1,52 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccess;
-import eu.eudat.data.dao.databaselayer.service.DatabaseService;
-import eu.eudat.data.entities.Content;
-import eu.eudat.data.entities.DMPDatasetProfile;
-import eu.eudat.queryable.QueryableList;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.scheduling.annotation.Async;
-import org.springframework.stereotype.Service;
-
-import java.util.UUID;
-import java.util.concurrent.CompletableFuture;
-
-@Service("dmpDatasetProfileDao")
-public class DmpDatasetProfileDaoImpl extends DatabaseAccess<DMPDatasetProfile> implements DmpDatasetProfileDao {
-    @Autowired
-    public DmpDatasetProfileDaoImpl(DatabaseService<DMPDatasetProfile> databaseService) {
-        super(databaseService);
-    }
-
-    @Override
-    public DMPDatasetProfile createOrUpdate(DMPDatasetProfile item) {
-        return this.getDatabaseService().createOrUpdate(item, DMPDatasetProfile.class);
-    }
-
-    @Override
-    @Async
-    public CompletableFuture<DMPDatasetProfile> createOrUpdateAsync(DMPDatasetProfile item) {
-        return CompletableFuture.supplyAsync(() -> this.createOrUpdate(item));
-    }
-
-    @Override
-    public DMPDatasetProfile find(UUID id) {
-        return this.getDatabaseService().getQueryable(DMPDatasetProfile.class).where((builder, root) -> builder.equal(root.get("id"), id)).getSingle();
-    }
-
-    @Override
-    public DMPDatasetProfile find(UUID id, String hint) {
-        throw new UnsupportedOperationException();
-    }
-
-    @Override
-    public void delete(DMPDatasetProfile item) {
-        this.getDatabaseService().delete(item);
-    }
-
-    @Override
-    public QueryableList<DMPDatasetProfile> asQueryable() {
-        return this.getDatabaseService().getQueryable(DMPDatasetProfile.class);
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DoiFunderDao.java

@@ -0,0 +1,11 @@
+package eu.eudat.data.dao.entities;
+
+import eu.eudat.data.dao.DatabaseAccessLayer;
+import eu.eudat.data.entities.DoiFunder;
+
+import java.util.UUID;
+
+public interface DoiFunderDao extends DatabaseAccessLayer<DoiFunder, UUID> {
+
+	DoiFunder findFunderByName(String name);
+}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/DoiFunderDaoImpl.java

@@ -0,0 +1,55 @@
+package eu.eudat.data.dao.entities;
+
+import eu.eudat.data.dao.DatabaseAccess;
+import eu.eudat.data.dao.databaselayer.service.DatabaseService;
+import eu.eudat.data.entities.DoiFunder;
+import eu.eudat.queryable.QueryableList;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.stereotype.Component;
+
+import java.util.UUID;
+import java.util.concurrent.CompletableFuture;
+
+@Component("DoiFunderDao")
+public class DoiFunderDaoImpl extends DatabaseAccess<DoiFunder> implements DoiFunderDao {
+
+	@Autowired
+	public DoiFunderDaoImpl(DatabaseService<DoiFunder> databaseService) {
+		super(databaseService);
+	}
+
+	@Override
+	public DoiFunder findFunderByName(String name) {
+		return this.asQueryable().toList().stream().filter(doiFunder -> name.contains(doiFunder.getName()) || doiFunder.getName().contains(name)).findFirst().orElse(null);
+	}
+
+	@Override
+	public DoiFunder createOrUpdate(DoiFunder item) {
+		return this.getDatabaseService().createOrUpdate(item, DoiFunder.class);
+	}
+
+	@Override
+	public CompletableFuture<DoiFunder> createOrUpdateAsync(DoiFunder item) {
+		return CompletableFuture.supplyAsync(() -> this.createOrUpdate(item));
+	}
+
+	@Override
+	public DoiFunder find(UUID id) {
+		return this.getDatabaseService().getQueryable(DoiFunder.class).where(((builder, root) -> builder.equal(root.get("id"), id))).getSingle();
+	}
+
+	@Override
+	public DoiFunder find(UUID id, String hint) {
+		throw new UnsupportedOperationException();
+	}
+
+	@Override
+	public void delete(DoiFunder item) {
+		this.getDatabaseService().delete(item);
+	}
+
+	@Override
+	public QueryableList<DoiFunder> asQueryable() {
+		return this.getDatabaseService().getQueryable(DoiFunder.class);
+	}
+}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/EntityDoiDao.java

@@ -1,10 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccessLayer;
-import eu.eudat.data.entities.EntityDoi;
-
-import java.util.UUID;
-
-public interface EntityDoiDao extends DatabaseAccessLayer<EntityDoi, UUID> {
-    EntityDoi findFromDoi(String doi);
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/EntityDoiDaoImpl.java

@@ -1,56 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccess;
-import eu.eudat.data.dao.databaselayer.service.DatabaseService;
-import eu.eudat.data.entities.EntityDoi;
-import eu.eudat.queryable.QueryableList;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.stereotype.Component;
-
-import java.util.UUID;
-import java.util.concurrent.CompletableFuture;
-
-@Component("EntityDoiDao")
-public class EntityDoiDaoImpl extends DatabaseAccess<EntityDoi> implements EntityDoiDao {
-
-    @Autowired
-    public EntityDoiDaoImpl(DatabaseService<EntityDoi> databaseService){
-        super(databaseService);
-    }
-
-
-    @Override
-    public EntityDoi createOrUpdate(EntityDoi item) {
-        return this.getDatabaseService().createOrUpdate(item, EntityDoi.class);
-    }
-
-    @Override
-    public CompletableFuture<EntityDoi> createOrUpdateAsync(EntityDoi item) {
-        return CompletableFuture.supplyAsync(() -> this.createOrUpdate(item));
-    }
-
-    @Override
-    public EntityDoi find(UUID id) {
-        return this.getDatabaseService().getQueryable(EntityDoi.class).where((builder, root) -> builder.equal(root.get("id"), id)).getSingle();
-    }
-
-    @Override
-    public EntityDoi findFromDoi(String doi) {
-        return this.getDatabaseService().getQueryable(EntityDoi.class).where((builder, root) -> builder.equal(root.get("doi"), doi)).getSingle();
-    }
-
-    @Override
-    public EntityDoi find(UUID id, String hint) {
-        return null;
-    }
-
-    @Override
-    public void delete(EntityDoi item) {
-        this.getDatabaseService().delete(item);
-    }
-
-    @Override
-    public QueryableList<EntityDoi> asQueryable() {
-        return this.getDatabaseService().getQueryable(EntityDoi.class);
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/FileUploadDao.java

@@ -1,11 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccessLayer;
-import eu.eudat.data.entities.FileUpload;
-
-import java.util.List;
-import java.util.UUID;
-
-public interface FileUploadDao extends DatabaseAccessLayer<FileUpload, UUID> {
-    List<FileUpload> getFileUploads(UUID entityId);
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/FileUploadDaoImpl.java

@@ -1,56 +0,0 @@
-package eu.eudat.data.dao.entities;
-
-import eu.eudat.data.dao.DatabaseAccess;
-import eu.eudat.data.dao.databaselayer.service.DatabaseService;
-import eu.eudat.data.entities.FileUpload;
-import eu.eudat.queryable.QueryableList;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.stereotype.Component;
-
-import java.util.List;
-import java.util.UUID;
-import java.util.concurrent.CompletableFuture;
-
-@Component("FileUploadDao")
-public class FileUploadDaoImpl extends DatabaseAccess<FileUpload> implements FileUploadDao {
-
-    @Autowired
-    public FileUploadDaoImpl(DatabaseService<FileUpload> databaseService) {
-        super(databaseService);
-    }
-
-    @Override
-    public FileUpload createOrUpdate(FileUpload item)  {
-        return getDatabaseService().createOrUpdate(item, FileUpload.class);
-    }
-//
-    @Override
-    public CompletableFuture<FileUpload> createOrUpdateAsync(FileUpload item) {
-        return CompletableFuture.supplyAsync(() -> this.createOrUpdate(item));
-    }
-
-    @Override
-    public FileUpload find(UUID id) {
-        return getDatabaseService().getQueryable(FileUpload.class).where((builder, root) -> builder.equal(root.get("id"), id)).getSingle();
-    }
-
-    @Override
-    public List<FileUpload> getFileUploads(UUID entityId) {
-        return this.getDatabaseService().getQueryable(FileUpload.class).where((builder, root) -> builder.equal(root.get("entityId"), entityId)).toList();
-    }
-
-    @Override
-    public FileUpload find(UUID id, String hint) {
-        return null;
-    }
-
-    @Override
-    public void delete(FileUpload item) {
-        this.getDatabaseService().delete(item);
-    }
-
-    @Override
-    public QueryableList<FileUpload> asQueryable() {
-        return this.getDatabaseService().getQueryable(FileUpload.class);
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/FunderDaoImpl.java

@@ -31,8 +31,6 @@ public class FunderDaoImpl extends DatabaseAccess<Funder> implements FunderDao {
 			query.where((builder, root) -> builder.like(builder.upper(root.get("reference")), "%" + criteria.getReference().toUpperCase() + "%"));
 		if (criteria.getExactReference() != null)
 			query.where((builder, root) -> builder.like(builder.upper(root.get("reference")), criteria.getExactReference().toUpperCase()));
-		if (criteria.getPeriodStart() != null)
-			query.where((builder, root) -> builder.greaterThanOrEqualTo(root.get("created"), criteria.getPeriodStart()));
 		query.where((builder, root) -> builder.notEqual(root.get("status"), Funder.Status.DELETED.getValue()));
 		return query;
 	}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/GrantDaoImpl.java

@@ -85,7 +85,7 @@ public class GrantDaoImpl extends DatabaseAccess<Grant> implements GrantDao {
     }
 
     public QueryableList<Grant> getAuthenticated(QueryableList<Grant> query, UserInfo principal) {
-        query.where((builder, root) -> builder.equal(root.get("creationUser").get("id"), principal.getId())).distinct();
+        query.where((builder, root) -> builder.or(builder.equal(root.get("creationUser"), principal), builder.equal(root.join("dmps", JoinType.LEFT).join("users", JoinType.LEFT).join("user", JoinType.LEFT).get("id"), principal.getId()))).distinct();
         return query;
     }
 

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/ProjectDaoImpl.java

@@ -30,8 +30,6 @@ public class ProjectDaoImpl extends DatabaseAccess<Project> implements ProjectDa
 			query.where((builder, root) -> builder.like(root.get("reference"), "%" + criteria.getReference() + "%"));
 		if (criteria.getExactReference() != null)
 			query.where((builder, root) -> builder.like(root.get("reference"), criteria.getExactReference()));
-		if (criteria.getPeriodStart() != null)
-			query.where((builder, root) -> builder.greaterThanOrEqualTo(root.get("startdate"), criteria.getPeriodStart()));
 		query.where((builder, root) -> builder.notEqual(root.get("status"), Project.Status.DELETED.getValue()));
 		return query;
 	}

dmp-backend/data/src/main/java/eu/eudat/data/dao/entities/ResearcherDaoImpl.java

@@ -29,8 +29,6 @@ public class ResearcherDaoImpl extends DatabaseAccess<Researcher> implements Res
             query.where((builder, root) ->builder.or(builder.like(builder.lower(root.get("label")), "%" + criteria.getName().toLowerCase() + "%")));
         if (criteria.getReference() != null && !criteria.getReference().isEmpty())
             query.where((builder, root) ->builder.or(builder.like(root.get("reference"), criteria.getReference())));
-        if (criteria.getPeriodStart() != null)
-            query.where((builder, root) -> builder.greaterThanOrEqualTo(root.get("created"), criteria.getPeriodStart()));
         return query;
     }
 

dmp-backend/data/src/main/java/eu/eudat/data/entities/Credential.java

@@ -34,7 +34,7 @@ public class Credential implements DataEntity<Credential, UUID> {
 	private Integer provider;
 	@Column(name = "\"Public\"", nullable = false)
 	private String publicValue;
-	@Column(name = "\"Email\"")
+	@Column(name = "\"Email\"", nullable = false)
 	private String email;
 	@Column(name = "\"Secret\"", nullable = false)
 	private String secret;

dmp-backend/data/src/main/java/eu/eudat/data/entities/DMP.java

@@ -25,12 +25,7 @@ import java.util.stream.Collectors;
                 name = "fullyDetailed",
                 attributeNodes = {
                         @NamedAttributeNode("grant"), @NamedAttributeNode("profile"),
-                        @NamedAttributeNode(value = "users", subgraph = "users"), @NamedAttributeNode("organisations"), @NamedAttributeNode("researchers")
-                },
-                subgraphs = {
-                        @NamedSubgraph(name = "users", attributeNodes = {@NamedAttributeNode("user")})
-                }
-        ),
+                        @NamedAttributeNode("users"), @NamedAttributeNode("organisations"), @NamedAttributeNode("researchers")}),
         @NamedEntityGraph(
                 name = "dmpRecentActivity",
                 attributeNodes = {
@@ -112,8 +107,12 @@ public class DMP implements DataEntity<DMP, UUID> {
     /*@Type(type = "eu.eudat.configurations.typedefinition.XMLType")
     @Column(name = "\"AssociatedDmps\"", columnDefinition = "xml", nullable = true)
     private String associatedDmps;*/
-    @OneToMany(fetch = FetchType.LAZY, mappedBy = "dmp")
-    private Set<DMPDatasetProfile> associatedDmps;
+    @OneToMany(fetch = FetchType.LAZY)
+    @JoinTable(name = "\"DMPDatasetProfile\"",
+            joinColumns = {@JoinColumn(name = "\"dmp\"", referencedColumnName = "\"ID\"")},
+            inverseJoinColumns = {@JoinColumn(name = "\"datasetprofile\"", referencedColumnName = "\"ID\"")}
+    )
+    private Set<DatasetProfile> associatedDmps;
 
 
     @ManyToOne(fetch = FetchType.LAZY)
@@ -182,8 +181,8 @@ public class DMP implements DataEntity<DMP, UUID> {
     @Convert(converter = DateToUTCConverter.class)
     private Date publishedAt;
 
-    @OneToMany(mappedBy = "entityId", fetch = FetchType.LAZY)
-    private Set<EntityDoi> dois;
+    @Column(name = "\"DOI\"")
+    private String doi;
 
     @ManyToOne(fetch = FetchType.LAZY)
     @JoinColumn(name = "\"Project\"")
@@ -270,10 +269,10 @@ public class DMP implements DataEntity<DMP, UUID> {
         this.grant = grant;
     }
 
-    public Set<DMPDatasetProfile> getAssociatedDmps() {
+    public Set<DatasetProfile> getAssociatedDmps() {
         return associatedDmps;
     }
-    public void setAssociatedDmps(Set<DMPDatasetProfile> associatedDmps) {
+    public void setAssociatedDmps(Set<DatasetProfile> associatedDmps) {
         this.associatedDmps = associatedDmps;
     }
 
@@ -340,12 +339,12 @@ public class DMP implements DataEntity<DMP, UUID> {
         this.publishedAt = publishedAt;
     }
 
-    public Set<EntityDoi> getDois() {
-        return dois;
-    }
-    public void setDois(Set<EntityDoi> dois) {
-        this.dois = dois;
-    }
+	public String getDoi() {
+		return doi;
+	}
+	public void setDoi(String doi) {
+		this.doi = doi;
+	}
 
     public Project getProject() {
         return project;
@@ -381,7 +380,7 @@ public class DMP implements DataEntity<DMP, UUID> {
         if (entity.getStatus().equals(DMPStatus.FINALISED.getValue())) this.setFinalizedAt(new Date());
         if (entity.isPublic) this.setPublishedAt(new Date());
         if (entity.getUsers() != null) this.users = entity.getUsers();
-        this.dois = entity.getDois();
+        if (entity.getDoi() != null && entity.getDoi().trim().isEmpty()) this.doi = entity.doi;
         this.extraProperties = entity.getExtraProperties();
     }
 

dmp-backend/data/src/main/java/eu/eudat/data/entities/DMPDatasetProfile.java

@@ -1,76 +0,0 @@
-package eu.eudat.data.entities;
-
-import eu.eudat.queryable.queryableentity.DataEntity;
-import org.hibernate.annotations.GenericGenerator;
-
-import javax.persistence.*;
-import java.util.List;
-import java.util.UUID;
-
-@Entity
-@Table(name = "\"DMPDatasetProfile\"")
-public class DMPDatasetProfile implements DataEntity<DMPDatasetProfile, UUID> {
-
-    @Id
-    @GeneratedValue
-    @GenericGenerator(name = "uuid2", strategy = "uuid2")
-    @Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
-    private UUID id;
-
-    @ManyToOne
-    @JoinColumn(name = "\"dmp\"")
-    private DMP dmp;
-
-    @ManyToOne
-    @JoinColumn(name = "\"datasetprofile\"")
-    private DescriptionTemplate datasetprofile;
-
-    @Column(name = "\"data\"")
-    private String data;
-
-    public UUID getId() {
-        return id;
-    }
-    public void setId(UUID id) {
-        this.id = id;
-    }
-
-    public DMP getDmp() {
-        return dmp;
-    }
-    public void setDmp(DMP dmp) {
-        this.dmp = dmp;
-    }
-
-    public DescriptionTemplate getDatasetprofile() {
-        return datasetprofile;
-    }
-    public void setDatasetprofile(DescriptionTemplate datasetprofile) {
-        this.datasetprofile = datasetprofile;
-    }
-
-    public String getData() {
-        return data;
-    }
-    public void setData(String data) {
-        this.data = data;
-    }
-
-    @Override
-    public void update(DMPDatasetProfile entity) {
-        this.dmp = entity.getDmp();
-        this.datasetprofile = entity.getDatasetprofile();
-        this.data = entity.getData();
-    }
-
-    @Override
-    public UUID getKeys() {
-        return this.id;
-    }
-
-    @Override
-    public DMPDatasetProfile buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
-        this.id = UUID.fromString((String) tuple.get(0).get(base.isEmpty() ? base + "." + "id" : "id"));
-        return this;
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/entities/DataRepository.java

@@ -26,14 +26,14 @@ public class DataRepository implements Serializable, DataEntity<DataRepository,
 	@Column(name = "\"Abbreviation\"")
 	private String abbreviation;
 
-	@Column(name = "\"Reference\"")
+	@Column(name = "\"Reference\"", nullable = false)
 	private String reference;
 
 	@Column(name = "\"Uri\"")
 	private String uri;
 
 	@Type(type = "eu.eudat.configurations.typedefinition.XMLType")
-	@Column(name = "\"Definition\"", columnDefinition = "xml")
+	@Column(name = "\"Definition\"", columnDefinition = "xml", nullable = true)
 	private String definition;
 
 	@OneToMany(mappedBy = "dataRepository", cascade = CascadeType.ALL, orphanRemoval = true)
@@ -42,14 +42,14 @@ public class DataRepository implements Serializable, DataEntity<DataRepository,
 	@Column(name = "\"Status\"", nullable = false)
 	private Short status;
 
-	@Column(name = "\"Created\"", nullable = false)
+	@Column(name = "\"Created\"")
 	private Date created = null;
 
-	@Column(name = "\"Modified\"", nullable = false)
+	@Column(name = "\"Modified\"")
 	private Date modified = new Date();
 
 	@ManyToOne(fetch = FetchType.LAZY)
-	@JoinColumn(name = "\"CreationUser\"")
+	@JoinColumn(name = "\"CreationUser\"", nullable = true)
 	private UserInfo creationUser;
 
 

dmp-backend/data/src/main/java/eu/eudat/data/entities/Dataset.java

@@ -16,14 +16,13 @@ import java.util.stream.Collectors;
 @NamedEntityGraphs({
 		@NamedEntityGraph(
 				name = "datasetListingModel",
-				attributeNodes = {/*@NamedAttributeNode("services"), @NamedAttributeNode(value = "datasetDataRepositories", subgraph = "datasetDataRepositories"),
-						@NamedAttributeNode(value = "datasetExternalDatasets", subgraph = "datasetExternalDatasets"), @NamedAttributeNode("registries"),*/
-						@NamedAttributeNode(value = "dmp", subgraph = "dmp"), @NamedAttributeNode(value = "profile", subgraph = "profile"), @NamedAttributeNode("creator")},
+				attributeNodes = {@NamedAttributeNode("services"), @NamedAttributeNode(value = "datasetDataRepositories", subgraph = "datasetDataRepositories"),
+						@NamedAttributeNode(value = "datasetExternalDatasets", subgraph = "datasetExternalDatasets"), @NamedAttributeNode("registries"),
+						@NamedAttributeNode(value = "dmp", subgraph = "dmp"), @NamedAttributeNode("profile"), @NamedAttributeNode("creator")},
 				subgraphs = {
 						@NamedSubgraph(name = "dmp", attributeNodes = {@NamedAttributeNode("creator"), @NamedAttributeNode("users"), @NamedAttributeNode("grant"), @NamedAttributeNode("organisations")}),
 						@NamedSubgraph(name = "datasetDataRepositories", attributeNodes = {@NamedAttributeNode("dataRepository")}),
-						@NamedSubgraph(name = "datasetExternalDatasets", attributeNodes = {@NamedAttributeNode("externalDataset")}),
-						@NamedSubgraph(name = "profile", attributeNodes = {@NamedAttributeNode("label")})
+						@NamedSubgraph(name = "datasetExternalDatasets", attributeNodes = {@NamedAttributeNode("externalDataset")})
 				}),
 
 		@NamedEntityGraph(
@@ -92,7 +91,7 @@ public class Dataset implements DataEntity<Dataset, UUID> {
 	@Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
 	private UUID id;
 
-	@Column(name = "\"Label\"", nullable = false)
+	@Column(name = "\"Label\"")
 	private String label;
 
