631 lines
20 KiB
Java
631 lines
20 KiB
Java
package org.gcube.portlets.widgets.ckan2zenodopublisher.server.converter;
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import java.util.ArrayList;
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import java.util.Arrays;
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import java.util.Date;
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import java.util.List;
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import org.gcube.data.publishing.ckan2zenodo.model.CkanResource;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.Community;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.Contributor;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.Contributor.Type;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.Creator;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.DateInterval;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.DepositionMetadata;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.DepositionMetadata.AccessRights;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.DepositionMetadata.ImageType;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.DepositionMetadata.PublicationType;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.DepositionMetadata.UploadType;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.FileDeposition;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.RelatedIdentifier;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.RelatedIdentifier.Relation;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.Subject;
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import org.gcube.data.publishing.ckan2zenodo.model.zenodo.ZenodoDeposition;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.server.CkanToZenodoUtil;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.SerializableEnum;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.LicenseBean;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoAuthor;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoCommunity;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoContributor;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoCreator;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoDateInterval;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoFile;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoItem;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoMetadata;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoRelatedIdentifier;
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import org.gcube.portlets.widgets.ckan2zenodopublisher.shared.wrapped.ZenodoSubject;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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/**
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* The Class ItemToZenodoConverter.
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*
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* @author Francesco Mangiacrapa at ISTI-CNR (francesco.mangiacrapa@isti.cnr.it)
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*
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* Dec 10, 2019
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*/
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public class ItemToZenodoConverter {
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private static Logger LOG = LoggerFactory.getLogger(ItemToZenodoConverter.class);
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/**
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* **
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*
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*
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* TO CLIENT.
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*
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* @param zenodoDeposition the zenodo deposition
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* @return the zenodo item
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*/
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/**
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* To zenodo item.
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*
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* @param zenodoDeposition the zenodo deposition
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* @return the zenodo item
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*/
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public static ZenodoItem toZenodoItem(ZenodoDeposition zenodoDeposition) {
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if(zenodoDeposition==null)
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return null;
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LOG.debug("Converting item: "+zenodoDeposition);
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ZenodoItem zi = new ZenodoItem();
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zi.setId(zenodoDeposition.getId());
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zi.setDoi(zenodoDeposition.getDoi());
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zi.setCreated(zenodoDeposition.getCreated());
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//Add files already published in the deposition
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List<ZenodoFile> files = toZenodoFiles(zenodoDeposition.getFiles(),true);
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zi.addFiles(files);
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zi.setModified(zenodoDeposition.getModified());
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zi.setOwner(zenodoDeposition.getOwner());
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zi.setRecord_id(zenodoDeposition.getRecord_id());
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zi.setRecord_url(zenodoDeposition.getRecord_url()!=null?zenodoDeposition.getRecord_url().toString():null);
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zi.setState(zenodoDeposition.getState());
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zi.setSubmitted(zenodoDeposition.getSubmitted());
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zi.setTitle(zenodoDeposition.getTitle());
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zi.setMetadata(toZenodoMetadata(zenodoDeposition.getMetadata()));
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LOG.debug("Converted item: "+zi);
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return zi;
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}
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/**
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* Adds the files.
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*
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* @param files the files
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* @param filesAlreadyPublished the files already published
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* @return the list
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*/
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private static List<ZenodoFile> toZenodoFiles(ArrayList<FileDeposition> files, boolean filesAlreadyPublished) {
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if(files==null)
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return null;
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List<ZenodoFile> listOfFiles = new ArrayList<ZenodoFile>(files.size());
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for (FileDeposition fileDeposition : files) {
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listOfFiles.add(toZenodoFile(fileDeposition, filesAlreadyPublished));
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}
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return listOfFiles;
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}
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/**
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* To zenodo files.
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*
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* @param filteredResources the filtered resources
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* @param filesAlreadyPublished the files already published
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* @return the list
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*/
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public static List<ZenodoFile> toZenodoFiles(List<CkanResource> filteredResources, boolean filesAlreadyPublished) {
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if(filteredResources==null)
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return null;
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List<ZenodoFile> listOfFiles = new ArrayList<ZenodoFile>(filteredResources.size());
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for (CkanResource ckanResource : filteredResources) {
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listOfFiles.add(toZenodoFile(ckanResource,filesAlreadyPublished));
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}
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return listOfFiles;
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}
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/**
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* To zenodo file.
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*
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* @param fileDeposition the file deposition
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* @param fileAlreadyPublished the file already published
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* @return the zenodo file
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*/
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public static ZenodoFile toZenodoFile(FileDeposition fileDeposition, boolean fileAlreadyPublished) {
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if(fileDeposition==null)
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return null;
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ZenodoFile zf = new ZenodoFile();
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zf.setId(fileDeposition.getId());
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zf.setFilename(fileDeposition.getFilename());
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zf.setFilesize(fileDeposition.getFilesize()+"");
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zf.setChecksum(fileDeposition.getChecksum());
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zf.setIsAlreadyPublished(fileAlreadyPublished);
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return zf;
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}
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/**
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* To zenodo file.
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*
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* @param ckanResource the ckan resource
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* @param fileAlreadyPublished the file already published
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* @return the zenodo file
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*/
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public static ZenodoFile toZenodoFile(CkanResource ckanResource, boolean fileAlreadyPublished) {
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if(ckanResource==null)
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return null;
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ZenodoFile zf = new ZenodoFile();
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zf.setId(ckanResource.getId());
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zf.setFilename(ckanResource.getName());
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zf.setFilesize(ckanResource.getSize());
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zf.setChecksum(null);
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zf.setMimeType(ckanResource.getMimetype());
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zf.setFormat(ckanResource.getFormat());
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zf.setDescription(ckanResource.getDescription());
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zf.setIsAlreadyPublished(fileAlreadyPublished);
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return zf;
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}
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/**
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* To zenodo metadata.
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*
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* @param depositionMetadata the deposition metadata
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