 	@ManyToOne(fetch = FetchType.LAZY)
@@ -100,23 +99,20 @@ public class Dataset implements DataEntity<Dataset, UUID> {
 	@JoinColumn(name = "\"DMP\"", nullable = false)
 	private DMP dmp;
 
-	@Column(name = "\"DmpSectionIndex\"")
-	private Integer dmpSectionIndex;
-
 	@Column(name = "\"Uri\"")
 	private String uri;
 
 	@Type(type = "eu.eudat.configurations.typedefinition.XMLType")
-	@Column(name = "\"Properties\"", columnDefinition = "xml")
+	@Column(name = "\"Properties\"", columnDefinition = "xml", nullable = true)
 	private String properties;
 
 	@ManyToOne(fetch = FetchType.LAZY)
 	//@Cascade(value=org.hibernate.annotations.CascadeType.ALL)
-	@JoinColumn(name = "\"Profile\"")
-	private DescriptionTemplate profile;
+	@JoinColumn(name = "\"Profile\"", nullable = true)
+	private DatasetProfile profile;
 
 	@Type(type = "eu.eudat.configurations.typedefinition.XMLType")
-	@Column(name = "\"Reference\"", columnDefinition = "xml")
+	@Column(name = "\"Reference\"", columnDefinition = "xml", nullable = true)
 	private String reference;
 
 	@OneToMany(fetch = FetchType.LAZY)
@@ -139,16 +135,16 @@ public class Dataset implements DataEntity<Dataset, UUID> {
 	private Short status;
 
 
-	@Column(name = "\"Created\"", nullable = false)
+	@Column(name = "\"Created\"")
 	@Convert(converter = DateToUTCConverter.class)
 	private Date created = null;
 
-	@Column(name = "\"Modified\"", nullable = false)
+	@Column(name = "\"Modified\"")
 	@Convert(converter = DateToUTCConverter.class)
 	private Date modified = new Date();
 
 	@ManyToOne(fetch = FetchType.LAZY)
-	@JoinColumn(name = "\"Creator\"")
+	@JoinColumn(name = "\"Creator\"", nullable = true)
 	private UserInfo creator;
 
 	@Column(name = "\"Description\"")
@@ -235,12 +231,6 @@ public class Dataset implements DataEntity<Dataset, UUID> {
 		this.dmp = dmp;
 	}
 
-	public Integer getDmpSectionIndex() {
-		return dmpSectionIndex;
-	}
-	public void setDmpSectionIndex(Integer dmpSectionIndex) {
-		this.dmpSectionIndex = dmpSectionIndex;
-	}
 
 	public String getUri() {
 		return uri;
@@ -258,10 +248,10 @@ public class Dataset implements DataEntity<Dataset, UUID> {
 	}
 
 
-	public DescriptionTemplate getProfile() {
+	public DatasetProfile getProfile() {
 		return profile;
 	}
-	public void setProfile(DescriptionTemplate profile) {
+	public void setProfile(DatasetProfile profile) {
 		this.profile = profile;
 	}
 
@@ -337,7 +327,6 @@ public class Dataset implements DataEntity<Dataset, UUID> {
 		this.setRegistries(entity.getRegistries());
 
 		this.setDmp(entity.getDmp());
-		this.setDmpSectionIndex(entity.getDmpSectionIndex());
 		this.setStatus(entity.getStatus());
 		this.setProfile(entity.getProfile());
 		this.setModified(new Date());

dmp-backend/data/src/main/java/eu/eudat/data/entities/DatasetProfile.java

@@ -14,8 +14,8 @@ import java.util.UUID;
 
 
 @Entity
-@Table(name = "\"DescriptionTemplate\"")
-public class DescriptionTemplate implements DataEntity<DescriptionTemplate,UUID>{
+@Table(name = "\"DatasetProfile\"")
+public class DatasetProfile implements DataEntity<DatasetProfile,UUID>{
 
     public enum Status {
         SAVED((short) 0), FINALIZED((short) 1), DELETED((short) 99);
@@ -49,7 +49,7 @@ public class DescriptionTemplate implements DataEntity<DescriptionTemplate,UUID>
     @Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
     private UUID id;
 
-    @Column(name = "\"Label\"", nullable = false)
+    @Column(name = "\"Label\"")
     private String label;
 
     @OneToMany(fetch = FetchType.LAZY, mappedBy = "profile")
@@ -79,21 +79,19 @@ public class DescriptionTemplate implements DataEntity<DescriptionTemplate,UUID>
     @Column(name = "\"Version\"", nullable = false)
     private Short version;
 
-    @OneToMany(fetch = FetchType.LAZY)
-    private Set<DMP> dmps;
+    @ManyToMany(fetch = FetchType.LAZY)
+    @JoinTable(name = "\"DMPDatasetProfile\"",
+            joinColumns = {@JoinColumn(name = "\"datasetprofile\"", referencedColumnName = "\"ID\"")},
+            inverseJoinColumns = {@JoinColumn(name = "\"dmp\"", referencedColumnName = "\"ID\"")}
+    )
+    private List<DMP> dmps;
 
     @Column(name = "\"Language\"", nullable = false)
     private String language;
 
-    @OneToOne(fetch = FetchType.EAGER)
-    @JoinColumn(name = "\"Type\"", nullable = false)
-    private DescriptionTemplateType type;
-
-    @OneToMany(mappedBy = "descriptionTemplate", fetch = FetchType.LAZY)
+    @OneToMany(mappedBy = "datasetProfile", fetch = FetchType.LAZY)
     private Set<UserDatasetProfile> users;
 
-    @OneToMany(fetch = FetchType.LAZY, mappedBy = "datasetprofile")
-    private Set<DMPDatasetProfile> associatedDmps;
 
     public String getDescription() {
         return description;
@@ -158,31 +156,26 @@ public class DescriptionTemplate implements DataEntity<DescriptionTemplate,UUID>
     public String getLanguage() {
         return language;
     }
+
     public void setLanguage(String language) {
         this.language = language;
     }
 
-    public DescriptionTemplateType getType() {
-        return type;
-    }
-    public void setType(DescriptionTemplateType type) {
-        this.type = type;
-    }
-
     public Set<UserDatasetProfile> getUsers() {
         return users;
     }
+
     public void setUsers(Set<UserDatasetProfile> users) {
         this.users = users;
     }
 
     @Override
     public String toString() {
-        return "DatasetProfileListingModel [id=" + id + ", label=" + label + ", dataset=" + dataset + ", definition=" + definition + ", version=" + version + ", language=" + language + ", type=" + type +"]";
+        return "DatasetProfileListingModel [id=" + id + ", label=" + label + ", dataset=" + dataset + ", definition=" + definition + ", version=" + version + ", language=" + language + "]";
     }
 
     @Override
-    public void update(DescriptionTemplate entity) {
+    public void update(DatasetProfile entity) {
     }
 
     @Override
@@ -191,7 +184,7 @@ public class DescriptionTemplate implements DataEntity<DescriptionTemplate,UUID>
     }
 
     @Override
-    public DescriptionTemplate buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
+    public DatasetProfile buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
         this.id = UUID.fromString((String) tuple.get(0).get(base.isEmpty() ? base + "." + "id" : "id"));
         return this;
     }

dmp-backend/data/src/main/java/eu/eudat/data/entities/DescriptionTemplateType.java

@@ -1,89 +0,0 @@
-package eu.eudat.data.entities;
-
-import eu.eudat.queryable.queryableentity.DataEntity;
-import org.hibernate.annotations.GenericGenerator;
-
-import javax.persistence.*;
-import java.util.List;
-import java.util.UUID;
-
-@Entity
-@Table(name = "\"DescriptionTemplateType\"")
-public class DescriptionTemplateType implements DataEntity<DescriptionTemplateType, UUID> {
-
-    public enum Status {
-        SAVED((short) 0), FINALIZED((short) 1), DELETED((short) 99);
-
-        private short value;
-
-        private Status(short value) {
-            this.value = value;
-        }
-        public short getValue() {
-            return value;
-        }
-
-        public static Status fromInteger(int value) {
-            switch (value) {
-                case 0:
-                    return SAVED;
-                case 1:
-                    return FINALIZED;
-                case 99:
-                    return DELETED;
-                default:
-                    throw new RuntimeException("Unsupported Description Template Type Status");
-            }
-        }
-    }
-
-    @Id
-    @GeneratedValue
-    @GenericGenerator(name = "uuid2", strategy = "uuid2")
-    @Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
-    private UUID id;
-
-    @Column(name = "\"Name\"", nullable = false)
-    private String name;
-
-    @Column(name = "\"Status\"", nullable = false)
-    private Short status;
-
-    public UUID getId() {
-        return id;
-    }
-    public void setId(UUID id) {
-        this.id = id;
-    }
-
-    public String getName() {
-        return name;
-    }
-    public void setName(String name) {
-        this.name = name;
-    }
-
-    public Short getStatus() {
-        return status;
-    }
-    public void setStatus(Short status) {
-        this.status = status;
-    }
-
-    @Override
-    public void update(DescriptionTemplateType entity) {
-        this.name = entity.name;
-        this.status = entity.status;
-    }
-
-    @Override
-    public UUID getKeys() {
-        return this.id;
-    }
-
-    @Override
-    public DescriptionTemplateType buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
-        this.id = UUID.fromString((String) tuple.get(0).get(!base.isEmpty() ? base + "." + "id" : "id"));
-        return this;
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/entities/DoiFunder.java

@@ -0,0 +1,61 @@
+package eu.eudat.data.entities;
+
+import eu.eudat.queryable.queryableentity.DataEntity;
+
+import javax.persistence.*;
+import java.util.List;
+import java.util.UUID;
+
+@Entity
+@Table(name = "\"DoiFunder\"")
+public class DoiFunder implements DataEntity<DoiFunder, UUID> {
+
+	@Id
+	private UUID id;
+
+	@Column(name = "name")
+	private String name;
+
+	@Column(name = "doi")
+	private String doi;
+
+	public UUID getId() {
+		return id;
+	}
+
+	public void setId(UUID id) {
+		this.id = id;
+	}
+
+	public String getName() {
+		return name;
+	}
+
+	public void setName(String name) {
+		this.name = name;
+	}
+
+	public String getDoi() {
+		return doi;
+	}
+
+	public void setDoi(String doi) {
+		this.doi = doi;
+	}
+
+	@Override
+	public void update(DoiFunder entity) {
+		this.name = entity.name;
+		this.doi = entity.doi;
+	}
+
+	@Override
+	public UUID getKeys() {
+		return id;
+	}
+
+	@Override
+	public DoiFunder buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
+		return null;
+	}
+}

dmp-backend/data/src/main/java/eu/eudat/data/entities/EmailConfirmation.java

@@ -31,7 +31,7 @@ public class EmailConfirmation implements DataEntity<EmailConfirmation, UUID> {
 	@Column(name = "\"userId\"", nullable = false)
 	private UUID userId;
 	
-	@Column(name = "\"data\"")
+	@Column(name = "\"data\"", nullable = false)
 	private String data;
 
 	@Column(name = "\"expiresAt\"", nullable = false)

dmp-backend/data/src/main/java/eu/eudat/data/entities/EntityDoi.java

@@ -1,121 +0,0 @@
-package eu.eudat.data.entities;
-
-import eu.eudat.data.converters.DateToUTCConverter;
-import eu.eudat.data.entities.helpers.EntityBinder;
-import eu.eudat.queryable.queryableentity.DataEntity;
-import org.hibernate.annotations.Type;
-
-import javax.persistence.*;
-import java.util.Arrays;
-import java.util.Date;
-import java.util.List;
-import java.util.UUID;
-import java.util.stream.Collectors;
-
-@Entity
-@Table(name = "\"EntityDoi\"")
-public class EntityDoi implements DataEntity<EntityDoi, UUID> {
-    public enum EntityType {
-        DMP
-    }
-
-    @Id
-    @Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
-    private UUID id;
-
-    @Enumerated(EnumType.STRING)
-    @Type(type = "eu.eudat.configurations.typedefinition.PostgreSQLEnumType")
-    @Column(name = "\"EntityType\"", nullable = false)
-    private EntityType entityType;
-
-    @Column(name = "\"RepositoryId\"", nullable = false)
-    private String repositoryId;
-
-    @Column(name = "\"Doi\"", nullable = false)
-    private String doi;
-
-    @Column(name = "\"CreatedAt\"", nullable = false)
-    @Convert(converter = DateToUTCConverter.class)
-    private Date createdAt;
-
-    @Column(name = "\"UpdatedAt\"", nullable = false)
-    @Convert(converter = DateToUTCConverter.class)
-    private Date updatedAt;
-
-    @ManyToOne(fetch = FetchType.LAZY)
-    @JoinColumn(name = "\"EntityId\"", nullable = false)
-    private DMP entityId;
-
-    public UUID getId() {
-        return id;
-    }
-    public void setId(UUID id) {
-        this.id = id;
-    }
-
-    public EntityType getEntityType() {
-        return entityType;
-    }
-    public void setEntityType(EntityType entityType) {
-        this.entityType = entityType;
-    }
-
-    public String getRepositoryId() {
-        return repositoryId;
-    }
-    public void setRepositoryId(String repositoryId) {
-        this.repositoryId = repositoryId;
-    }
-
-    public String getDoi() {
-        return doi;
-    }
-    public void setDoi(String doi) {
-        this.doi = doi;
-    }
-
-    public Date getCreatedAt() {
-        return createdAt;
-    }
-    public void setCreatedAt(Date createdAt) {
-        this.createdAt = createdAt;
-    }
-
-    public Date getUpdatedAt() {
-        return updatedAt;
-    }
-    public void setUpdatedAt(Date updatedAt) {
-        this.updatedAt = updatedAt;
-    }
-
-    public DMP getEntityId() {
-        return entityId;
-    }
-    public void setEntityId(DMP entityId) {
-        this.entityId = entityId;
-    }
-
-    @Override
-    public void update(EntityDoi doi) {
-        this.entityType = doi.getEntityType();
-        this.repositoryId = doi.getRepositoryId();
-        this.doi = doi.getDoi();
-        this.createdAt = doi.getCreatedAt();
-        this.updatedAt = doi.getUpdatedAt();
-        this.entityId = doi.getEntityId();
-    }
-
-    @Override
-    public UUID getKeys() {
-        return this.id;
-    }
-
-    @Override
-    public EntityDoi buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
-        String currentBase = base.isEmpty() ? "" : base + ".";
-        if (fields.contains(currentBase + "id")) this.id = EntityBinder.fromTuple(tuple, currentBase + "id");
-        if (fields.contains(currentBase + "entityId"))
-            this.entityId = tuple.stream().map(x -> new DMP().buildFromTuple(Arrays.asList(x), fields , base.isEmpty() ? "entityId" : base + "." + "entityId")).collect(Collectors.toList()).get(0);
-        return this;
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/entities/FileUpload.java

@@ -1,129 +0,0 @@
-package eu.eudat.data.entities;
-
-import eu.eudat.data.converters.DateToUTCConverter;
-import eu.eudat.data.entities.helpers.EntityBinder;
-import eu.eudat.queryable.queryableentity.DataEntity;
-import org.hibernate.annotations.Type;
-
-import javax.persistence.*;
-import java.util.Date;
-import java.util.List;
-import java.util.UUID;
-import java.util.stream.Collectors;
-
-@Entity
-@Table(name = "\"FileUpload\"")
-public class FileUpload implements DataEntity<FileUpload, UUID> {
-    public enum EntityType {
-        DATASET, DMP
-    }
-
-    @Id
-    @Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
-    private UUID id;
-
-    @Column(name = "\"Name\"", nullable = false)
-    private String name;
-
-    @Column(name = "\"FileType\"", nullable = false)
-    private String fileType;
-
-    @Column(name = "\"EntityId\"", nullable = false)
-    private UUID entityId;
-
-    @Enumerated(EnumType.STRING)
-    @Type(type = "eu.eudat.configurations.typedefinition.PostgreSQLEnumType")
-    @Column(name = "\"EntityType\"", nullable = false)
-    private EntityType entityType;
-
-    @Column(name = "\"CreatedAt\"", nullable = false)
-    @Convert(converter = DateToUTCConverter.class)
-    private Date createdAt;
-
-    @Column(name = "\"IsDeleted\"", nullable = false)
-    private Boolean isDeleted;
-
-    @ManyToOne(fetch = FetchType.LAZY)
-    @JoinColumn(name = "\"Creator\"")
-    private UserInfo creator;
-
-    public UUID getId() {
-        return id;
-    }
-    public void setId(UUID id) {
-        this.id = id;
-    }
-
-    public String getName() {
-        return name;
-    }
-    public void setName(String name) {
-        this.name = name;
-    }
-
-    public String getFileType() {
-        return fileType;
-    }
-    public void setFileType(String fileType) {
-        this.fileType = fileType;
-    }
-
-    public UUID getEntityId() {
-        return entityId;
-    }
-    public void setEntityId(UUID entityId) {
-        this.entityId = entityId;
-    }
-
-    public EntityType getEntityType() {
-        return entityType;
-    }
-    public void setEntityType(EntityType entityType) {
-        this.entityType = entityType;
-    }
-
-    public Date getCreatedAt() {
-        return createdAt;
-    }
-    public void setCreatedAt(Date createdAt) {
-        this.createdAt = createdAt;
-    }
-
-    public Boolean getIsDeleted() {
-        return isDeleted;
-    }
-    public void setIsDeleted(Boolean isDeleted) {
-        this.isDeleted = isDeleted;
-    }
-
-    public UserInfo getCreator() {
-        return creator;
-    }
-    public void setCreator(UserInfo creator) {
-        this.creator = creator;
-    }
-
-    @Override
-    public void update(FileUpload file) {
-        this.name = file.getName();
-        this.fileType = file.getFileType();
-        this.entityId = file.getEntityId();
-        this.entityType = file.getEntityType();
-        this.createdAt = file.getCreatedAt();
-        this.isDeleted = file.getIsDeleted();
-        this.creator = file.getCreator();
-    }
-
-    @Override
-    public UUID getKeys() {
-        return this.id;
-    }
-
-    @Override
-    public FileUpload buildFromTuple(List<Tuple> tuple, List<String> fields, String base) {
-        String currentBase = base.isEmpty() ? "" : base + ".";
-        if (fields.contains(currentBase + "id")) this.id = EntityBinder.fromTuple(tuple, currentBase + "id");
-        this.creator = tuple.stream().map(x -> new UserInfo().buildFromTuple(tuple, fields , base.isEmpty() ? "creator" : base + "." + "creator")).collect(Collectors.toList()).get(0);
-        return this;
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/entities/Researcher.java

@@ -24,7 +24,7 @@ public class Researcher implements DataEntity<Researcher, UUID> {
 	@Column(name = "\"ID\"", updatable = false, nullable = false, columnDefinition = "BINARY(16)")
 	private UUID id;
 
-	@Column(name = "\"Label\"", nullable = false, length = 250)
+	@Column(name = "\"Label\"")
 	private String label;
 
 	@Column(name = "\"Uri\"")

dmp-backend/data/src/main/java/eu/eudat/data/entities/UserDatasetProfile.java

@@ -22,8 +22,8 @@ public class UserDatasetProfile implements DataEntity<UserDatasetProfile, UUID>
     private UserInfo user;
 
     @OneToOne(fetch = FetchType.LAZY)
-    @JoinColumn(name = "\"descriptionTemplate\"")
-    private DescriptionTemplate descriptionTemplate;
+    @JoinColumn(name = "\"datasetProfile\"")
+    private DatasetProfile datasetProfile;
 
     @Column(name = "role")
     private Integer role;
@@ -44,12 +44,12 @@ public class UserDatasetProfile implements DataEntity<UserDatasetProfile, UUID>
         this.user = user;
     }
 
-    public DescriptionTemplate getDatasetProfile() {
-        return descriptionTemplate;
+    public DatasetProfile getDatasetProfile() {
+        return datasetProfile;
     }
 
-    public void setDatasetProfile(DescriptionTemplate descriptionTemplate) {
-        this.descriptionTemplate = descriptionTemplate;
+    public void setDatasetProfile(DatasetProfile datasetProfile) {
+        this.datasetProfile = datasetProfile;
     }
 
     public Integer getRole() {

dmp-backend/data/src/main/java/eu/eudat/data/entities/UserInfo.java

@@ -26,7 +26,7 @@ public class UserInfo implements DataEntity<UserInfo, UUID> {
 	private UUID id;
 
 
-	@Column(name = "email")
+	@Column(name = "email", nullable = false)
 	private String email = null;
 
 	@Column(name = "authorization_level", nullable = false)

dmp-backend/data/src/main/java/eu/eudat/data/query/definition/Query.java

@@ -3,14 +3,12 @@ package eu.eudat.data.query.definition;
 import eu.eudat.data.dao.criteria.Criteria;
 import eu.eudat.queryable.QueryableList;
 import eu.eudat.queryable.queryableentity.DataEntity;
-import io.swagger.annotations.ApiModelProperty;
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
 
 public abstract class Query<C extends Criteria<T>, T extends DataEntity> implements CriteriaQuery<C, T> {
     private static final Logger logger = LoggerFactory.getLogger(Query.class);
     private C criteria;
-    @ApiModelProperty(value = "query", name = "query", dataType = "String", hidden = true)
     private QueryableList<T> query;
 
     public static class QueryBuilder<C extends Criteria<T>, T extends DataEntity, Q extends Query<C, T>> {

dmp-backend/data/src/main/java/eu/eudat/data/query/definition/TableQuery.java

@@ -6,16 +6,12 @@ import eu.eudat.data.query.definition.helpers.ColumnOrderings;
 import eu.eudat.data.query.definition.helpers.SelectionFields;
 import eu.eudat.queryable.QueryableList;
 import eu.eudat.queryable.queryableentity.DataEntity;
-import io.swagger.annotations.ApiModelProperty;
 
 
 public abstract class TableQuery<C extends Criteria<T>, T extends DataEntity<T, K>, K> extends Query<C, T> implements TableCriteriaQuery<C, T> {
     private ColumnOrderings orderings;
-    @ApiModelProperty(hidden = true)
     private SelectionFields selection;
-    @ApiModelProperty(value = "length", name = "length", dataType = "Integer", example = "2")
     private Integer length;
-    @ApiModelProperty(value = "offset", name = "offset", dataType = "Integer", example = "0")
     private Integer offset;
 
     public Integer getLength() {

dmp-backend/data/src/main/java/eu/eudat/data/query/definition/helpers/ColumnOrderings.java

@@ -1,14 +1,11 @@
 package eu.eudat.data.query.definition.helpers;
 
-import io.swagger.annotations.ApiModelProperty;
-
 import java.util.LinkedList;
 import java.util.List;
 
 
 public class ColumnOrderings {
 
-    @ApiModelProperty(value = "fields", name = "fields", dataType = "List<String>", example = "[]")
     private List<String> fields;
 
     public List<String> getFields() {

dmp-backend/data/src/main/java/eu/eudat/data/query/definition/helpers/SelectionFields.java

@@ -1,11 +1,8 @@
 package eu.eudat.data.query.definition.helpers;
 
 
-import io.swagger.annotations.ApiModelProperty;
-
 public class SelectionFields {
 
-    @ApiModelProperty(value = "fields", name = "fields", dataType = "String[]", example = "[]")
     private String[] fields;
 
     public String[] getFields() {

dmp-backend/data/src/main/java/eu/eudat/data/query/items/dmpblueprint/DataManagementPlanBlueprintTableRequest.java

@@ -1,27 +0,0 @@
-package eu.eudat.data.query.items.dmpblueprint;
-
-import eu.eudat.data.dao.criteria.DataManagementPlanBlueprintCriteria;
-import eu.eudat.data.entities.DMPProfile;
-import eu.eudat.data.query.PaginationService;
-import eu.eudat.data.query.definition.TableQuery;
-import eu.eudat.queryable.QueryableList;
-
-import java.util.UUID;
-
-public class DataManagementPlanBlueprintTableRequest extends TableQuery<DataManagementPlanBlueprintCriteria, DMPProfile, UUID> {
-
-    @Override
-    public QueryableList<DMPProfile> applyCriteria() {
-        QueryableList<DMPProfile> query = this.getQuery();
-        if (this.getCriteria().getLike() != null && !this.getCriteria().getLike().isEmpty())
-            query.where((builder, root) -> builder.like(root.get("label"), "%" + this.getCriteria().getLike() + "%"));
-        if (this.getCriteria().getStatus() != null)
-            query.where((builder, root) -> builder.equal(root.get("status"), this.getCriteria().getStatus()));
-        return query;
-    }
-
-    @Override
-    public QueryableList<DMPProfile> applyPaging(QueryableList<DMPProfile> items) {
-        return PaginationService.applyPaging(items, this);
-    }
-}

dmp-backend/data/src/main/java/eu/eudat/data/query/items/item/datasetprofile/DatasetProfileAutocompleteRequest.java

@@ -1,24 +1,25 @@
 package eu.eudat.data.query.items.item.datasetprofile;
 
 import eu.eudat.data.dao.criteria.DatasetProfileCriteria;
-import eu.eudat.data.entities.DescriptionTemplate;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.data.query.PaginationService;
+import eu.eudat.data.query.definition.Query;
 import eu.eudat.data.query.definition.TableQuery;
 import eu.eudat.queryable.QueryableList;
 
 import java.util.UUID;
 
-public class DatasetProfileAutocompleteRequest extends TableQuery<DatasetProfileCriteria, DescriptionTemplate, UUID> {
+public class DatasetProfileAutocompleteRequest extends TableQuery<DatasetProfileCriteria,DatasetProfile, UUID> {
     @Override
-    public QueryableList<DescriptionTemplate> applyCriteria() {
-        QueryableList<DescriptionTemplate> query = this.getQuery();
+    public QueryableList<DatasetProfile> applyCriteria() {
+        QueryableList<DatasetProfile> query = this.getQuery();
         if (this.getCriteria().getLike() != null && !this.getCriteria().getLike().isEmpty())
             query.where((builder, root) -> builder.like(builder.upper(root.get("label")), "%" + this.getCriteria().getLike().toUpperCase() + "%"));
         return query;
     }
 
     @Override
-    public QueryableList<DescriptionTemplate> applyPaging(QueryableList<DescriptionTemplate> items) {
+    public QueryableList<DatasetProfile> applyPaging(QueryableList<DatasetProfile> items) {
         return PaginationService.applyPaging(items, this);
     }
 }

dmp-backend/data/src/main/java/eu/eudat/data/query/items/item/datasetprofile/DatasetProfileWizardAutocompleteRequest.java

@@ -1,13 +1,15 @@
 package eu.eudat.data.query.items.item.datasetprofile;
 
 import eu.eudat.data.dao.criteria.DatasetProfileWizardCriteria;
-import eu.eudat.data.entities.DescriptionTemplate;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.data.query.definition.Query;
 import eu.eudat.queryable.QueryableList;
 
-public class DatasetProfileWizardAutocompleteRequest extends Query<DatasetProfileWizardCriteria, DescriptionTemplate> {
+import java.util.UUID;
+
+public class DatasetProfileWizardAutocompleteRequest extends Query<DatasetProfileWizardCriteria,DatasetProfile> {
     @Override
-    public QueryableList<DescriptionTemplate> applyCriteria() {
+    public QueryableList<DatasetProfile> applyCriteria() {
         return null;
     }
 }

dmp-backend/data/src/main/java/eu/eudat/data/query/items/table/datasetprofile/DatasetProfileTableRequestItem.java

@@ -1,23 +1,23 @@
 package eu.eudat.data.query.items.table.datasetprofile;
 
 import eu.eudat.data.dao.criteria.DatasetProfileCriteria;
-import eu.eudat.data.entities.DescriptionTemplate;
+import eu.eudat.data.entities.DatasetProfile;
 import eu.eudat.data.query.definition.TableQuery;
 import eu.eudat.queryable.QueryableList;
 
 import java.util.UUID;
 
-public class DatasetProfileTableRequestItem extends TableQuery<DatasetProfileCriteria, DescriptionTemplate, UUID> {
+public class DatasetProfileTableRequestItem extends TableQuery<DatasetProfileCriteria, DatasetProfile, UUID> {
     @Override
-    public QueryableList<DescriptionTemplate> applyCriteria() {
-        QueryableList<DescriptionTemplate> query = this.getQuery();
+    public QueryableList<DatasetProfile> applyCriteria() {
+        QueryableList<DatasetProfile> query = this.getQuery();
         if (this.getCriteria().getLike() != null && !this.getCriteria().getLike().isEmpty())
             query.where((builder, root) -> builder.like(builder.upper(root.get("label")), "%" + this.getCriteria().getLike().toUpperCase() + "%"));
         return query;
     }
 
     @Override
-    public QueryableList<DescriptionTemplate> applyPaging(QueryableList<DescriptionTemplate> items) {
+    public QueryableList<DatasetProfile> applyPaging(QueryableList<DatasetProfile> items) {
         return null;
     }
 }

dmp-backend/elastic/src/main/java/eu/eudat/elastic/entities/Dataset.java

@@ -231,9 +231,7 @@ public class Dataset implements ElasticEntity<Dataset> {
         if (this.group != null) {
             builder.field("group", this.group.toString());
         }
-        if (this.grant != null) {
-            builder.field("grant", this.grant.toString());
-        }
+        builder.field("grant", this.grant.toString());
         if (collaborators != null) {
             builder.startArray("collaborators");
             this.collaborators.forEach(x -> {
@@ -302,9 +300,7 @@ public class Dataset implements ElasticEntity<Dataset> {
                 this.status = Short.valueOf((String) fields.get("status"));
                 this.dmp = UUID.fromString((String) fields.get("dmp"));
                 this.group = UUID.fromString((String) fields.get("group"));
-                if (fields.get("grant") != null) {
-                    this.grant = UUID.fromString((String) fields.get("grant"));
-                }
+                this.grant = UUID.fromString((String) fields.get("grant"));
                 if (fields.get("created") != null)
                     this.created = Date.from(Instant.parse((String) fields.get("created")));
                 if (fields.get("modified") != null)

dmp-backend/elastic/src/main/java/eu/eudat/elastic/entities/DatasetTempalate.java

@@ -1,18 +1,14 @@
 package eu.eudat.elastic.entities;
 
-import com.fasterxml.jackson.core.type.TypeReference;
-import com.fasterxml.jackson.databind.ObjectMapper;
 import org.elasticsearch.common.xcontent.XContentBuilder;
 
 import java.io.IOException;
-import java.util.HashMap;
 import java.util.Map;
 import java.util.UUID;
 
 public class DatasetTempalate implements ElasticEntity<DatasetTempalate> {
 	private UUID id;
 	private String name;
-	private Map<String, Object> data;
 
 	public UUID getId() {
 		return id;
@@ -30,25 +26,11 @@ public class DatasetTempalate implements ElasticEntity<DatasetTempalate> {
 		this.name = name;
 	}
 
-	public Map<String, Object> getData() {
-		return data;
-	}
-
-	public void setData(Map<String, Object> data) {
-		this.data = data;
-	}
-
 	@Override
 	public XContentBuilder toElasticEntity(XContentBuilder builder) throws IOException {
 		builder.startObject();
 		builder.field("id", this.id.toString());
 		builder.field("name", this.name);
-		if(this.data != null) {
-			builder.field("data", new ObjectMapper().writeValueAsString(this.data));
-		}
-		else{
-			builder.field("data", "");
-		}
 		builder.endObject();
 		return builder;
 	}
@@ -57,12 +39,6 @@ public class DatasetTempalate implements ElasticEntity<DatasetTempalate> {
 	public DatasetTempalate fromElasticEntity(Map<String, Object> fields) {
 		this.id = UUID.fromString((String) fields.get("id"));
 		this.name = (String) fields.get("name");
-		try {
-			this.data = new ObjectMapper().readValue((String) fields.get("data"), new TypeReference<Map<String, Object>>() {});
-		}
-		catch (Exception e){
-			this.data = new HashMap<>();
-		}
 		return this;
 	}
 }

dmp-backend/elastic/src/main/java/eu/eudat/elastic/entities/Dmp.java

@@ -57,7 +57,7 @@ public class Dmp implements ElasticEntity<Dmp> {
 	private Date modified;
 	private Date finalizedAt;
 	private Date publishedAt;
-	private List<Doi> dois;
+	private String doi;
 
 	public UUID getId() {
 		return id;
@@ -203,12 +203,12 @@ public class Dmp implements ElasticEntity<Dmp> {
 		this.publishedAt = publishedAt;
 	}
 
-	public List<Doi> getDois() {
-		return dois;
+	public String getDoi() {
+		return doi;
 	}
 
-	public void setDois(List<Doi> dois) {
-		this.dois = dois;
+	public void setDoi(String doi) {
+		this.doi = doi;
 	}
 
 	@Override
@@ -280,26 +280,13 @@ public class Dmp implements ElasticEntity<Dmp> {
 		builder.field(MapKey.MODIFIED.getName(), this.modified);
 		builder.field(MapKey.FINALIZEDAT.getName(), this.finalizedAt);
 		builder.field(MapKey.PUBLISHEDAT.getName(), this.publishedAt);
-		if (this.dois != null && !this.dois.isEmpty()) {
-			builder.startArray(MapKey.DOIS.getName());
-			this.dois.forEach(doi -> {
-				try {
-					doi.toElasticEntity(builder);
-				} catch (IOException e) {
-					logger.error(e.getMessage(), e);
-				}
-			});
-			builder.endArray();
-		}
+		builder.field(MapKey.DOI.getName(), this.doi);
 		builder.endObject();
 		return builder;
 	}
 
 	@Override
 	public Dmp fromElasticEntity(Map<String, Object> fields) {
-		if (fields == null || fields.isEmpty()) {
-			return null;
-		}
 		this.id = UUID.fromString((String) fields.get(MapKey.ID.getName()));
 		if (fields.size() > 1) {
 			this.label = (String) fields.get(MapKey.LABEL.getName());
@@ -323,26 +310,20 @@ public class Dmp implements ElasticEntity<Dmp> {
 			if (fields.get(MapKey.DATASETS.getName()) != null) {
 				this.datasets = ((List<HashMap<String, Object>>) fields.get(MapKey.DATASETS.getName())).stream().map(map -> new Dataset().fromElasticEntity(map)).collect(Collectors.toList());
 			}
-			if (fields.containsKey(MapKey.GRANT.getName()) && fields.get(MapKey.GRANT.getName()) != null) {
-				this.grant = UUID.fromString((String) fields.get(MapKey.GRANT.getName()));
-			}
+			this.grant = UUID.fromString((String) fields.get(MapKey.GRANT.getName()));
 			if (fields.get(MapKey.GRANTSTATUS.getName()) != null) {
 				this.grantStatus = Short.valueOf(fields.get(MapKey.GRANTSTATUS.getName()).toString());
 			}
-			if (fields.containsKey(MapKey.CREATED.getName())) {
-				this.created = Date.from(Instant.parse(fields.get(MapKey.CREATED.getName()).toString()));
-			}
-			if (fields.containsKey(MapKey.MODIFIED.getName())) {
-				this.modified = Date.from(Instant.parse(fields.get(MapKey.MODIFIED.getName()).toString()));
-			}
+			this.created = Date.from(Instant.parse(fields.get(MapKey.CREATED.getName()).toString()));
+			this.modified = Date.from(Instant.parse(fields.get(MapKey.MODIFIED.getName()).toString()));
 			if (fields.get(MapKey.FINALIZEDAT.getName()) != null) {
 				this.finalizedAt = Date.from(Instant.parse(fields.get(MapKey.FINALIZEDAT.getName()).toString()));
 			}
 			if (fields.get(MapKey.PUBLISHEDAT.getName()) != null) {
 				this.publishedAt = Date.from(Instant.parse(fields.get(MapKey.PUBLISHEDAT.getName()).toString()));
 			}
-			if (fields.get(MapKey.DOIS.getName()) != null) {
-				this.dois = ((List<HashMap<String, Object>>) fields.get(MapKey.DOIS.getName())).stream().map(map -> new Doi().fromElasticEntity(map)).collect(Collectors.toList());
+			if (fields.get(MapKey.DOI.getName()) != null) {
+				this.doi = fields.get(MapKey.DOI.getName()).toString();
 			}
 		}
 		return this;
@@ -367,7 +348,7 @@ public class Dmp implements ElasticEntity<Dmp> {
 		MODIFIED ("modified"),
 		FINALIZEDAT ("finalizedAt"),
 		PUBLISHEDAT ("publishedAt"),
-		DOIS ("dois");
+		DOI ("doi");
 
 		private final String name;
 

dmp-backend/elastic/src/main/java/eu/eudat/elastic/entities/Doi.java

@@ -1,65 +0,0 @@
-package eu.eudat.elastic.entities;
-
-import org.elasticsearch.common.xcontent.XContentBuilder;
-
-import java.io.IOException;
-import java.util.Map;
-import java.util.UUID;
-
-public class Doi implements ElasticEntity<Doi>{
-    private UUID id;
-    private String repositoryId;
-    private String doi;
-    private UUID dmp;
-
-    public UUID getId() {
-        return id;
-    }
-    public void setId(UUID id) {
-        this.id = id;
-    }
-
-    public String getRepositoryId() {
-        return repositoryId;
-    }
-    public void setRepositoryId(String repositoryId) {
-        this.repositoryId = repositoryId;
-    }
-
-    public String getDoi() {
-        return doi;
-    }
-    public void setDoi(String doi) {
-        this.doi = doi;
-    }
-
-    public UUID getDmp() {
-        return dmp;
-    }
-    public void setDmp(UUID dmp) {
-        this.dmp = dmp;
-    }
-
-    @Override
-    public XContentBuilder toElasticEntity(XContentBuilder builder) throws IOException {
-        builder.startObject();
-        builder.field("id", this.id.toString());
-        builder.field("repositoryId", this.repositoryId);
-        builder.field("doi", this.doi);
-        builder.field("dmp", this.dmp.toString());
-        builder.endObject();
-        return builder;
-    }
-
-    @Override
-    public Doi fromElasticEntity(Map<String, Object> fields) {
-        if (fields == null || fields.isEmpty()) {
-            return null;
-        }
-        this.id = UUID.fromString((String) fields.get("id"));
-        this.repositoryId = (String) fields.get("repositoryId");
-        this.doi = (String) fields.get("doi");
-        this.dmp = UUID.fromString((String) fields.get("dmp"));
-        return this;
-    }
-}

dmp-backend/elastic/src/main/java/eu/eudat/elastic/repository/DatasetRepository.java

@@ -55,26 +55,24 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
         if (this.getClient() != null) {
             XContentBuilder builder = XContentFactory.jsonBuilder();
             Dmp dmp = this.dmpRepository.findDocument(entity.getDmp().toString());
-            if (dmp != null) {
-                boolean found = false;
-                if (dmp.getDatasets() != null && !dmp.getDatasets().isEmpty()) {
-                    for (int i = 0; i < dmp.getDatasets().size(); i++) {
-                        if (dmp.getDatasets().get(i).getId().equals(entity.getId())) {
-                            dmp.getDatasets().set(i, entity);
-                            found = true;
-                            break;
-                        }
+            boolean found = false;
+            if (dmp.getDatasets() != null && !dmp.getDatasets().isEmpty()) {
+                for (int i = 0; i < dmp.getDatasets().size(); i++) {
+                    if (dmp.getDatasets().get(i).getId().equals(entity.getId())) {
+                        dmp.getDatasets().set(i, entity);
+                        found = true;
+                        break;
                     }
                 }
-                if (!found) {
-                    if (dmp.getDatasets() == null) {
-                        dmp.setDatasets(new ArrayList<>());
-                    }
-                    dmp.getDatasets().add(entity);
-                }
-                IndexRequest request = new IndexRequest(this.environment.getProperty("elasticsearch.index")).id(dmp.getId().toString()).source(dmp.toElasticEntity(builder));//new IndexRequest("datasets", "doc", entity.getId()).source(entity.toElasticEntity(builder));
-                this.getClient().index(request, RequestOptions.DEFAULT);
             }
+            if (!found) {
+                if (dmp.getDatasets() == null) {
+                    dmp.setDatasets(new ArrayList<>());
+                }
+                dmp.getDatasets().add(entity);
+            }
+            IndexRequest request = new IndexRequest(this.environment.getProperty("elasticsearch.index")).id(dmp.getId().toString()).source(dmp.toElasticEntity(builder));//new IndexRequest("datasets", "doc", entity.getId()).source(entity.toElasticEntity(builder));
+            this.getClient().index(request, RequestOptions.DEFAULT);
             return entity;
         }
         return null;
@@ -146,7 +144,7 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
 
             }
 
-            NestedQueryBuilder nestedQueryBuilder = QueryBuilders.nestedQuery("datasets", boolQuery, ScoreMode.Avg).innerHit(new InnerHitBuilder().setFetchSourceContext(new FetchSourceContext(true, new String[]{"datasets.tags"}, null)).setSize(this.environment.getProperty("elasticsearch.innerHitsSize", Integer.class)));
+            NestedQueryBuilder nestedQueryBuilder = QueryBuilders.nestedQuery("datasets", boolQuery, ScoreMode.Avg).innerHit(new InnerHitBuilder().setFetchSourceContext(new FetchSourceContext(true, new String[]{"datasets.tags"}, null)));
             searchSourceBuilder.query(nestedQueryBuilder)/*.from(criteria.getOffset())*/.fetchSource("datasets.tags", null);
             /*if (criteria.getSize() > 0) {
                 searchSourceBuilder.size(criteria.getSize());
@@ -206,7 +204,7 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
 
             }
 
-            NestedQueryBuilder nestedQueryBuilder = QueryBuilders.nestedQuery("datasets", boolQuery, ScoreMode.None).innerHit(new InnerHitBuilder().setFetchSourceContext(new FetchSourceContext(true, new String[]{"datasets.id"}, null)).setSize(this.environment.getProperty("elasticsearch.innerHitsSize", Integer.class)));
+            NestedQueryBuilder nestedQueryBuilder = QueryBuilders.nestedQuery("datasets", boolQuery, ScoreMode.None).innerHit(new InnerHitBuilder().setFetchSourceContext(new FetchSourceContext(true, new String[]{"datasets.id"}, null)));
             searchSourceBuilder.query(nestedQueryBuilder)/*.from(criteria.getOffset()).size(criteria.getSize())*/.fetchSource("datasets.id", null);
             sortBuilders.forEach(searchSourceBuilder::sort);
             searchRequest.source(searchSourceBuilder);
@@ -261,7 +259,6 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
         }
 
         if (criteria.getDatasetTemplates() != null && criteria.getDatasetTemplates().size() > 0) {
-            criteria.setDatasetTemplates(criteria.getDatasetTemplates().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.template", criteria.getDatasetTemplates().stream().map(UUID::toString).collect(Collectors.toList())));
         }
 
@@ -270,17 +267,14 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
         }
 
         if (criteria.getDmps() != null && criteria.getDmps().size() > 0) {
-            criteria.setDmps(criteria.getDmps().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.dmp", criteria.getDmps().stream().map(UUID::toString).collect(Collectors.toList())));
         }
 
         if (criteria.getGroupIds() != null && criteria.getGroupIds().size() > 0) {
-            criteria.setGroupIds(criteria.getGroupIds().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.group", criteria.getGroupIds().stream().map(UUID::toString).collect(Collectors.toList())));
         }
 
         if (criteria.getGrants() != null && criteria.getGrants().size() > 0) {
-            criteria.setGrants(criteria.getGrants().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.grant", criteria.getGrants().stream().map(UUID::toString).collect(Collectors.toList())));
         }
 
@@ -289,7 +283,6 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
         }
 
         if (criteria.getCollaborators() != null && criteria.getCollaborators().size() > 0) {
-            criteria.setCollaborators(criteria.getCollaborators().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.collaborators.id.keyword", criteria.getCollaborators().stream().map(UUID::toString).collect(Collectors.toList())));
         }
 
@@ -300,12 +293,10 @@ public class DatasetRepository extends ElasticRepository<Dataset, DatasetCriteri
         }
 
         if (criteria.getOrganiztions() != null && criteria.getOrganiztions().size() > 0) {
-            criteria.setOrganiztions(criteria.getOrganiztions().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.organizations.id", criteria.getOrganiztions()));
         }
 
         if (criteria.getTags() != null && criteria.getTags().size() > 0) {
-            criteria.setTags(criteria.getTags().stream().filter(Objects::nonNull).collect(Collectors.toList()));
             boolQuery = boolQuery.should(QueryBuilders.termsQuery("datasets.tags.name", criteria.getTags().stream().map(Tag::getName).collect(Collectors.toList())));
         }
 

dmp-backend/elastic/src/main/java/eu/eudat/elastic/repository/DmpRepository.java

@@ -119,7 +119,7 @@ public class DmpRepository extends ElasticRepository<Dmp, DmpCriteria> {
 
 			}
 			searchSourceBuilder.query(boolQuery).from(criteria.getOffset()).fetchSource("id", null);
-			if (criteria.getSize() != null && criteria.getSize() > 0) {
+			if (criteria.getSize() > 0) {
 				searchSourceBuilder.size(criteria.getSize());
 			}
 			sortBuilders.forEach(searchSourceBuilder::sort);
@@ -174,7 +174,7 @@ public class DmpRepository extends ElasticRepository<Dmp, DmpCriteria> {
 		}
 
 		if (criteria.getCollaborators() != null && criteria.getCollaborators().size() > 0) {
-			boolQuery = boolQuery.should(QueryBuilders.termsQuery(Dmp.MapKey.COLLABORATORS.getName() + ".id.keyword", criteria.getCollaborators().stream().filter(Objects::nonNull).map(UUID::toString).collect(Collectors.toList())));
+			boolQuery = boolQuery.should(QueryBuilders.termsQuery(Dmp.MapKey.COLLABORATORS.getName() + ".id.keyword", criteria.getCollaborators().stream().map(UUID::toString).collect(Collectors.toList())));
 		}
 
 		if (!criteria.isAllowAllVersions()) {

dmp-backend/elastic/src/main/java/eu/eudat/elastic/repository/ElasticRepository.java

@@ -30,7 +30,6 @@ public abstract class ElasticRepository<T extends ElasticEntity,C extends Criter
             }
         } catch (IOException e) {
             logger.warn("Unable to connect to Elastic Services");
-            logger.error(e.getMessage(), e);
             this.client = null;
         }
     }

dmp-backend/pom.xml

@@ -41,8 +41,7 @@
         <commons-codec.version>1.9</commons-codec.version>
         <org.junit.version>4.11</org.junit.version>
         <log4j.version>1.2.17</log4j.version>
-        <log4j2.version>2.15.0</log4j2.version>
-        <slf4j.version>1.7.15</slf4j.version>
+        <slf4j.version>1.7.12</slf4j.version>
         <!--<jetty.version>11.0.5
         </jetty.version>--> <!-- Adapt this to a version found on http://repo.maven.apache.org/maven2/org/eclipse/jetty/jetty-maven-plugin/ -->
         <logback.version>1.2.3</logback.version>
@@ -173,13 +172,13 @@
         <dependency>
             <groupId>org.apache.poi</groupId>
             <artifactId>poi-ooxml</artifactId>
-            <version>4.1.1</version>
+            <version>4.0.0</version>
         </dependency>
 
         <dependency>
             <groupId>org.apache.poi</groupId>
             <artifactId>poi</artifactId>
-            <version>4.1.1</version>
+            <version>4.0.0</version>
         </dependency>
 
         <!-- https://mvnrepository.com/artifact/org.apache.xmlgraphics/fop -->
@@ -188,12 +187,6 @@
             <artifactId>fop</artifactId>
             <version>2.3</version>
         </dependency>
-
-        <dependency>
-            <groupId>org.jsoup</groupId>
-            <artifactId>jsoup</artifactId>
-            <version>1.14.3</version>
-        </dependency>
         <!-- https://mvnrepository.com/artifact/fr.opensagres.xdocreport/org.apache.poi.xwpf.converter.pdf -->
         <dependency>
             <groupId>fr.opensagres.xdocreport</groupId>
@@ -219,10 +212,10 @@
             <version>2.1</version>
         </dependency>
 
-        <!--<dependency>
+        <dependency>
             <groupId>org.hibernate</groupId>
             <artifactId>hibernate-jpamodelgen</artifactId>
-        </dependency>-->
+        </dependency>
 
         <dependency>
             <groupId>org.elasticsearch.client</groupId>
@@ -230,11 +223,11 @@
             <version>7.6.0</version>
         </dependency>
 
-        <!--<dependency>
+        <dependency>
             <groupId>org.apache.logging.log4j</groupId>
             <artifactId>log4j-to-slf4j</artifactId>
             <version>2.8.2</version>
-        </dependency>-->
+        </dependency>
 
         <!-- https://mvnrepository.com/artifact/javax.xml.bind/jaxb-api -->
         <dependency>
@@ -327,18 +320,6 @@
                 <packaging.type>jar</packaging.type>
             </properties>
         </profile>
-        <profile>
-            <id>intellij-properties-launcher</id>
-
-            <dependencies>
-                <dependency>
-                    <groupId>org.springframework.boot</groupId>
-                    <artifactId>spring-boot-loader</artifactId>
-                    <version>2.5.2</version>
-                </dependency>
-            </dependencies>
-
-        </profile>
         <profile>
             <id>production</id>
             <properties>

dmp-backend/queryable/src/main/java/eu/eudat/queryable/QueryableList.java

@@ -4,8 +4,8 @@ import eu.eudat.queryable.jpa.predicates.*;
 import eu.eudat.queryable.queryableentity.DataEntity;
 import eu.eudat.queryable.types.SelectionField;
 
-import javax.persistence.criteria.Join;
-import javax.persistence.criteria.JoinType;
+import javax.persistence.TypedQuery;
+import javax.persistence.criteria.Expression;
 import javax.persistence.criteria.Subquery;
 import java.util.List;
 import java.util.Map;
@@ -44,8 +44,6 @@ public interface QueryableList<T extends DataEntity> {
 
     QueryableList<T> orderBy(OrderByPredicate<T> predicate);
 
-    QueryableList<T> groupBy(GroupByPredicate<T> predicate);
-
     QueryableList<T> withHint(String hint);
 
     Long count();
@@ -69,8 +67,4 @@ public interface QueryableList<T extends DataEntity> {
     <U extends Comparable> Subquery<U> subQueryMax(SinglePredicate<T> predicate, List<SelectionField> fields, Class<U> uClass);
 
     <U extends Comparable> Subquery<U> subQueryMax(NestedQuerySinglePredicate<T> predicate, List<SelectionField> fields, Class<U> uClass);
-
-    Join getJoin(String field, JoinType type);
-
-
 }

dmp-backend/queryable/src/main/java/eu/eudat/queryable/collector/Collector.java

@@ -1,9 +1,6 @@
 package eu.eudat.queryable.collector;
 
-import com.fasterxml.jackson.databind.ObjectMapper;
-
 import javax.persistence.Tuple;
-import java.util.HashMap;
 import java.util.LinkedHashMap;
 import java.util.List;
 import java.util.Map;
@@ -12,13 +9,9 @@ import java.util.stream.Collectors;
 public class Collector {
 
 	public List<Map> buildFromTuple(List<Tuple> results, Map<Object, List<Tuple>> groupedResults, List<String> fields, String key) {
-		return results.stream().map(tuple -> {
-			Map<String, Object> parsedResult = new HashMap<>();
-			tuple.getElements().forEach(tupleElement -> parsedResult.put(tupleElement.getAlias(), tuple.get(tupleElement.getAlias())));
-			return parsedResult;
-		}).collect(Collectors.toList());/*groupedResults.keySet().stream()
+		return groupedResults.keySet().stream()
 				.map(x -> buildOne(groupedResults.get(x), fields, key))
-				.collect(Collectors.toList());*/
+				.collect(Collectors.toList());
 	}
 
 	private Map buildOne(List<Tuple> tuples, List<String> fields, String key) {

dmp-backend/queryable/src/main/java/eu/eudat/queryable/jpa/hibernatequeryablelist/QueryableHibernateList.java

@@ -1,6 +1,5 @@
 package eu.eudat.queryable.jpa.hibernatequeryablelist;
 
-import com.fasterxml.jackson.databind.ObjectMapper;
 import eu.eudat.queryable.QueryableList;
 import eu.eudat.queryable.collector.Collector;
 import eu.eudat.queryable.exceptions.NotSingleResultException;
@@ -34,7 +33,6 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 	private List<NestedQuerySinglePredicate<T>> nestedPredicates = new LinkedList<>();
 	private boolean distinct = false;
 	private List<OrderByPredicate<T>> orderings = new LinkedList<>();
-	private List<GroupByPredicate<T>> groupings = new LinkedList<>();
 	private List<String> fields = new LinkedList<>();
 	private Integer length;
 	private Integer offset;
@@ -64,7 +62,7 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 	}
 
 	private QueryableList<T> selectFields() {
-		List<Selection> rootFields = fields.stream().map(this::convertFieldToPath).filter(Objects::nonNull).collect(Collectors.toList());
+		List<Selection> rootFields = fields.stream().map(field -> this.convertFieldToPath(field)).filter(x -> x != null).collect(Collectors.toList());
 		this.query.select(this.manager.getCriteriaBuilder().tuple(rootFields.toArray(new Selection[rootFields.size()])));
 		return this;
 	}
@@ -95,7 +93,7 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		return join;
 	}
 
-	public Join getJoin(String field, JoinType type) {
+	private Join getJoin(String field, JoinType type) {
 		if (this.joinsMap.containsKey(field)) return this.joinsMap.get(field);
 		Join join = this.root.join(field, type);
 		this.joinsMap.put(field, join);
@@ -135,11 +133,11 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 	}
 
 	public <R> List<R> select(SelectPredicate<T, R> predicate) {
-		return this.toList().stream().map(predicate::applySelection).collect(Collectors.toList());
+		return this.toList().stream().map(item -> predicate.applySelection(item)).collect(Collectors.toList());
 	}
 
 	public <R> CompletableFuture<List<R>> selectAsync(SelectPredicate<T, R> predicate) {
-		return this.toListAsync().thenApplyAsync(items -> items.stream().map(predicate::applySelection).collect(Collectors.toList()));
+		return this.toListAsync().thenApplyAsync(items -> items.stream().map(item -> predicate.applySelection(item)).collect(Collectors.toList()));
 	}
 
 	public QueryableList<T> distinct() {
@@ -152,11 +150,6 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		return this;
 	}
 
-	public QueryableList<T> groupBy(GroupByPredicate<T> predicate) {
-		this.groupings.add(predicate);
-		return this;
-	}
-
 	public Long count() {
 		CriteriaBuilder criteriaBuilder = this.manager.getCriteriaBuilder();
 		CriteriaQuery<Long> criteriaQuery = criteriaBuilder.createQuery(Long.class);
@@ -164,16 +157,8 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		if (distinct) criteriaQuery.select(criteriaBuilder.countDistinct(this.root.get("id")));
 		else criteriaQuery.select(criteriaBuilder.count(this.root));
 		criteriaQuery.where(this.generateWherePredicates(this.singlePredicates, this.root, this.nestedPredicates, this.nestedQueryRoot));
-		if (!this.groupings.isEmpty()) criteriaQuery.groupBy(this.generateGroupPredicates(this.groupings, this.root));
 		//if (distinct) criteriaQuery.distinct(true);
-
-		//GK: Group By special case. When group by is used, since it will result in a list of how many elements have the grouped field common
-		// then it will instead return the number of the distinct values of the grouped field
-		if (this.groupings.isEmpty()) {
-			return this.manager.createQuery(criteriaQuery).getSingleResult();
-		} else {
-			return (long) this.manager.createQuery(criteriaQuery).getResultList().size();
-		}
+		return this.manager.createQuery(criteriaQuery).getSingleResult();
 	}
 
 	@Async
@@ -184,15 +169,8 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		if (distinct) criteriaQuery.select(criteriaBuilder.countDistinct(this.root.get("id")));
 		else criteriaQuery.select(criteriaBuilder.count(this.root));
 		criteriaQuery.where(this.generateWherePredicates(this.singlePredicates, this.root, this.nestedPredicates, this.nestedQueryRoot));
-		if (!this.groupings.isEmpty()) criteriaQuery.groupBy(this.generateGroupPredicates(this.groupings, this.root));
 		//if (distinct) criteriaQuery.distinct(true);
-		return CompletableFuture.supplyAsync(() -> {
-			if (this.groupings.isEmpty()) {
-				return this.manager.createQuery(criteriaQuery).getSingleResult();
-			} else {
-				return (long) this.manager.createQuery(criteriaQuery).getResultList().size();
-			}
-		});
+		return CompletableFuture.supplyAsync(() -> this.manager.createQuery(criteriaQuery).getSingleResult());
 	}
 
 
@@ -227,14 +205,6 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		return predicates.toArray(new Order[predicates.size()]);
 	}
 
-	private Expression[] generateGroupPredicates(List<GroupByPredicate<T>> groupByPredicates, Root<T> root) {
-		List<Expression> predicates = new LinkedList<>();
-		for (GroupByPredicate<T> groupPredicate : groupByPredicates) {
-			predicates.add(groupPredicate.applyPredicate(this.manager.getCriteriaBuilder(), root));
-		}
-		return predicates.toArray(new Expression[predicates.size()]);
-	}
-
 	public List<T> toList() {
 		CriteriaBuilder builder = this.manager.getCriteriaBuilder();
 		if (!this.fields.isEmpty()) this.query = builder.createTupleQuery();
@@ -242,20 +212,22 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		this.root = this.query.from(this.tClass);
 		this.query.where(this.generateWherePredicates(this.singlePredicates, this.root, this.nestedPredicates, this.nestedQueryRoot));
 		if (!this.orderings.isEmpty()) this.query.orderBy(this.generateOrderPredicates(this.orderings, this.root));
-		if (!this.groupings.isEmpty()) this.query.groupBy(this.generateGroupPredicates(this.groupings, this.root));
 		if (!this.fields.isEmpty()) this.selectFields();
 		if (distinct) this.query.distinct(true);
-		//if (!this.fields.isEmpty()) this.query.multiselect(this.parseFields(this.fields));
-		ObjectMapper mapper = new ObjectMapper();
-		if (!this.fields.isEmpty()) return this.toListWithFields().stream().map(m -> mapper.convertValue(m, this.tClass)).collect(Collectors.toList());
+		//if (!this.fields.isEmpty()) return this.toListWithFields();
 		return this.toListWithOutFields();
 	}
 
 	public List<Map> toListWithFields() {
-		TypedQuery<Tuple> typedQuery = this.manager.createQuery(this.query);
-		if (this.offset != null) typedQuery.setFirstResult(this.offset);
-		if (this.length != null) typedQuery.setMaxResults(this.length);
-		List<Tuple> results = typedQuery.getResultList();
+		CriteriaBuilder builder = this.manager.getCriteriaBuilder();
+		if (!this.fields.isEmpty()) this.query = builder.createTupleQuery();
+		else this.query = builder.createQuery(this.tClass);
+		this.root = this.query.from(this.tClass);
+		this.query.where(this.generateWherePredicates(this.singlePredicates, this.root, this.nestedPredicates, this.nestedQueryRoot));
+		if (!this.orderings.isEmpty()) this.query.orderBy(this.generateOrderPredicates(this.orderings, this.root));
+		if (!this.fields.isEmpty()) this.selectFields();
+		if (distinct) this.query.distinct(true);
+		List<Tuple> results = this.manager.createQuery(query).getResultList();
 		Map<Object, List<Tuple>> groupedResults = results.stream()
 				.collect(Collectors.groupingBy(x -> x.get("id")));
 		return this.collector.buildFromTuple(results, groupedResults, this.fields, "id");
@@ -280,7 +252,6 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		this.root = this.query.from(this.tClass);
 		this.query.where(this.generateWherePredicates(this.singlePredicates, this.root, this.nestedPredicates, this.nestedQueryRoot));
 		if (!this.orderings.isEmpty()) this.query.orderBy(this.generateOrderPredicates(this.orderings, this.root));
-		if (!this.groupings.isEmpty()) this.query.groupBy(this.generateGroupPredicates(this.groupings, this.root));
 		if (!this.fields.isEmpty()) this.selectFields();
 		if (distinct) this.query.distinct(true);
 		if (!this.fields.isEmpty()) return this.toListAsyncWithFields();
@@ -385,8 +356,6 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 		if (!this.orderings.isEmpty())
 			criteriaQuery.orderBy(this.generateOrderPredicates(this.orderings, criteriaRoot));
 
-		if (!this.groupings.isEmpty()) criteriaQuery.groupBy(this.generateGroupPredicates(this.groupings, this.root));
-
 		TypedQuery<T> typedQuery = this.manager.createQuery(criteriaQuery);
 		typedQuery.setHint("javax.persistence.fetchgraph", this.manager.getEntityGraph(this.hint));
 		return typedQuery;
@@ -497,11 +466,4 @@ public class QueryableHibernateList<T extends DataEntity> implements QueryableLi
 				.createQuery(update)
 				.executeUpdate();
 	}
-
-	private Path[] parseFields(List<String> selectedFields) {
-		List<Path> paths = new ArrayList<>();
-		selectedFields.forEach(s -> paths.add(root.get(s)));
-
-		return paths.toArray(new Path[0]);
-	}
 }

dmp-backend/queryable/src/main/java/eu/eudat/queryable/jpa/predicates/GroupByPredicate.java

@@ -1,10 +0,0 @@
-package eu.eudat.queryable.jpa.predicates;
-
-import javax.persistence.criteria.CriteriaBuilder;
-import javax.persistence.criteria.Expression;
-import javax.persistence.criteria.Root;
-
-public interface GroupByPredicate<T> {
-    Expression<T> applyPredicate(CriteriaBuilder builder, Root<T> root);
-
-}

dmp-backend/web/pom.xml

@@ -26,16 +26,13 @@
             <artifactId>queryable</artifactId>
             <version>1.0-SNAPSHOT</version>
         </dependency>
+
         <dependency>
             <groupId>eu.eudat</groupId>
             <artifactId>elastic</artifactId>
             <version>1.0.0-SNAPSHOT</version>
         </dependency>
-        <dependency>
-            <groupId>gr.cite.opendmp</groupId>
-            <artifactId>repositorydepositbase</artifactId>
-            <version>1.0.4</version>
-        </dependency>
+
 
 
         <dependency>
@@ -46,10 +43,6 @@
             <groupId>org.springframework.boot</groupId>
             <artifactId>spring-boot-starter-mail</artifactId>
         </dependency>
-        <dependency>
-            <groupId>org.springframework.boot</groupId>
-            <artifactId>spring-boot-starter-webflux</artifactId>
-        </dependency>
         <!-- https://mvnrepository.com/artifact/com.googlecode.json-simple/json-simple -->
         <!-- https://mvnrepository.com/artifact/com.fasterxml.jackson.core/jackson-databind -->
 
@@ -102,16 +95,6 @@
             <artifactId>springfox-swagger-ui</artifactId>
             <version>3.0.0</version>
         </dependency>
-        <dependency>
-            <groupId>io.springfox</groupId>
-            <artifactId>springfox-swagger2</artifactId>
-            <version>3.0.0</version>
-        </dependency>
-        <dependency>
-            <groupId>io.springfox</groupId>
-            <artifactId>springfox-boot-starter</artifactId>
-            <version>3.0.0</version>
-        </dependency>
 
         <!-- facebook Login -->
         <dependency>
@@ -137,66 +120,6 @@
             <groupId>org.springframework.boot</groupId>
             <artifactId>spring-boot-starter-tomcat</artifactId>
         </dependency>
-
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-core</artifactId>
-            <version>${opensaml.version}</version>
-            <scope>compile</scope>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-saml-api</artifactId>
-            <version>${opensaml.version}</version>
-            <scope>compile</scope>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-saml-impl</artifactId>
-            <version>${opensaml.version}</version>
-            <scope>compile</scope>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-soap-api</artifactId>
-            <version>${opensaml.version}</version>
-            <scope>compile</scope>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-xmlsec-api</artifactId>
-            <version>${opensaml.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-security-api</artifactId>
-            <version>${opensaml.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-security-impl</artifactId>
-            <version>${opensaml.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>opensaml-profile-api</artifactId>
-            <version>${opensaml.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>org.opensaml</groupId>
-            <artifactId>xmltooling</artifactId>
-            <version>1.4.4</version>
-        </dependency>
-        <dependency>
-            <groupId>jakarta.xml.soap</groupId>
-            <artifactId>jakarta.xml.soap-api</artifactId>
-            <version>3.0.0</version>
-        </dependency>
-        <dependency>
-            <groupId>com.sun.xml.messaging.saaj</groupId>
-            <artifactId>saaj-impl</artifactId>
-            <version>3.0.0-M2</version>
-        </dependency>
     </dependencies>
 
     <build>
@@ -226,46 +149,11 @@
             <plugin>
                 <groupId>org.springframework.boot</groupId>
                 <artifactId>spring-boot-maven-plugin</artifactId>
-                <version>1.5.9.RELEASE</version>
-            </plugin>
-            <plugin>
-                <groupId>org.apache.maven.plugins</groupId>
-                <artifactId>maven-jar-plugin</artifactId>
-                <version>2.4</version>
-                <configuration>
-                    <archive>
-                        <manifest>
-                            <addClasspath>true</addClasspath>
-                            <mainClass>eu.eudat.EuDatApplication</mainClass>
-                            <classpathPrefix>dependency-jars/</classpathPrefix>
-                        </manifest>
-                    </archive>
-                </configuration>
-            </plugin>
-            <plugin>
-                <groupId>org.apache.maven.plugins</groupId>
-                <artifactId>maven-dependency-plugin</artifactId>
-                <version>2.5.1</version>
-                <executions>
-                    <execution>
-                        <id>copy-dependencies</id>
-                        <phase>package</phase>
-                        <goals>
-                            <goal>copy-dependencies</goal>
-                        </goals>
-                        <configuration>
-                            <outputDirectory>
-                                ${project.build.directory}/dependency-jars/
-                            </outputDirectory>
-                        </configuration>
-                    </execution>
-                </executions>
             </plugin>
         </plugins>
     </build>
 
     <properties>
         <start-class>eu.eudat.EuDatApplication</start-class>
-        <opensaml.version>4.0.1</opensaml.version>
     </properties>
 </project>

dmp-backend/web/src/main/java/eu/eudat/EuDatApplication.java

@@ -8,7 +8,7 @@ import org.springframework.boot.builder.SpringApplicationBuilder;
 import org.springframework.boot.web.servlet.support.SpringBootServletInitializer;
 import org.springframework.scheduling.annotation.EnableAsync;
 
-@SpringBootApplication(scanBasePackages = {"eu.eudat", "eu.eudat.depositinterface"})
+@SpringBootApplication
 @EnableAsync
 public class EuDatApplication extends SpringBootServletInitializer {
     private static final Logger logger = LoggerFactory.getLogger(EuDatApplication.class);

dmp-backend/web/src/main/java/eu/eudat/cache/ExternalUrlsKeyGenerator.java

@@ -1,22 +0,0 @@
-package eu.eudat.cache;
-
-import eu.eudat.logic.proxy.config.ExternalUrlCriteria;
-import org.springframework.cache.interceptor.KeyGenerator;
-
-import java.lang.reflect.Method;
-
-public class ExternalUrlsKeyGenerator implements KeyGenerator {
-    @Override
-    public Object generate(Object o, Method method, Object... params) {
-        StringBuffer stringBuffer = new StringBuffer();
-        stringBuffer.append(o.getClass().getSimpleName()).append("_");
-        stringBuffer.append(method.getName()).append("_");
-        for (Object param: params) {
-            if (param instanceof ExternalUrlCriteria) {
-                ExternalUrlCriteria externalUrlCriteria = (ExternalUrlCriteria) param;
-                stringBuffer.append(externalUrlCriteria);
-            }
-        }
-        return stringBuffer.toString();
-    }
-}

dmp-backend/web/src/main/java/eu/eudat/cache/ResponsesCache.java

@@ -7,7 +7,6 @@ import org.slf4j.LoggerFactory;
 import org.springframework.cache.CacheManager;
 import org.springframework.cache.annotation.EnableCaching;
 import org.springframework.cache.caffeine.CaffeineCache;
-import org.springframework.cache.interceptor.KeyGenerator;
 import org.springframework.cache.support.SimpleCacheManager;
 import org.springframework.context.annotation.Bean;
 import org.springframework.stereotype.Component;
@@ -32,10 +31,6 @@ public class ResponsesCache {
         SimpleCacheManager simpleCacheManager = new SimpleCacheManager();
         List<CaffeineCache> caches = new ArrayList<CaffeineCache>();
         caches.add(new CaffeineCache("repositories", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
-        caches.add(new CaffeineCache("pubrepos", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
-        caches.add(new CaffeineCache("journals", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
-        caches.add(new CaffeineCache("taxonomies", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
-        caches.add(new CaffeineCache("publications", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
         caches.add(new CaffeineCache("grants", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
         caches.add(new CaffeineCache("projects", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
         caches.add(new CaffeineCache("funders", Caffeine.newBuilder().expireAfterAccess(HOW_MANY, TIME_UNIT).build()));
@@ -52,9 +47,4 @@ public class ResponsesCache {
         return simpleCacheManager;
     }
 
-    @Bean(name = "externalUrlsKeyGenerator")
-    private KeyGenerator externalUrlsKeyGenerator() {
-        return new ExternalUrlsKeyGenerator();
-    }
-
 }

dmp-backend/web/src/main/java/eu/eudat/configurations/ElasticSearchConfiguration.java

@@ -4,15 +4,11 @@ import org.apache.http.HttpHost;
 import org.apache.http.auth.AuthScope;
 import org.apache.http.auth.UsernamePasswordCredentials;
 import org.apache.http.client.CredentialsProvider;
-import org.apache.http.conn.ssl.NoopHostnameVerifier;
-import org.apache.http.conn.ssl.TrustSelfSignedStrategy;
 import org.apache.http.impl.client.BasicCredentialsProvider;
 import org.apache.http.impl.nio.conn.PoolingNHttpClientConnectionManager;
 import org.apache.http.impl.nio.reactor.DefaultConnectingIOReactor;
 import org.apache.http.nio.reactor.IOReactorException;
 import org.apache.http.nio.reactor.IOReactorExceptionHandler;
-import org.apache.http.ssl.SSLContextBuilder;
-import org.apache.http.ssl.SSLContexts;
 import org.elasticsearch.client.RestClient;
 import org.elasticsearch.client.RestHighLevelClient;
 import org.slf4j.Logger;
@@ -22,17 +18,7 @@ import org.springframework.context.annotation.Bean;
 import org.springframework.context.annotation.Configuration;
 import org.springframework.core.env.Environment;
 
-import javax.net.ssl.SSLContext;
-import javax.net.ssl.TrustManagerFactory;
-import java.io.FileInputStream;
 import java.io.IOException;
-import java.io.InputStream;
-import java.nio.file.Files;
-import java.nio.file.Path;
-import java.nio.file.Paths;
-import java.security.KeyStore;
-import java.security.cert.Certificate;
-import java.security.cert.CertificateFactory;
 
 /**
  * Created by ikalyvas on 7/5/2018.
@@ -70,46 +56,12 @@ public class ElasticSearchConfiguration {
                 }
             });
 
-            RestHighLevelClient client;
-            if(this.environment.getProperty("elasticsearch.usingssl", Boolean.class)){
-
-//                Path caCertificatePath = Paths.get(this.environment.getProperty("elasticsearch.certPath"));
-//                CertificateFactory factory =
-//                        CertificateFactory.getInstance("X.509");
-//                Certificate trustedCa;
-//                try (InputStream is = Files.newInputStream(caCertificatePath)) {
-//                    trustedCa = factory.generateCertificate(is);
-//                }
-//                KeyStore trustStore = KeyStore.getInstance("pkcs12");
-//                trustStore.load(null, null);
-//                trustStore.setCertificateEntry("ca", trustedCa);
-//
-//                TrustManagerFactory tmf = TrustManagerFactory.getInstance(TrustManagerFactory.getDefaultAlgorithm());
-//                tmf.init(trustStore);
-//
-//                SSLContext sslContext = SSLContext.getInstance("TLS");
-//                sslContext.init(null, tmf.getTrustManagers(), null);
-
-                SSLContextBuilder sslBuilder = SSLContexts.custom()
-                        .loadTrustMaterial(null, (x509Certificates, s) -> true);
-                final SSLContext sslContext = sslBuilder.build();
-                client = new RestHighLevelClient(
-                        RestClient.builder(
-                                new HttpHost(this.environment.getProperty("elasticsearch.host"),
-                                        Integer.parseInt(this.environment.getProperty("elasticsearch.port")), "https"))
-                                .setHttpClientConfigCallback(httpClientBuilder -> httpClientBuilder
-                                        .setDefaultCredentialsProvider(credentialsProvider).setSSLHostnameVerifier(NoopHostnameVerifier.INSTANCE).setSSLContext(sslContext))
-                                .setRequestConfigCallback(requestConfigBuilder -> requestConfigBuilder.setConnectTimeout(5000).setSocketTimeout(120000))
-                );
-            }
-            else {
-                 client = new RestHighLevelClient(
-                        RestClient.builder(
-                                new HttpHost(this.environment.getProperty("elasticsearch.host"),
-                                        Integer.parseInt(this.environment.getProperty("elasticsearch.port")), "http"))
-                                .setHttpClientConfigCallback(httpClientBuilder -> httpClientBuilder
-                                        .setDefaultCredentialsProvider(credentialsProvider).setConnectionManager(new PoolingNHttpClientConnectionManager(ioReactor))));
-            }
+            RestHighLevelClient client = new RestHighLevelClient(
+                    RestClient.builder(
+                            new HttpHost(this.environment.getProperty("elasticsearch.host"),
+                                    Integer.parseInt(this.environment.getProperty("elasticsearch.port")), "http"))
+                            .setHttpClientConfigCallback(httpClientBuilder -> httpClientBuilder
+                                    .setDefaultCredentialsProvider(credentialsProvider).setConnectionManager(new PoolingNHttpClientConnectionManager(ioReactor))));
             return client;
         }catch (IOReactorException ex) {
             throw new RuntimeException(ex);

dmp-backend/web/src/main/java/eu/eudat/configurations/ProductionDatabaseConfiguration.java

@@ -24,7 +24,7 @@ import java.util.Properties;
  */
 @Configuration
 @EnableTransactionManagement
-@Profile({ "production", "staging", "docker" })
+@Profile({ "production", "staging" })
 @ComponentScan(basePackages = {"eu.eudat.data.entities"})
 public class ProductionDatabaseConfiguration {
 

dmp-backend/web/src/main/java/eu/eudat/configurations/dynamicfunder/DynamicFunderConfigurationProdImpl.java

@@ -20,7 +20,7 @@ import java.util.LinkedList;
 import java.util.List;
 
 @Service("dynamicFunderConfiguration")
-@Profile({ "production", "staging", "docker" })
+@Profile({ "production", "staging" })
 public class DynamicFunderConfigurationProdImpl implements DynamicFunderConfiguration {
 	private static final Logger logger = LoggerFactory.getLogger(DynamicFunderConfigurationProdImpl.class);
 

dmp-backend/web/src/main/java/eu/eudat/configurations/dynamicgrant/DynamicGrantConfigurationProdImpl.java

@@ -24,7 +24,7 @@ import java.util.List;
  * Created by ikalyvas on 3/23/2018.
  */
 @Service("dynamicGrantConfiguration")
-@Profile({ "production", "staging", "docker" })
+@Profile({ "production", "staging" })
 public class DynamicGrantConfigurationProdImpl implements DynamicGrantConfiguration {
     private static final Logger logger = LoggerFactory.getLogger(DynamicGrantConfigurationProdImpl.class);
 

dmp-backend/web/src/main/java/eu/eudat/configurations/dynamicproject/DynamicProjectConfigurationProdImpl.java

@@ -21,7 +21,7 @@ import java.util.LinkedList;
 import java.util.List;
 
 @Service("dynamicProjectConfiguration")
-@Profile({ "production", "staging", "docker" })
+@Profile({ "production", "staging" })
 public class DynamicProjectConfigurationProdImpl implements DynamicProjectConfiguration{
 	private static final Logger logger = LoggerFactory.getLogger(DynamicProjectConfigurationProdImpl.class);
 

dmp-backend/web/src/main/java/eu/eudat/configurations/typedefinition/PostgreSQLEnumType.java

@@ -1,26 +0,0 @@
-package eu.eudat.configurations.typedefinition;
-
-import org.hibernate.HibernateException;
-import org.hibernate.engine.spi.SharedSessionContractImplementor;
-
-import java.sql.PreparedStatement;
-import java.sql.SQLException;
-import java.sql.Types;
-
-public class PostgreSQLEnumType extends org.hibernate.type.EnumType {
-
-    public void nullSafeSet(
-            PreparedStatement st,
-            Object value,
-            int index,
-            SharedSessionContractImplementor session)
-            throws HibernateException, SQLException {
-        st.setObject(
-                index,
-                value != null ?
-                        ((Enum) value).name() :
-                        null,
-                Types.OTHER
-        );
-    }
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/AboutController.java

@@ -1,39 +0,0 @@
-package eu.eudat.controllers;
-
-import eu.eudat.logic.managers.MaterialManager;
-import eu.eudat.logic.managers.MetricsManager;
-import eu.eudat.types.MetricNames;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.core.env.Environment;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-
-import java.io.IOException;
-import java.nio.file.Files;
-import java.nio.file.Path;
-import java.nio.file.Paths;
-import java.util.Objects;
-import java.util.stream.Stream;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = {"/api/material/about/"})
-public class AboutController {
-
-    private Environment environment;
-    private MaterialManager materialManager;
-
-    @Autowired
-    public AboutController(Environment environment, MaterialManager materialManager, MetricsManager metricsManager) {
-        this.environment = environment;
-        this.materialManager = materialManager;
-    }
-
-    @RequestMapping(path = "{lang}", method = RequestMethod.GET )
-    public ResponseEntity<byte[]> getAbout(@PathVariable(name = "lang") String lang) throws IOException {
-        try (Stream<Path> paths = Files.walk(Paths.get(Objects.requireNonNull(this.environment.getProperty("about.path"))))) {
-            return this.materialManager.getResponseEntity(lang, paths);
-        }
-    }
-
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/Admin.java

@@ -1,6 +1,5 @@
 package eu.eudat.controllers;
 
-import eu.eudat.data.entities.DescriptionTemplate;
 import eu.eudat.data.entities.UserDatasetProfile;
 import eu.eudat.data.entities.UserInfo;
 import eu.eudat.data.query.items.table.datasetprofile.DatasetProfileTableRequestItem;
@@ -17,10 +16,10 @@ import eu.eudat.models.data.admin.composite.DatasetProfile;
 import eu.eudat.models.data.datasetprofile.DatasetProfileListingModel;
 import eu.eudat.models.data.helpers.common.DataTableData;
 import eu.eudat.models.data.helpers.responses.ResponseItem;
+import eu.eudat.models.data.listingmodels.UserInfoListingModel;
 import eu.eudat.models.data.security.Principal;
 import eu.eudat.models.data.user.composite.PagedDatasetProfile;
 import eu.eudat.types.ApiMessageCode;
-import eu.eudat.types.MetricNames;
 import org.springframework.beans.factory.annotation.Autowired;
 import org.springframework.http.HttpStatus;
 import org.springframework.http.ResponseEntity;
@@ -32,6 +31,7 @@ import javax.validation.Valid;
 import java.io.IOException;
 import java.util.List;
 import java.util.UUID;
+import java.util.stream.Collectors;
 
 import static eu.eudat.types.Authorities.ADMIN;
 import static eu.eudat.types.Authorities.DATASET_PROFILE_MANAGER;
@@ -57,43 +57,41 @@ public class Admin extends BaseController {
 
 	@Transactional
 	@RequestMapping(method = RequestMethod.POST, value = {"/addDmp"}, consumes = "application/json", produces = "application/json")
-	public ResponseEntity<Object> addDmp(@Valid @RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN ,DATASET_PROFILE_MANAGER}) Principal principal) throws Exception {
+	public ResponseEntity<Object> addDmp(@Valid @RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN ,DATASET_PROFILE_MANAGER}) Principal principal) {
 		//this.getLoggerService().info(principal, "Admin Added Dataset Profile");
 		DatasetProfile shortenProfile = profile.toShort();
-		DescriptionTemplate modelDefinition = AdminManager.generateViewStyleDefinition(shortenProfile, getApiContext());
-		modelDefinition.setType(getApiContext().getOperationsContext().getDatabaseRepository().getDescriptionTemplateTypeDao().findFromName(profile.getType()));
+		eu.eudat.data.entities.DatasetProfile modelDefinition = AdminManager.generateViewStyleDefinition(shortenProfile, getApiContext());
 		modelDefinition.setGroupId(UUID.randomUUID());
 		modelDefinition.setVersion((short) 0);
 
-		DescriptionTemplate descriptionTemplate = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().createOrUpdate(modelDefinition);
+		eu.eudat.data.entities.DatasetProfile datasetProfile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().createOrUpdate(modelDefinition);
 		UserDatasetProfile userDatasetProfile = new UserDatasetProfile();
-		userDatasetProfile.setDatasetProfile(descriptionTemplate);
+		userDatasetProfile.setDatasetProfile(datasetProfile);
 		UserInfo userInfo = getApiContext().getOperationsContext().getDatabaseRepository().getUserInfoDao().find(principal.getId());
 		userDatasetProfile.setUser(userInfo);
 		userDatasetProfile.setRole(0);
 		getApiContext().getOperationsContext().getDatabaseRepository().getUserDatasetProfileDao().createOrUpdate(userDatasetProfile);
-		datasetProfileManager.storeDatasetProfileUsers(descriptionTemplate, profile);
-
-		metricsManager.increaseValue(MetricNames.DATASET_TEMPLATE, 1, MetricsManager.datasetTemplateStatus.get(descriptionTemplate.getStatus()) );
+		datasetProfileManager.storeDatasetProfileUsers(datasetProfile, profile);
+		metricsManager.increaseValue("argos_dataset_templates", 1, "total");
 		return ResponseEntity.status(HttpStatus.OK).body(modelDefinition.getId());
 	}
 
 	@Transactional
 	@RequestMapping(method = RequestMethod.POST, value = {"/addDmp/{id}"}, consumes = "application/json", produces = "application/json")
-	public ResponseEntity<ResponseItem<UUID>> updateDmp(@PathVariable String id, @RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) throws Exception {
+	public ResponseEntity<ResponseItem<UUID>> updateDmp(@PathVariable String id, @RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) {
 		DatasetProfile shortenProfile = profile.toShort();
-		DescriptionTemplate modelDefinition = AdminManager.generateViewStyleDefinition(shortenProfile, getApiContext());
-		DescriptionTemplate datasetprofile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(id));
+		eu.eudat.data.entities.DatasetProfile modelDefinition = AdminManager.generateViewStyleDefinition(shortenProfile, getApiContext());
+		eu.eudat.data.entities.DatasetProfile datasetprofile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(id));
 		datasetprofile.setDefinition(modelDefinition.getDefinition());
 		Short oldStatus = datasetprofile.getStatus();
 		datasetprofile.setStatus(modelDefinition.getStatus());
 		datasetprofile.setLabel(modelDefinition.getLabel());
 		datasetprofile.setDescription(modelDefinition.getDescription());
 		datasetprofile.setLanguage(modelDefinition.getLanguage());
-		DescriptionTemplate descriptionTemplate = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().createOrUpdate(datasetprofile);
-		datasetProfileManager.storeDatasetProfileUsers(descriptionTemplate, profile);
-		if (descriptionTemplate.getStatus() == 1 && oldStatus == 0) {
-			metricsManager.increaseValue(MetricNames.DATASET_TEMPLATE, 1, MetricNames.ACTIVE);
+		eu.eudat.data.entities.DatasetProfile datasetProfile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().createOrUpdate(datasetprofile);
+		datasetProfileManager.storeDatasetProfileUsers(datasetProfile, profile);
+		if (datasetProfile.getStatus() == 1 && oldStatus == 0) {
+			metricsManager.increaseValue("argos_dataset_templates", 1, "active");
 		}
 		return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<UUID>().status(ApiMessageCode.NO_MESSAGE));
 	}
@@ -102,7 +100,7 @@ public class Admin extends BaseController {
 	@RequestMapping(method = RequestMethod.POST, value = {"/newVersion/{id}"}, produces = "application/json")
 	public ResponseEntity newVersionDatasetProfile(@PathVariable String id, @RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) throws Exception {
 		try {
-			DescriptionTemplate modelDefinition = this.datasetProfileManager.createNewVersionDatasetProfile(id, profile);
+			eu.eudat.data.entities.DatasetProfile modelDefinition = this.datasetProfileManager.createNewVersionDatasetProfile(id, profile);
 			return ResponseEntity.status(HttpStatus.OK).body(modelDefinition.getId());
 		} catch (DatasetProfileNewVersionException exception) {
 			return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>().status(ApiMessageCode.ERROR_MESSAGE).message(exception.getMessage()));
@@ -124,8 +122,8 @@ public class Admin extends BaseController {
 	}
 
 	@RequestMapping(method = RequestMethod.POST, value = {"/preview"}, consumes = "application/json", produces = "application/json")
-	public ResponseEntity<ResponseItem<PagedDatasetProfile>> getPreview(@RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) throws Exception {
-		DescriptionTemplate modelDefinition = AdminManager.generateViewStyleDefinition(profile, getApiContext());
+	public ResponseEntity<ResponseItem<PagedDatasetProfile>> getPreview(@RequestBody DatasetProfile profile, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) {
+		eu.eudat.data.entities.DatasetProfile modelDefinition = AdminManager.generateViewStyleDefinition(profile, getApiContext());
 		eu.eudat.models.data.user.composite.DatasetProfile datasetProfile = userManager.generateDatasetProfileModel(modelDefinition);
 		PagedDatasetProfile pagedDatasetProfile = new PagedDatasetProfile();
 		pagedDatasetProfile.buildPagedDatasetProfile(datasetProfile);
@@ -135,8 +133,12 @@ public class Admin extends BaseController {
 	@Transactional
 	@RequestMapping(method = RequestMethod.POST, value = {"/datasetprofile/clone/{id}"}, consumes = "application/json", produces = "application/json")
 	public ResponseEntity<ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>> clone(@PathVariable String id, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) {
-		eu.eudat.models.data.admin.composite.DatasetProfile datasetprofile = this.datasetProfileManager.getDatasetProfile(id);
-		datasetprofile.setLabel(datasetprofile.getLabel() + " new ");
+		eu.eudat.data.entities.DatasetProfile profile = this.datasetProfileManager.clone(id);
+		eu.eudat.models.data.admin.composite.DatasetProfile datasetprofile = AdminManager.generateDatasetProfileModel(profile);
+		datasetprofile.setLabel(profile.getLabel() + " new ");
+		datasetprofile.setLanguage(profile.getLanguage());
+		datasetprofile.setDescription(profile.getDescription());
+		//datasetProfileManager.retrieveUsers(profile, datasetprofile);
 		return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>().payload(datasetprofile));
 	}
 
@@ -145,7 +147,7 @@ public class Admin extends BaseController {
 	public @ResponseBody
 	ResponseEntity<ResponseItem<DatasetProfile>> inactivate(@PathVariable String id, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) {
 		try {
-			DescriptionTemplate ret = AdminManager.inactivate(this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao(), this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetDao(), id);
+			eu.eudat.data.entities.DatasetProfile ret = AdminManager.inactivate(this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao(), this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetDao(), id);
 			return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>().status(ApiMessageCode.SUCCESS_MESSAGE));
 		} catch (DatasetProfileWithDatasetsExeption exception) {
 			return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>().status(ApiMessageCode.UNSUCCESS_DELETE).message(exception.getMessage()));
@@ -156,45 +158,36 @@ public class Admin extends BaseController {
 	@RequestMapping(method = RequestMethod.GET, value = {"/getXml/{id}"}, produces = "application/json")
 	public ResponseEntity getDatasetProfileXml(@PathVariable String id, @RequestHeader("Content-Type") String contentType, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) throws IllegalAccessException, IOException, InstantiationException {
 		if (contentType.equals("application/xml")) {
-			DescriptionTemplate profile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(id));
+			eu.eudat.data.entities.DatasetProfile profile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(id));
 			eu.eudat.models.data.user.composite.DatasetProfile datasetProfile = userManager.generateDatasetProfileModel(profile);
 			datasetProfile.setStatus(profile.getStatus());
 			datasetProfile.setDescription(profile.getDescription());
 			datasetProfile.setLanguage(profile.getLanguage());
-			datasetProfile.setType(profile.getType().getName());
 			return this.datasetProfileManager.getDocument(datasetProfile, profile.getLabel());
 		} else {
 			return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>().status(ApiMessageCode.ERROR_MESSAGE).message("NOT AUTHORIZE"));
 		}
 	}
 
-	@RequestMapping(method = RequestMethod.POST, value = {"/upload", "/upload/{id}"})
+	@RequestMapping(method = RequestMethod.POST, value = {"/upload"})
 	public ResponseEntity<Object> setDatasetProfileXml(@RequestParam("file") MultipartFile file,
-													   @PathVariable(value = "id", required = false) String id,
-													   @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) throws Exception {
+													   @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) throws IllegalAccessException, IOException {
 		eu.eudat.logic.utilities.documents.xml.datasetProfileXml.datasetProfileModel.DatasetProfile datasetProfileModel = this.datasetProfileManager.createDatasetProfileFromXml(file);
 		eu.eudat.models.data.admin.composite.DatasetProfile datasetProfileEntity = datasetProfileModel.toAdminCompositeModel(file.getOriginalFilename());
-		DescriptionTemplate modelDefinition;
-		if (id == null) {
-			modelDefinition = AdminManager.generateViewStyleDefinition(datasetProfileEntity, getApiContext());
-			DescriptionTemplate descriptionTemplate = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().createOrUpdate(modelDefinition);
-			UserDatasetProfile userDatasetProfile = new UserDatasetProfile();
-			userDatasetProfile.setDatasetProfile(descriptionTemplate);
-			UserInfo userInfo = getApiContext().getOperationsContext().getDatabaseRepository().getUserInfoDao().find(principal.getId());
-			userDatasetProfile.setUser(userInfo);
-			userDatasetProfile.setRole(0);
-			getApiContext().getOperationsContext().getDatabaseRepository().getUserDatasetProfileDao().createOrUpdate(userDatasetProfile);
-		} else {
-			modelDefinition = datasetProfileManager.createNewVersionDatasetProfile(id, datasetProfileEntity);
-		}
-		return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<DescriptionTemplate>>()
+		eu.eudat.data.entities.DatasetProfile modelDefinition = AdminManager.generateViewStyleDefinition(datasetProfileEntity, getApiContext());
+		eu.eudat.data.entities.DatasetProfile datasetProfile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().createOrUpdate(modelDefinition);
+		UserDatasetProfile userDatasetProfile = new UserDatasetProfile();
+		userDatasetProfile.setDatasetProfile(datasetProfile);
+		UserInfo userInfo = getApiContext().getOperationsContext().getDatabaseRepository().getUserInfoDao().find(principal.getId());
+		userDatasetProfile.setUser(userInfo);
+		userDatasetProfile.setRole(0);
+		getApiContext().getOperationsContext().getDatabaseRepository().getUserDatasetProfileDao().createOrUpdate(userDatasetProfile);
+		return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<eu.eudat.data.entities.DatasetProfile>>()
 				.status(ApiMessageCode.SUCCESS_MESSAGE).message(""));
 	}
 
-
-	@RequestMapping(method = RequestMethod.GET, value = {"/getSemantics"}, produces = "application/json")
-	public ResponseEntity<ResponseItem<List<String>>> getSemantics(@RequestParam(value = "query", required = false) String query, @ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) {
-		List<String> semantics = this.datasetProfileManager.getSemantics(query);
-		return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<String>>().status(ApiMessageCode.SUCCESS_MESSAGE).payload(semantics));
+	@RequestMapping(method = RequestMethod.GET, value = {"/getRDACommonStandards"}, produces = "application/json")
+	public ResponseEntity getRDACommonStandards(@ClaimedAuthorities(claims = {ADMIN, DATASET_PROFILE_MANAGER}) Principal principal) {
+		return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<String>>().status(ApiMessageCode.SUCCESS_MESSAGE).payload(configLoader.getRdaProperties()));
 	}
 }

dmp-backend/web/src/main/java/eu/eudat/controllers/ContactEmail.java

@@ -44,6 +44,7 @@ public class ContactEmail {
 	@RequestMapping(method = RequestMethod.POST, path = "public", consumes = "application/x-www-form-urlencoded", produces = "application/json")
 	public @ResponseBody
 	ResponseEntity sendContactEmailNoAuth(@ModelAttribute PublicContactEmailModel contactEmailModel) {
+		logger.info(contactEmailModel.toString());
 		try {
 			this.contactEmailManager.sendContactEmailNoAuth(contactEmailModel);
 			return ResponseEntity.status(HttpStatus.NO_CONTENT).body(new ResponseItem().status(ApiMessageCode.SUCCESS_MESSAGE));

dmp-backend/web/src/main/java/eu/eudat/controllers/DMPProfileController.java

@@ -2,10 +2,7 @@ package eu.eudat.controllers;
 
 import eu.eudat.data.dao.criteria.RequestItem;
 import eu.eudat.data.entities.DMPProfile;
-import eu.eudat.data.entities.DescriptionTemplate;
-import eu.eudat.data.query.items.dmpblueprint.DataManagementPlanBlueprintTableRequest;
 import eu.eudat.data.query.items.table.dmpprofile.DataManagementPlanProfileTableRequest;
-import eu.eudat.exceptions.dmpblueprint.DmpBlueprintUsedException;
 import eu.eudat.logic.managers.DataManagementProfileManager;
 import eu.eudat.logic.security.claims.ClaimedAuthorities;
 import eu.eudat.logic.services.ApiContext;
@@ -13,7 +10,6 @@ import eu.eudat.models.data.helpermodels.Tuple;
 import eu.eudat.models.data.helpers.common.AutoCompleteLookupItem;
 import eu.eudat.models.data.helpers.common.DataTableData;
 import eu.eudat.models.data.helpers.responses.ResponseItem;
-import eu.eudat.models.data.listingmodels.DataManagementPlanBlueprintListingModel;
 import eu.eudat.models.data.listingmodels.DataManagementPlanProfileListingModel;
 import eu.eudat.models.data.security.Principal;
 import eu.eudat.types.ApiMessageCode;
@@ -30,7 +26,6 @@ import java.io.IOException;
 import java.util.List;
 
 import static eu.eudat.types.Authorities.ADMIN;
-import static eu.eudat.types.Authorities.DATASET_PROFILE_MANAGER;
 
 /**
  * Created by ikalyvas on 3/21/2018.
@@ -56,14 +51,6 @@ public class DMPProfileController extends BaseController {
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DMPProfile>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Created"));
     }
 
-    @Transactional
-    @RequestMapping(method = RequestMethod.POST, value = {"/blueprint"}, consumes = "application/json", produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DMPProfile>> createOrUpdateBlueprint(@RequestBody DataManagementPlanBlueprintListingModel dataManagementPlan, @ClaimedAuthorities(claims = {ADMIN}) Principal principal) throws Exception {
-        this.dataManagementProfileManager.createOrUpdateBlueprint(dataManagementPlan, principal);
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DMPProfile>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Created"));
-    }
-
     @RequestMapping(method = RequestMethod.GET, value = {"/getSingle/{id}"}, produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<DataManagementPlanProfileListingModel>> getSingle(@PathVariable String id, Principal principal) throws IllegalAccessException, InstantiationException {
@@ -71,13 +58,6 @@ public class DMPProfileController extends BaseController {
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlanProfileListingModel>().status(ApiMessageCode.NO_MESSAGE).payload(dataManagementPlanProfileListingModel));
     }
 
-    @RequestMapping(method = RequestMethod.GET, value = {"/getSingleBlueprint/{id}"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DataManagementPlanBlueprintListingModel>> getSingleBlueprint(@PathVariable String id, Principal principal) {
-        DataManagementPlanBlueprintListingModel dataManagementPlanBlueprintListingModel = this.dataManagementProfileManager.getSingleBlueprint(id, principal);
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlanBlueprintListingModel>().status(ApiMessageCode.NO_MESSAGE).payload(dataManagementPlanBlueprintListingModel));
-    }
-
     @RequestMapping(method = RequestMethod.POST, value = {"/getPaged"}, consumes = "application/json", produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<DataTableData<DataManagementPlanProfileListingModel>>> getPaged(@Valid @RequestBody DataManagementPlanProfileTableRequest dataManagementPlanProfileTableRequest, Principal principal) throws Exception {
@@ -85,51 +65,24 @@ public class DMPProfileController extends BaseController {
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataTableData<DataManagementPlanProfileListingModel>>().status(ApiMessageCode.NO_MESSAGE).payload(dataTable));
     }
 
-    @RequestMapping(method = RequestMethod.POST, value = {"/getPagedBlueprint"}, consumes = "application/json", produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DataTableData<DataManagementPlanBlueprintListingModel>>> getPagedBlueprint(@Valid @RequestBody DataManagementPlanBlueprintTableRequest dataManagementPlanBlueprintTableRequest, Principal principal) throws Exception {
-        DataTableData<DataManagementPlanBlueprintListingModel> dataTable = this.dataManagementProfileManager.getPagedBlueprint(dataManagementPlanBlueprintTableRequest, principal);
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataTableData<DataManagementPlanBlueprintListingModel>>().status(ApiMessageCode.NO_MESSAGE).payload(dataTable));
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.POST, value = {"/clone/{id}"}, consumes = "application/json", produces = "application/json")
-    public ResponseEntity<ResponseItem<DataManagementPlanBlueprintListingModel>> clone(@PathVariable String id, @ClaimedAuthorities(claims = {ADMIN}) Principal principal) {
-        DataManagementPlanBlueprintListingModel dmpBlueprint = this.dataManagementProfileManager.getSingleBlueprint(id, principal);
-        dmpBlueprint.setLabel(dmpBlueprint.getLabel() + " new ");
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlanBlueprintListingModel>().payload(dmpBlueprint));
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.DELETE, value = {"{id}"}, consumes = "application/json", produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<Void>> inactivate(@PathVariable String id, @ClaimedAuthorities(claims = {ADMIN}) Principal principal) {
-        try {
-            this.dataManagementProfileManager.inactivate(id);
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<Void>().status(ApiMessageCode.SUCCESS_MESSAGE));
-        } catch (DmpBlueprintUsedException exception) {
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<Void>().status(ApiMessageCode.UNSUCCESS_DELETE).message(exception.getMessage()));
-        }
-    }
-
     @RequestMapping(method = RequestMethod.GET, value = {"/getXml/{id}"}, produces = "application/json")
     public @ResponseBody
-    ResponseEntity  getXml( @RequestHeader("Content-Type") String contentType, @PathVariable String id, Principal principal) throws IOException {
+    ResponseEntity  getXml( @RequestHeader("Content-Type") String contentType, @PathVariable String id, Principal principal) throws IllegalAccessException, InstantiationException, IOException {
         if (contentType.equals("application/xml")) {
-            DataManagementPlanBlueprintListingModel dataManagementPlanBlueprintListingModel = this.dataManagementProfileManager.getSingleBlueprint(id, principal);
-            return this.dataManagementProfileManager.getDocument(dataManagementPlanBlueprintListingModel);
+            DataManagementPlanProfileListingModel dataManagementPlanProfileListingModel = this.dataManagementProfileManager.getSingle(id, principal);
+            return this.dataManagementProfileManager.getDocument(dataManagementPlanProfileListingModel,dataManagementPlanProfileListingModel.getLabel());
         }else {
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<DataManagementPlanBlueprintListingModel>().status(ApiMessageCode.ERROR_MESSAGE).message("NOT AUTHORIZE"));
+            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<DataManagementPlanProfileListingModel>().status(ApiMessageCode.ERROR_MESSAGE).message("NOT AUTHORIZE"));
         }
     }
 
     @RequestMapping(method = RequestMethod.POST, value = {"/upload"})
     public ResponseEntity<Object> setDatasetProfileXml(@RequestParam("file") MultipartFile file,
-                                                       @ClaimedAuthorities(claims = {ADMIN}) Principal principal) throws Exception {
-        eu.eudat.logic.utilities.documents.xml.dmpXml.dmpBlueprintModel.DmpBlueprint dmpBlueprintModel = this.dataManagementProfileManager.createDmpProfileFromXml(file);
-        DataManagementPlanBlueprintListingModel dmpBlueprint = dmpBlueprintModel.toDmpProfileCompositeModel(file.getOriginalFilename());
-        this.dataManagementProfileManager.createOrUpdateBlueprint(dmpBlueprint, principal);
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<DescriptionTemplate>>()
+                                                       @ClaimedAuthorities(claims = {ADMIN}) Principal principal) throws IllegalAccessException,IOException,Exception{
+        eu.eudat.logic.utilities.documents.xml.dmpXml.dmpProfileModel.DmpProfile dmpProfileModel = this.dataManagementProfileManager.createDmpProfileFromXml(file);
+        DataManagementPlanProfileListingModel dataManagementPlan = dmpProfileModel.toDmpProfileCompositeModel(file.getOriginalFilename());
+        this.dataManagementProfileManager.createOrUpdate(dataManagementPlan, principal);
+        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<eu.eudat.data.entities.DatasetProfile>>()
                 .status(ApiMessageCode.SUCCESS_MESSAGE).message(""));
     }
 

dmp-backend/web/src/main/java/eu/eudat/controllers/DMPs.java

@@ -9,16 +9,17 @@ import eu.eudat.data.entities.DMP;
 import eu.eudat.data.entities.Dataset;
 import eu.eudat.data.query.items.table.datasetprofile.DatasetProfileTableRequestItem;
 import eu.eudat.data.query.items.table.dmp.DataManagementPlanTableRequest;
+import eu.eudat.data.query.items.table.dmp.DataManagmentPlanPublicTableRequest;
 import eu.eudat.exceptions.datamanagementplan.DMPNewVersionException;
 import eu.eudat.exceptions.datamanagementplan.DMPWithDatasetsDeleteException;
 import eu.eudat.exceptions.security.UnauthorisedException;
 import eu.eudat.logic.managers.DataManagementPlanManager;
+import eu.eudat.logic.managers.DatasetManager;
 import eu.eudat.logic.proxy.config.configloaders.ConfigLoader;
 import eu.eudat.logic.security.claims.ClaimedAuthorities;
 import eu.eudat.logic.services.ApiContext;
 import eu.eudat.logic.services.operations.DatabaseRepository;
 import eu.eudat.logic.utilities.documents.helpers.FileEnvelope;
-import eu.eudat.logic.utilities.documents.pdf.PDFUtils;
 import eu.eudat.models.data.datasetprofile.DatasetProfileListingModel;
 import eu.eudat.models.data.datasetwizard.DatasetsToBeFinalized;
 import eu.eudat.models.data.dmp.DataManagementPlan;
@@ -68,15 +69,17 @@ public class DMPs extends BaseController {
     private DynamicGrantConfiguration dynamicGrantConfiguration;
     private Environment environment;
     private DataManagementPlanManager dataManagementPlanManager;
+    private DatasetManager datasetManager;
     private ConfigLoader configLoader;
 
     @Autowired
     public DMPs(ApiContext apiContext, DynamicGrantConfiguration dynamicGrantConfiguration, Environment environment,
-                DataManagementPlanManager dataManagementPlanManager, ConfigLoader configLoader) {
+                DataManagementPlanManager dataManagementPlanManager, DatasetManager datasetManager, ConfigLoader configLoader) {
         super(apiContext);
         this.dynamicGrantConfiguration = dynamicGrantConfiguration;
         this.environment = environment;
         this.dataManagementPlanManager = dataManagementPlanManager;
+        this.datasetManager = datasetManager;
         this.configLoader = configLoader;
     }
 
@@ -100,21 +103,11 @@ public class DMPs extends BaseController {
         if (contentType.equals("application/xml") || contentType.equals("application/msword")) {
             return this.dataManagementPlanManager.getDocument(id, contentType, principal, this.configLoader);
         } else {
-            eu.eudat.models.data.dmp.DataManagementPlan dataManagementPlan = this.dataManagementPlanManager.getSingle(id, principal, false, true);
+            eu.eudat.models.data.dmp.DataManagementPlan dataManagementPlan = this.dataManagementPlanManager.getSingle(id, principal, false);
             return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlan>().status(ApiMessageCode.NO_MESSAGE).payload(dataManagementPlan));
         }
     }
 
-    @RequestMapping(method = RequestMethod.GET, value = {"/plain/{id}"})
-    public @ResponseBody
-    ResponseEntity getSingleNoDatasets(@PathVariable String id, @RequestHeader("Content-Type") String contentType,
-                             @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
-
-        eu.eudat.models.data.dmp.DataManagementPlan dataManagementPlan = this.dataManagementPlanManager.getSingle(id, principal, false, false);
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlan>().status(ApiMessageCode.NO_MESSAGE).payload(dataManagementPlan));
-
-    }
-
     @RequestMapping(method = RequestMethod.POST, value = {"/datasetProfilesUsedByDmps/paged"}, produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<DataTableData<DatasetProfileListingModel>>> getUsingDatasetProfilesPaged(@RequestBody DatasetProfileTableRequestItem datasetProfileTableRequestItem, Principal principal) {
@@ -141,7 +134,7 @@ public class DMPs extends BaseController {
     public @ResponseBody
     ResponseEntity getSinglePublic(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
 //        try {
-        eu.eudat.models.data.dmp.DataManagementPlan dataManagementPlan = this.dataManagementPlanManager.getSingle(id, principal, true, true);
+        eu.eudat.models.data.dmp.DataManagementPlan dataManagementPlan = this.dataManagementPlanManager.getSingle(id, principal, true);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlan>().status(ApiMessageCode.NO_MESSAGE).payload(dataManagementPlan));
 //        } catch (Exception ex) {
 //            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<DataManagementPlan>().status(ApiMessageCode.NO_MESSAGE).message(ex.getMessage()));
@@ -150,7 +143,7 @@ public class DMPs extends BaseController {
 
     @RequestMapping(method = RequestMethod.GET, value = {"/publicOverview/{id}"})
     public @ResponseBody
-    ResponseEntity<ResponseItem<DataManagementPlanOverviewModel>> getOverviewSinglePublic(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
+    ResponseEntity getOverviewSinglePublic(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
 //        try {
         DataManagementPlanOverviewModel dataManagementPlan = this.dataManagementPlanManager.getOverviewSingle(id, principal, true);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataManagementPlanOverviewModel>().status(ApiMessageCode.NO_MESSAGE).payload(dataManagementPlan));
@@ -182,21 +175,7 @@ public class DMPs extends BaseController {
     public @ResponseBody
     ResponseEntity getRDAJsonDocument(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) {
     	try {
-            FileEnvelope rdaJsonDocument = this.dataManagementPlanManager.getRDAJsonDocument(id, principal);
-
-            HttpHeaders responseHeaders = new HttpHeaders();
-            responseHeaders.setContentLength(rdaJsonDocument.getFile().length());
-            responseHeaders.setContentType(MediaType.APPLICATION_OCTET_STREAM);
-            responseHeaders.set("Content-Disposition", "attachment;filename=" + rdaJsonDocument.getFilename());
-            responseHeaders.set("Access-Control-Expose-Headers", "Content-Disposition");
-            responseHeaders.get("Access-Control-Expose-Headers").add("Content-Type");
-
-            InputStream resource = new FileInputStream(rdaJsonDocument.getFile());
-            byte[] content = org.apache.poi.util.IOUtils.toByteArray(resource);
-            resource.close();
-            Files.deleteIfExists(rdaJsonDocument.getFile().toPath());
-
-            return new ResponseEntity<>(content, responseHeaders, HttpStatus.OK);
+        return this.dataManagementPlanManager.getRDAJsonDocument(id, datasetManager, principal);
     	} catch (Exception e) {
     		return ResponseEntity.status(HttpStatus.EXPECTATION_FAILED).body(new ResponseItem<>().message(e.getMessage()).status(ApiMessageCode.ERROR_MESSAGE));
     	}
@@ -207,8 +186,8 @@ public class DMPs extends BaseController {
     ResponseEntity<byte[]> getPDFDocument(@PathVariable String id, @RequestHeader("Content-Type") String contentType,
                                           @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws IllegalAccessException, IOException, InstantiationException, InterruptedException {
         FileEnvelope file = this.dataManagementPlanManager.getWordDocument(id, principal, configLoader);
-        String name = file.getFilename().substring(0, file.getFilename().length() - 5).replace(" ", "_").replace(",", "_");
-        File pdffile = PDFUtils.convertToPDF(file, environment);
+        String name = file.getFilename().substring(0, file.getFilename().length() - 5);
+        File pdffile = datasetManager.convertToPDF(file, environment);
         InputStream resource = new FileInputStream(pdffile);
         logger.info("Mime Type of " + name + " is " +
                 new MimetypesFileTypeMap().getContentType(file.getFile()));
@@ -260,7 +239,7 @@ public class DMPs extends BaseController {
     @RequestMapping(method = RequestMethod.POST, value = {"/clone/{id}"}, consumes = "application/json", produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<UUID>> clone(@PathVariable UUID id, @RequestBody eu.eudat.models.data.dmp.DataManagementPlanNewVersionModel dataManagementPlan, Principal principal) throws Exception {
-        UUID cloneId = this.dataManagementPlanManager.clone(id, dataManagementPlan, principal);
+        UUID cloneId = this.dataManagementPlanManager.clone(dataManagementPlan, principal);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<UUID>().status(ApiMessageCode.SUCCESS_MESSAGE).payload(cloneId));
     }
 
@@ -333,6 +312,21 @@ public class DMPs extends BaseController {
         }
     }
 
+    /*
+    * DOI Generation
+    * */
+
+    @RequestMapping(method = RequestMethod.POST, value = {"/createZenodoDoi/{id}"})
+    public ResponseEntity<ResponseItem<String>> createZenodoDoi(@PathVariable String id, Principal principal) {
+        try {
+            String zenodoDOI = this.dataManagementPlanManager.createZenodoDoi(UUID.fromString(id), principal, configLoader);
+            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<String>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Successfully created DOI for Data Datamanagement Plan in question.").payload(zenodoDOI));
+        } catch (Exception e) {
+            logger.error(e.getMessage(), e);
+            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<String>().status(ApiMessageCode.ERROR_MESSAGE).message("Failed to create DOI for the Data Management Plan: " + e.getMessage()));
+        }
+    }
+
     /*
     * Data Index
     * */

dmp-backend/web/src/main/java/eu/eudat/controllers/DashBoardController.java

@@ -1,5 +1,6 @@
 package eu.eudat.controllers;
 
+import eu.eudat.criteria.RecentActivityCriteria;
 import eu.eudat.logic.managers.DashBoardManager;
 import eu.eudat.logic.security.claims.ClaimedAuthorities;
 import eu.eudat.logic.services.ApiContext;
@@ -48,12 +49,11 @@ public class DashBoardController extends BaseController {
     @RequestMapping(method = RequestMethod.POST, value = {"/dashboard/recentActivity"}, produces = "application/json")
     @Transactional
     public ResponseEntity<ResponseItem<List<RecentActivityModel>>> getNewRecentActivity(@RequestBody RecentActivityTableRequest tableRequest,
-                                                                                        @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
+                                                                                        @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) {
         List<RecentActivityModel> statistics = dashBoardManager.getNewRecentActivity(tableRequest, principal);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<RecentActivityModel>>().status(ApiMessageCode.NO_MESSAGE).payload(statistics));
     }
 
-    @Deprecated
     @RequestMapping(method = RequestMethod.GET, value = {"/user/recentActivity"}, produces = "application/json")
     public ResponseEntity<ResponseItem<RecentActivity>> getRecentActivity(@RequestParam(name = "numOfActivities", required = false, defaultValue = "5") Integer numberOfActivities, Principal principal) {
         RecentActivity statistics = dashBoardManager.getRecentActivity(principal, numberOfActivities);

dmp-backend/web/src/main/java/eu/eudat/controllers/DatasetProfileController.java

@@ -1,7 +1,6 @@
 package eu.eudat.controllers;
 
 import eu.eudat.data.dao.criteria.RequestItem;
-import eu.eudat.data.entities.DescriptionTemplate;
 import eu.eudat.logic.managers.AdminManager;
 import eu.eudat.logic.managers.DatasetProfileManager;
 import eu.eudat.logic.security.claims.ClaimedAuthorities;
@@ -9,7 +8,6 @@ import eu.eudat.logic.services.ApiContext;
 import eu.eudat.models.data.components.commons.datafield.AutoCompleteData;
 import eu.eudat.models.data.externaldataset.ExternalAutocompleteFieldModel;
 import eu.eudat.models.data.helpers.common.AutoCompleteLookupItem;
-import eu.eudat.models.data.helpers.common.AutoCompleteOptionsLookupItem;
 import eu.eudat.models.data.helpers.responses.ResponseItem;
 import eu.eudat.models.data.properties.PropertiesModel;
 import eu.eudat.models.data.security.Principal;
@@ -57,7 +55,7 @@ public class DatasetProfileController extends BaseController {
     @Transactional
     @RequestMapping(method = RequestMethod.POST, value = {"/datasetprofile/clone/{id}"}, consumes = "application/json", produces = "application/json")
     public ResponseEntity<ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>> clone(@PathVariable String id, @ClaimedAuthorities(claims = {ADMIN})Principal principal) {
-        DescriptionTemplate profile = this.datasetProfileManager.clone(id);
+        eu.eudat.data.entities.DatasetProfile profile = this.datasetProfileManager.clone(id);
         eu.eudat.models.data.admin.composite.DatasetProfile datasetprofile = AdminManager.generateDatasetProfileModel(profile);
         datasetprofile.setLabel(profile.getLabel() + " new ");
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<eu.eudat.models.data.admin.composite.DatasetProfile>().payload(datasetprofile));
@@ -65,19 +63,11 @@ public class DatasetProfileController extends BaseController {
 
     @RequestMapping(method = RequestMethod.POST, value = {"/search/autocomplete"}, consumes = "application/json", produces = "application/json")
     public ResponseEntity<Object> getDataForAutocomplete(@RequestBody RequestItem<AutoCompleteLookupItem> lookupItem) throws XPathExpressionException {
-        DescriptionTemplate descriptionTemplate = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(lookupItem.getCriteria().getProfileID()));
-        eu.eudat.models.data.entities.xmlmodels.datasetprofiledefinition.Field modelfield = this.datasetProfileManager.queryForField(descriptionTemplate.getDefinition(), lookupItem.getCriteria().getFieldID());
+        eu.eudat.data.entities.DatasetProfile datasetProfile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(lookupItem.getCriteria().getProfileID()));
+        eu.eudat.models.data.entities.xmlmodels.datasetprofiledefinition.Field modelfield = this.datasetProfileManager.queryForField(datasetProfile.getDefinition(), lookupItem.getCriteria().getFieldID());
         AutoCompleteData data = (AutoCompleteData) modelfield.getData();
         List<ExternalAutocompleteFieldModel> items = this.datasetProfileManager.getAutocomplete(data, lookupItem.getCriteria().getLike());
         return ResponseEntity.status(HttpStatus.OK).body(items);
     }
 
-    @RequestMapping(method = RequestMethod.POST, value = {"/search/autocompleteOptions"}, consumes = "application/json", produces = "application/json")
-    public ResponseEntity<Object> getDataForAutocompleteOptions(@RequestBody RequestItem<AutoCompleteOptionsLookupItem> lookupItem) {
-        AutoCompleteData data = new AutoCompleteData();
-        data.setAutoCompleteSingleDataList(lookupItem.getCriteria().getAutoCompleteSingleDataList());
-        List<ExternalAutocompleteFieldModel> items = this.datasetProfileManager.getAutocomplete(data, lookupItem.getCriteria().getLike());
-        return ResponseEntity.status(HttpStatus.OK).body(items);
-    }
-
 }

dmp-backend/web/src/main/java/eu/eudat/controllers/DatasetProfiles.java

@@ -6,7 +6,6 @@ import eu.eudat.logic.managers.DatasetProfileManager;
 import eu.eudat.logic.services.ApiContext;
 import eu.eudat.models.data.datasetprofile.DatasetProfileAutocompleteItem;
 import eu.eudat.models.data.datasetprofile.DatasetProfileListingModel;
-import eu.eudat.models.data.datasetprofile.DatasetProfileWithPrefillingPropertyModel;
 import eu.eudat.models.data.helpers.responses.ResponseItem;
 import eu.eudat.types.ApiMessageCode;
 import org.springframework.beans.factory.annotation.Autowired;
@@ -43,12 +42,5 @@ public class DatasetProfiles extends BaseController {
         List<DatasetProfileListingModel> datasetProfileTableData = this.datasetProfileManager.getAll(tableRequestItem);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<DatasetProfileListingModel>>().status(ApiMessageCode.NO_MESSAGE).payload(datasetProfileTableData));
     }
-
-    @RequestMapping(method = RequestMethod.POST, value = {"/datasetprofiles/getAllWithPrefilling"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<List<DatasetProfileWithPrefillingPropertyModel>>> getAllWithPrefilling(@RequestBody DatasetProfileTableRequestItem tableRequestItem) {
-        List<DatasetProfileWithPrefillingPropertyModel> datasetProfileTableData = this.datasetProfileManager.getAllWithPrefilling(tableRequestItem);
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<DatasetProfileWithPrefillingPropertyModel>>().status(ApiMessageCode.NO_MESSAGE).payload(datasetProfileTableData));
-    }
 }
 

dmp-backend/web/src/main/java/eu/eudat/controllers/Datasets.java

@@ -1,7 +1,6 @@
 package eu.eudat.controllers;
 
 import eu.eudat.data.entities.Dataset;
-import eu.eudat.data.entities.DescriptionTemplate;
 import eu.eudat.data.query.items.item.dataset.DatasetWizardAutocompleteRequest;
 import eu.eudat.data.query.items.item.datasetprofile.DatasetProfileWizardAutocompleteRequest;
 import eu.eudat.data.query.items.table.dataset.DatasetPublicTableRequest;
@@ -11,15 +10,12 @@ import eu.eudat.exceptions.datasetwizard.DatasetWizardCannotUnlockException;
 import eu.eudat.exceptions.security.UnauthorisedException;
 import eu.eudat.logic.managers.DatasetManager;
 import eu.eudat.logic.managers.DatasetWizardManager;
-import eu.eudat.logic.managers.FileManager;
 import eu.eudat.logic.managers.UserManager;
 import eu.eudat.logic.proxy.config.configloaders.ConfigLoader;
 import eu.eudat.logic.security.claims.ClaimedAuthorities;
 import eu.eudat.logic.services.ApiContext;
 import eu.eudat.logic.services.forms.VisibilityRuleService;
-import eu.eudat.logic.services.forms.VisibilityRuleServiceImpl;
 import eu.eudat.logic.utilities.documents.helpers.FileEnvelope;
-import eu.eudat.logic.utilities.documents.pdf.PDFUtils;
 import eu.eudat.models.data.dataset.DatasetOverviewModel;
 import eu.eudat.models.data.datasetprofile.DatasetProfileListingModel;
 import eu.eudat.models.data.datasetwizard.DataManagentPlanListingModel;
@@ -42,11 +38,11 @@ import org.springframework.http.HttpHeaders;
 import org.springframework.http.HttpStatus;
 import org.springframework.http.MediaType;
 import org.springframework.http.ResponseEntity;
+import org.springframework.transaction.annotation.Transactional;
 import org.springframework.web.bind.annotation.*;
 import org.springframework.web.multipart.MultipartFile;
 
 import javax.persistence.NoResultException;
-import javax.transaction.Transactional;
 import java.io.File;
 import java.io.FileInputStream;
 import java.io.IOException;
@@ -69,17 +65,14 @@ public class Datasets extends BaseController {
     private DatasetManager datasetManager;
     private ConfigLoader configLoader;
     private UserManager userManager;
-    private FileManager fileManager;
 
     @Autowired
-    public Datasets(ApiContext apiContext, Environment environment, DatasetManager datasetManager, ConfigLoader configLoader, UserManager userManager,
-                    FileManager fileManager) {
+    public Datasets(ApiContext apiContext, Environment environment, DatasetManager datasetManager, ConfigLoader configLoader, UserManager userManager) {
         super(apiContext);
         this.environment = environment;
         this.datasetManager = datasetManager;
         this.configLoader = configLoader;
         this.userManager = userManager;
-        this.fileManager = fileManager;
     }
 
     /*
@@ -118,7 +111,7 @@ public class Datasets extends BaseController {
 
     @RequestMapping(method = RequestMethod.GET, value = {"/publicOverview/{id}"})
     public @ResponseBody
-    ResponseEntity<ResponseItem<DatasetOverviewModel>> getOverviewSinglePublic(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
+    ResponseEntity getOverviewSinglePublic(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
 //        try {
         DatasetOverviewModel dataset = this.datasetManager.getOverviewSingle(id, principal, true);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DatasetOverviewModel>().status(ApiMessageCode.NO_MESSAGE).payload(dataset));
@@ -127,22 +120,21 @@ public class Datasets extends BaseController {
 //        }
     }
 
-    @Transactional
+    @javax.transaction.Transactional
     @RequestMapping(method = RequestMethod.GET, value = {"{id}"}, produces = "application/json")
     public @ResponseBody
     ResponseEntity getSingle(@PathVariable String id, @RequestHeader("Content-Type") String contentType, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws IllegalAccessException, IOException, InstantiationException {
         try {
-            VisibilityRuleService visibilityRuleService = new VisibilityRuleServiceImpl();
             if (contentType.equals("application/xml")) {
+                VisibilityRuleService visibilityRuleService = this.getApiContext().getUtilitiesService().getVisibilityRuleService();
                 return this.datasetManager.getDocument(id, visibilityRuleService, contentType, principal);
             } else if (contentType.equals("application/msword")) {
-                FileEnvelope file = datasetManager.getWordDocumentFile(this.configLoader, id, visibilityRuleService, principal);
+                FileEnvelope file = datasetManager.getWordDocumentFile(this.configLoader, id, this.getApiContext().getUtilitiesService().getVisibilityRuleService(), principal);
                 InputStream resource = new FileInputStream(file.getFile());
                 HttpHeaders responseHeaders = new HttpHeaders();
                 responseHeaders.setContentLength(file.getFile().length());
                 responseHeaders.setContentType(MediaType.APPLICATION_OCTET_STREAM);
-                String fileName = file.getFilename().replace(" ", "_").replace(",", "_");
-                responseHeaders.set("Content-Disposition", "attachment;filename=" + fileName);
+                responseHeaders.set("Content-Disposition", "attachment;filename=" + file.getFilename());
                 responseHeaders.set("Access-Control-Expose-Headers", "Content-Disposition");
                 responseHeaders.get("Access-Control-Expose-Headers").add("Content-Type");
 
@@ -203,7 +195,7 @@ public class Datasets extends BaseController {
 
     @RequestMapping(method = RequestMethod.GET, value = {"/get/{id}"}, produces = "application/json")
     public ResponseEntity<ResponseItem<PagedDatasetProfile>> getSingle(@PathVariable String id) {
-        DescriptionTemplate profile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(id));
+        eu.eudat.data.entities.DatasetProfile profile = this.getApiContext().getOperationsContext().getDatabaseRepository().getDatasetProfileDao().find(UUID.fromString(id));
         eu.eudat.models.data.user.composite.DatasetProfile datasetprofile = userManager.generateDatasetProfileModel(profile);
         PagedDatasetProfile pagedDatasetProfile = new PagedDatasetProfile();
         pagedDatasetProfile.buildPagedDatasetProfile(datasetprofile);
@@ -224,12 +216,12 @@ public class Datasets extends BaseController {
     @RequestMapping(method = RequestMethod.GET, value = {"/getPDF/{id}"})
     public @ResponseBody
     ResponseEntity<byte[]> getPDFDocument(@PathVariable String id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws IllegalAccessException, IOException, InstantiationException, InterruptedException {
-        FileEnvelope file = datasetManager.getWordDocumentFile(this.configLoader, id, new VisibilityRuleServiceImpl(), principal);
-        String fileName = file.getFilename().replace(" ", "_").replace(",", "_");
+        FileEnvelope file = datasetManager.getWordDocumentFile(this.configLoader, id, this.getApiContext().getUtilitiesService().getVisibilityRuleService(), principal);
+        String fileName = file.getFilename();
         if (fileName.endsWith(".docx")){
             fileName = fileName.substring(0, fileName.length() - 5);
         }
-        File pdffile = PDFUtils.convertToPDF(file, environment);
+        File pdffile = datasetManager.convertToPDF(file, environment);
         InputStream resource = new FileInputStream(pdffile);
 
         HttpHeaders responseHeaders = new HttpHeaders();
@@ -252,13 +244,12 @@ public class Datasets extends BaseController {
     * Data Management
     * */
 
-    @Transactional
+    @javax.transaction.Transactional
     @RequestMapping(method = RequestMethod.POST, consumes = "application/json", produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<DatasetWizardModel>> createOrUpdate(@RequestBody DatasetWizardModel profile, Principal principal) throws Exception {
     	DatasetWizardModel dataset = new DatasetWizardModel().fromDataModel(this.datasetManager.createOrUpdate(profile, principal));
-        dataset.setTags(profile.getTags());
-    	return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DatasetWizardModel>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Created").payload(dataset));
+        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DatasetWizardModel>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Created").payload(dataset));
     }
 
     @Transactional
@@ -269,16 +260,15 @@ public class Datasets extends BaseController {
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<Dataset>().status(ApiMessageCode.SUCCESS_MESSAGE).message(this.getApiContext().getHelpersService().getMessageSource().getMessage("dataset.public", new Object[]{}, locale)));
     }
 
-    @Transactional
+    @javax.transaction.Transactional
     @RequestMapping(method = RequestMethod.DELETE, value = {"/delete/{id}"}, produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<Dataset>> delete(@PathVariable(value = "id") UUID id, Principal principal) throws Exception {
         new DatasetWizardManager().delete(this.getApiContext(), id);
-        this.fileManager.markAllFilesOfEntityIdAsDeleted(id);
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<Dataset>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Deleted"));
     }
 
-    @Transactional
+    @javax.transaction.Transactional
     @RequestMapping(method = RequestMethod.GET, value = {"/{id}/unlock"}, produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<Dataset>> unlock(@PathVariable(value = "id") UUID id, Principal principal) throws Exception {
@@ -293,12 +283,12 @@ public class Datasets extends BaseController {
     @RequestMapping(method = RequestMethod.GET, value = {"/{id}/validate"}, produces = "application/json")
     public @ResponseBody
     ResponseEntity<ResponseItem<Boolean>> validate(@PathVariable(value = "id") UUID id, Principal principal) throws Exception {
-        Dataset dataset = datasetManager.getEntitySingle(id);
-        String failedField = datasetManager.checkDatasetValidation(dataset);
-        if (failedField == null) {
+        try {
+            Dataset dataset = datasetManager.getEntitySingle(id);
+            datasetManager.checkDatasetValidation(dataset);
             return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<Boolean>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Valid"));
-        } else {
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<Boolean>().status(ApiMessageCode.ERROR_MESSAGE).message("Field value of " + failedField + " must be filled."));
+        } catch (Exception datasetWizardCannotUnlockException) {
+            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<Boolean>().status(ApiMessageCode.ERROR_MESSAGE).message(datasetWizardCannotUnlockException.getMessage()));
         }
     }
 
@@ -326,7 +316,7 @@ public class Datasets extends BaseController {
     * Data Index
     * */
 
-    @Transactional
+    @javax.transaction.Transactional
     @RequestMapping(method = RequestMethod.POST, value = {"/index"})
     public @ResponseBody
     ResponseEntity<ResponseItem<Dataset>> generateIndex(Principal principal) throws Exception {
@@ -334,7 +324,7 @@ public class Datasets extends BaseController {
         return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<eu.eudat.data.entities.Dataset>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Generated").payload(null));
     }
 
-    @Transactional
+    @javax.transaction.Transactional
     @RequestMapping(method = RequestMethod.DELETE, value = {"/index"})
     public @ResponseBody
     ResponseEntity<ResponseItem<Dataset>> clearIndex(Principal principal) throws Exception {

dmp-backend/web/src/main/java/eu/eudat/controllers/DepositController.java

@@ -1,84 +0,0 @@
-package eu.eudat.controllers;
-
-import eu.eudat.logic.managers.DepositManager;
-import eu.eudat.logic.security.claims.ClaimedAuthorities;
-import eu.eudat.logic.services.ApiContext;
-import eu.eudat.models.data.doi.DepositCode;
-import eu.eudat.models.data.doi.DepositRequest;
-import eu.eudat.models.data.doi.Doi;
-import eu.eudat.models.data.doi.RepositoryConfig;
-import eu.eudat.models.data.helpers.responses.ResponseItem;
-import eu.eudat.models.data.security.Principal;
-import eu.eudat.types.ApiMessageCode;
-import eu.eudat.types.Authorities;
-import org.slf4j.Logger;
-import org.slf4j.LoggerFactory;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.http.HttpStatus;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-
-import java.util.List;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = {"/api/deposit/"})
-public class DepositController extends BaseController {
-    private static final Logger logger = LoggerFactory.getLogger(DepositController.class);
-
-    private DepositManager depositManager;
-
-    @Autowired
-    public DepositController(ApiContext apiContext, DepositManager depositManager){
-        super(apiContext);
-        this.depositManager = depositManager;
-    }
-
-    @RequestMapping(method = RequestMethod.GET, value = {"/repos"})
-    public @ResponseBody
-    ResponseEntity<ResponseItem<List<RepositoryConfig>>> getAvailableRepos(@ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) {
-        List<RepositoryConfig> ids = this.depositManager.getAvailableRepos();
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<List<RepositoryConfig>>().status(ApiMessageCode.NO_MESSAGE).payload(ids));
-    }
-
-    @RequestMapping(method = RequestMethod.POST, value = {"/getAccessToken"})
-    public @ResponseBody
-    ResponseEntity<ResponseItem<String>> getAccessToken(@RequestBody DepositCode depositCode, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
-        String accessToken = this.depositManager.authenticate(depositCode.getRepositoryId(), depositCode.getCode());
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<String>().status(ApiMessageCode.NO_MESSAGE).payload(accessToken));
-    }
-
-    @RequestMapping(method = RequestMethod.POST, value = {"/createDoi"})
-    public @ResponseBody
-    ResponseEntity<ResponseItem<Doi>> createDoi(@RequestBody DepositRequest depositRequest, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) {
-        try {
-            Doi doi = this.depositManager.deposit(depositRequest, principal);
-            if(doi != null){
-                return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<Doi>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Successfully created DOI for Data Datamanagement Plan in question.").payload(doi));
-            }
-            else{
-                return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<Doi>().status(ApiMessageCode.ERROR_MESSAGE).message("Failed to create DOI for the Data Management Plan"));
-            }
-        } catch (Exception e) {
-            logger.error(e.getMessage(), e);
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<Doi>().status(ApiMessageCode.ERROR_MESSAGE).message("Failed to create DOI for the Data Management Plan: " + e.getMessage()));
-        }
-    }
-
-    @RequestMapping(method = RequestMethod.GET, value = {"/logo/{repositoryId}"})
-    public @ResponseBody
-    ResponseEntity<ResponseItem<String>> getLogo(@PathVariable("repositoryId") String repositoryId, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) {
-        try {
-            String encodedLogo = this.depositManager.getRepositoryLogo(repositoryId);
-            if(encodedLogo != null){
-                return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<String>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Successfully loaded " + repositoryId + "'s logo.").payload(encodedLogo));
-            }
-            else{
-                return ResponseEntity.status(HttpStatus.NOT_FOUND).body(new ResponseItem<String>().status(ApiMessageCode.ERROR_MESSAGE).message(repositoryId + " has no logo").payload(null));
-            }
-        } catch (Exception e) {
-            logger.error(e.getMessage(), e);
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<String>().status(ApiMessageCode.ERROR_MESSAGE).message("Failed to load " + repositoryId + "'s logo: " + e.getMessage()));
-        }
-    }
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/DescriptionTemplateTypeController.java

@@ -1,94 +0,0 @@
-package eu.eudat.controllers;
-
-import eu.eudat.exceptions.descriptiontemplate.DescriptionTemplatesWithTypeException;
-import eu.eudat.logic.managers.DescriptionTemplateTypeManager;
-import eu.eudat.logic.security.claims.ClaimedAuthorities;
-import eu.eudat.logic.services.ApiContext;
-import eu.eudat.models.data.descriptiontemplatetype.DescriptionTemplateTypeModel;
-import eu.eudat.models.data.helpers.common.DataTableData;
-import eu.eudat.models.data.helpers.responses.ResponseItem;
-import eu.eudat.models.data.security.Principal;
-import eu.eudat.types.ApiMessageCode;
-import eu.eudat.types.Authorities;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.http.HttpStatus;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-
-import javax.transaction.Transactional;
-import java.util.UUID;
-
-import static eu.eudat.types.Authorities.ADMIN;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = {"/api/descriptionTemplateType/"})
-public class DescriptionTemplateTypeController extends BaseController {
-
-    private DescriptionTemplateTypeManager descriptionTemplateTypeManager;
-
-    @Autowired
-    public DescriptionTemplateTypeController(ApiContext apiContext, DescriptionTemplateTypeManager descriptionTemplateTypeManager){
-        super(apiContext);
-        this.descriptionTemplateTypeManager = descriptionTemplateTypeManager;
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.POST, value = {"create"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DescriptionTemplateTypeModel>> create(@RequestBody DescriptionTemplateTypeModel type, @ClaimedAuthorities(claims = {ADMIN}) Principal principal) throws Exception {
-        try {
-            this.descriptionTemplateTypeManager.create(type);
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Created"));
-        }
-        catch(DescriptionTemplatesWithTypeException e){
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.ERROR_MESSAGE).message(e.getMessage()));
-        }
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.POST, value = {"update"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DescriptionTemplateTypeModel>> update(@RequestBody DescriptionTemplateTypeModel type, @ClaimedAuthorities(claims = {ADMIN}) Principal principal) throws Exception {
-        try {
-            this.descriptionTemplateTypeManager.update(type);
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Updated"));
-        }
-        catch(DescriptionTemplatesWithTypeException e){
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.ERROR_MESSAGE).message(e.getMessage()));
-        }
-    }
-
-    @RequestMapping(method = RequestMethod.GET, value = {"get"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DataTableData<DescriptionTemplateTypeModel>>> get(@ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
-        DataTableData<DescriptionTemplateTypeModel> dataTable = this.descriptionTemplateTypeManager.get();
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DataTableData<DescriptionTemplateTypeModel>>().status(ApiMessageCode.NO_MESSAGE).payload(dataTable));
-    }
-
-    @RequestMapping(method = RequestMethod.GET, value = {"get/{id}"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DescriptionTemplateTypeModel>> getSingle(@PathVariable(value = "id") UUID id, @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal) throws Exception {
-        try {
-            DescriptionTemplateTypeModel typeModel = this.descriptionTemplateTypeManager.getSingle(id);
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.NO_MESSAGE).payload(typeModel));
-        }
-        catch(DescriptionTemplatesWithTypeException e){
-            return ResponseEntity.status(HttpStatus.NOT_FOUND).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.ERROR_MESSAGE).message(e.getMessage()));
-        }
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.DELETE, value = {"/delete/{id}"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem<DescriptionTemplateTypeModel>> delete(@PathVariable(value = "id") UUID id, @ClaimedAuthorities(claims = {ADMIN}) Principal principal) throws Exception {
-        try{
-            this.descriptionTemplateTypeManager.delete(id);
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.SUCCESS_MESSAGE).message("Deleted"));
-        }
-        catch(DescriptionTemplatesWithTypeException e){
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<DescriptionTemplateTypeModel>().status(ApiMessageCode.UNSUCCESS_DELETE).message(e.getMessage()));
-        }
-    }
-
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/EmailMergeConfirmation.java

@@ -32,16 +32,16 @@ public class EmailMergeConfirmation {
 	@Transactional
 	@RequestMapping(method = RequestMethod.GET, value = {"/{emailToken}"})
 	public @ResponseBody
-	ResponseEntity<ResponseItem<String>> emailConfirmation(@PathVariable(value = "emailToken") String token) {
+	ResponseEntity<ResponseItem> emailConfirmation(@PathVariable(value = "emailToken") String token) {
 		try {
-			String emailToBeMerged = this.emailConfirmationManager.confirmEmail(token);
-			return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<String>().payload(emailToBeMerged).status(ApiMessageCode.SUCCESS_MESSAGE));
+			this.emailConfirmationManager.confirmEmail(token);
+			return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem().status(ApiMessageCode.SUCCESS_MESSAGE));
 		} catch
 		(HasConfirmedEmailException | TokenExpiredException ex) {
 			if (ex instanceof  TokenExpiredException) {
-				return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<String>().status(ApiMessageCode.NO_MESSAGE));
+				return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem().status(ApiMessageCode.NO_MESSAGE));
 			} else {
-				return ResponseEntity.status(HttpStatus.FOUND).body(new ResponseItem<String>().status(ApiMessageCode.WARN_MESSAGE));
+				return ResponseEntity.status(HttpStatus.FOUND).body(new ResponseItem().status(ApiMessageCode.WARN_MESSAGE));
 			}
 		}
 	}

dmp-backend/web/src/main/java/eu/eudat/controllers/EmailUnlinkConfirmation.java

@@ -1,57 +0,0 @@
-package eu.eudat.controllers;
-
-import eu.eudat.exceptions.emailconfirmation.HasConfirmedEmailException;
-import eu.eudat.exceptions.emailconfirmation.TokenExpiredException;
-import eu.eudat.logic.managers.UnlinkEmailConfirmationManager;
-import eu.eudat.models.data.helpers.responses.ResponseItem;
-import eu.eudat.models.data.security.Principal;
-import eu.eudat.models.data.userinfo.UserUnlinkRequestModel;
-import eu.eudat.types.ApiMessageCode;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.http.HttpStatus;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-
-import javax.transaction.Transactional;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = "api/emailUnlinkConfirmation")
-public class EmailUnlinkConfirmation {
-
-    private UnlinkEmailConfirmationManager unlinkEmailConfirmationManager;
-
-    @Autowired
-    public EmailUnlinkConfirmation(UnlinkEmailConfirmationManager unlinkEmailConfirmationManager){
-        this.unlinkEmailConfirmationManager = unlinkEmailConfirmationManager;
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.GET, value = {"/{emailToken}"})
-    public @ResponseBody
-    ResponseEntity<ResponseItem> emailConfirmation(@PathVariable(value = "emailToken") String token) {
-        try {
-            this.unlinkEmailConfirmationManager.confirmEmail(token);
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem().status(ApiMessageCode.SUCCESS_MESSAGE));
-        } catch (TokenExpiredException | HasConfirmedEmailException ex) {
-            if (ex instanceof TokenExpiredException) {
-                return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem().status(ApiMessageCode.NO_MESSAGE));
-            }
-            else {
-                return ResponseEntity.status(HttpStatus.FOUND).body(new ResponseItem().status(ApiMessageCode.WARN_MESSAGE));
-            }
-        }
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.POST, consumes = "application/json", produces = "application/json")
-    public @ResponseBody
-    ResponseEntity<ResponseItem> sendUnlinkConfirmationEmail(@RequestBody UserUnlinkRequestModel requestModel, Principal principal) {
-        try {
-            this.unlinkEmailConfirmationManager.sendConfirmationEmail(requestModel.getEmail(), principal, requestModel.getUserId(), requestModel.getProvider());
-            return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem().status(ApiMessageCode.SUCCESS_MESSAGE));
-        } catch (Exception ex) {
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem().status(ApiMessageCode.NO_MESSAGE).message("Could not send unlink email."));
-        }
-    }
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/FaqController.java

@@ -1,38 +0,0 @@
-package eu.eudat.controllers;
-
-import eu.eudat.logic.managers.MaterialManager;
-import eu.eudat.logic.managers.MetricsManager;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.core.env.Environment;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-
-import java.io.IOException;
-import java.nio.file.Files;
-import java.nio.file.Path;
-import java.nio.file.Paths;
-import java.util.Objects;
-import java.util.stream.Stream;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = {"/api/material/faq/"})
-public class FaqController {
-
-    private Environment environment;
-    private MaterialManager materialManager;
-
-    @Autowired
-    public FaqController(Environment environment, MaterialManager materialManager, MetricsManager metricsManager) {
-        this.environment = environment;
-        this.materialManager = materialManager;
-    }
-
-    @RequestMapping(path = "{lang}", method = RequestMethod.GET )
-    public ResponseEntity<byte[]> getFaq(@PathVariable(name = "lang") String lang) throws IOException {
-        try (Stream<Path> paths = Files.walk(Paths.get(Objects.requireNonNull(this.environment.getProperty("faq.path"))))) {
-            return this.materialManager.getResponseEntity(lang, paths);
-        }
-    }
-
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/FileController.java

@@ -1,180 +0,0 @@
-package eu.eudat.controllers;
-
-import com.fasterxml.jackson.annotation.JsonInclude;
-import com.fasterxml.jackson.databind.JsonNode;
-import com.fasterxml.jackson.databind.ObjectMapper;
-import eu.eudat.data.entities.FileUpload;
-import eu.eudat.exceptions.security.UnauthorisedException;
-import eu.eudat.logic.managers.DatasetProfileManager;
-import eu.eudat.logic.security.claims.ClaimedAuthorities;
-import eu.eudat.logic.services.ApiContext;
-import eu.eudat.logic.services.operations.DatabaseRepository;
-import eu.eudat.logic.utilities.documents.helpers.FileEnvelope;
-import eu.eudat.logic.utilities.json.JsonSearcher;
-import eu.eudat.models.HintedModelFactory;
-import eu.eudat.models.data.datasetwizard.DatasetWizardModel;
-import eu.eudat.models.data.helpers.responses.ResponseItem;
-import eu.eudat.models.data.security.Principal;
-import eu.eudat.types.ApiMessageCode;
-import eu.eudat.types.Authorities;
-import org.apache.poi.util.IOUtils;
-import org.json.JSONArray;
-import org.json.JSONObject;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.core.env.Environment;
-import org.springframework.http.HttpHeaders;
-import org.springframework.http.HttpStatus;
-import org.springframework.http.MediaType;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-import org.springframework.web.multipart.MultipartFile;
-
-import javax.transaction.Transactional;
-import java.io.*;
-import java.nio.file.Files;
-import java.util.*;
-import java.util.concurrent.atomic.AtomicBoolean;
-import java.util.concurrent.atomic.AtomicReference;
-import java.util.stream.Collectors;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = {"/api/file/"})
-public class FileController {
-
-    private DatasetProfileManager datasetProfileManager;
-    private final Environment environment;
-    private DatabaseRepository databaseRepository;
-
-    @Autowired
-    public FileController(DatasetProfileManager datasetProfileManager, Environment environment, ApiContext apiContext) {
-        this.datasetProfileManager = datasetProfileManager;
-        this.environment = environment;
-        this.databaseRepository = apiContext.getOperationsContext().getDatabaseRepository();
-    }
-
-    @RequestMapping(method = RequestMethod.POST, value = {"/upload"})
-    public ResponseEntity<ResponseItem<String>> upload(
-            @RequestParam("file") MultipartFile file, @RequestParam("datasetProfileId") String datasetProfileId, @RequestParam("fieldId") String fieldId,
-            @ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER}) Principal principal)
-            throws IllegalAccessException, IOException {
-        String uuid = UUID.randomUUID().toString();
-
-        eu.eudat.models.data.admin.composite.DatasetProfile datasetprofile = this.datasetProfileManager.getDatasetProfile(datasetProfileId);
-
-        ObjectMapper mapper = new ObjectMapper();
-        mapper.setSerializationInclusion(JsonInclude.Include.NON_NULL);
-        String json = mapper.writeValueAsString(datasetprofile.getSections());;
-        JsonNode propertiesJson = mapper.readTree(json);
-        Set<JsonNode> fieldNodes = new HashSet<>();
-        fieldNodes.addAll(JsonSearcher.findNodes(propertiesJson, "id", fieldId, false));
-
-//        AtomicReference<String> exceptionMessage = null;
-        AtomicBoolean acceptedFile = new AtomicBoolean(false);
-        fieldNodes.forEach(node -> {
-            JsonNode data = node.get("data");
-            if (data != null && !data.toString().equals("\"\"") && !data.toString().equals("null")) {
-                String stringValue = data.toString().replaceAll("=", ":");
-                JSONObject dataObj = new JSONObject(stringValue);
-                Map<String, Object> dataMap = ((JSONObject) dataObj).toMap();
-                if(dataMap.get("maxFileSizeInMB") != null && !dataMap.get("maxFileSizeInMB").toString().equals("\"\"") && !dataMap.get("maxFileSizeInMB").toString().equals("null")) {
-                    if (file.getSize() <= Integer.parseInt(dataMap.get("maxFileSizeInMB").toString())*1048576) {
-                        acceptedFile.set(true);
-                    }
-//                    else {
-//                        exceptionMessage.set("The file is too large. Max file upload is " + dataMap.get("maxFileSizeInMB").toString() + " MB.");
-//                    }
-                }
-
-                if(acceptedFile.get() && data.get("types") != null && !data.get("types").toString().equals("\"\"") && !data.get("types").toString().equals("null")) {
-                    acceptedFile.set(false);
-
-                    JSONArray types = new JSONArray(data.get("types").toString());
-
-                    types.iterator().forEachRemaining(element -> {
-                        Map<String, Object> typesMap = ((JSONObject) element).toMap();
-                        if(typesMap.get("value") != null && !typesMap.get("value").toString().equals("\"\"") && !typesMap.get("value").toString().equals("null")) {
-                            if(file.getContentType().equals(typesMap.get("value").toString())) {
-                                acceptedFile.set(true);
-                            }
-                        }
-                    });
-                }
-//                if(!acceptedFile.get()) {
-//                    exceptionMessage.set("The file type is not accepted.");
-//                }
-            }
-        });
-
-        if(!acceptedFile.get()) {
-            return ResponseEntity.status(HttpStatus.BAD_REQUEST).body(new ResponseItem<String>().status(ApiMessageCode.ERROR_MESSAGE).message("The uploaded file is too large or has an unaccepted type"));
-        }
-
-
-        File convFile = new File(this.environment.getProperty("temp.temp") + uuid);
-        convFile.createNewFile();
-        FileOutputStream fos = new FileOutputStream(convFile);
-        fos.write(file.getBytes());
-        fos.close();
-
-
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<String>().payload(uuid)
-                .status(ApiMessageCode.SUCCESS_MESSAGE).message(""));
-    }
-
-    @RequestMapping(method = RequestMethod.POST, value = {"/delete-temp"})
-    public ResponseEntity<ResponseItem<String>> upload(@RequestBody String filename) throws IllegalAccessException, IOException {
-        File convFile = new File(this.environment.getProperty("temp.temp") + filename);
-//        Boolean deleted = convFile.delete();
-        Boolean deleted = Files.deleteIfExists(convFile.toPath());
-
-        return ResponseEntity.status(HttpStatus.OK).body(new ResponseItem<String>().payload(deleted.toString())
-                .status(ApiMessageCode.SUCCESS_MESSAGE).message(""));
-    }
-
-    @Transactional
-    @RequestMapping(method = RequestMethod.GET, value = {"{id}"}, produces = "application/json")
-    public @ResponseBody
-    ResponseEntity download(@PathVariable String id
-        ,@ClaimedAuthorities(claims = {Authorities.ADMIN, Authorities.MANAGER, Authorities.USER, Authorities.ANONYMOUS}) Principal principal
-    ) throws IOException {
-        FileUpload fileUpload = databaseRepository.getFileUploadDao().find(UUID.fromString(id));
-        if(fileUpload == null) {
-            throw new NoSuchElementException("File with id "+id+" not found");
-        }
-
-        if(fileUpload.getEntityType().name().equals(FileUpload.EntityType.DATASET.name())) {
-            eu.eudat.data.entities.Dataset datasetEntity = databaseRepository.getDatasetDao().find(fileUpload.getEntityId(), HintedModelFactory.getHint(DatasetWizardModel.class));
-            if (datasetEntity == null) {
-                throw new NoSuchElementException("No dataset with id " + fileUpload.getEntityId() + "  found. This dataset was related to the file with id " + id);
-            }
-            if (!datasetEntity.getDmp().isPublic() && datasetEntity.getDmp().getUsers()
-                    .stream().filter(userInfo -> userInfo.getUser().getId() == principal.getId())
-                    .collect(Collectors.toList()).size() == 0)
-                throw new UnauthorisedException();
-        }
-
-        FileEnvelope fileEnvelope = new FileEnvelope();
-        fileEnvelope.setFilename(fileUpload.getName());
-        File exportFile = new File(this.environment.getProperty("file.storage") + id);
-        fileEnvelope.setFile(exportFile);
-
-        InputStream resource = new FileInputStream(fileEnvelope.getFile());
-        HttpHeaders responseHeaders = new HttpHeaders();
-        responseHeaders.setContentLength(fileEnvelope.getFile().length());
-        responseHeaders.setContentType(MediaType.APPLICATION_OCTET_STREAM);
-        String fileName = fileEnvelope.getFilename().replace(" ", "_").replace(",", "_");
-        responseHeaders.set("Content-Disposition", "attachment;filename=" + fileName);
-        responseHeaders.set("Access-Control-Expose-Headers", "Content-Disposition");
-        responseHeaders.set("Cache-Control", "no-store");
-        responseHeaders.get("Access-Control-Expose-Headers").add("Content-Type");
-
-        byte[] content = IOUtils.toByteArray(resource);
-        resource.close();
-        return new ResponseEntity<>(content,
-                responseHeaders,
-                HttpStatus.OK);
-
-    }
-
-}

dmp-backend/web/src/main/java/eu/eudat/controllers/GlossaryController.java

@@ -1,38 +0,0 @@
-package eu.eudat.controllers;
-
-import eu.eudat.logic.managers.MaterialManager;
-import eu.eudat.logic.managers.MetricsManager;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.core.env.Environment;
-import org.springframework.http.ResponseEntity;
-import org.springframework.web.bind.annotation.*;
-
-import java.io.IOException;
-import java.nio.file.Files;
-import java.nio.file.Path;
-import java.nio.file.Paths;
-import java.util.Objects;
-import java.util.stream.Stream;
-
-@RestController
-@CrossOrigin
-@RequestMapping(value = {"/api/material/glossary/"})
-public class GlossaryController {
-
-    private Environment environment;
-    private MaterialManager materialManager;
-
-    @Autowired
-    public GlossaryController(Environment environment, MaterialManager materialManager, MetricsManager metricsManager) {
-        this.environment = environment;
-        this.materialManager = materialManager;
-    }
-
-    @RequestMapping(path = "{lang}", method = RequestMethod.GET )
-    public ResponseEntity<byte[]> getGlossary(@PathVariable(name = "lang") String lang) throws IOException {
-        try (Stream<Path> paths = Files.walk(Paths.get(Objects.requireNonNull(this.environment.getProperty("glossary.path"))))) {
-            return this.materialManager.getResponseEntity(lang, paths);
-        }
-    }
-
-}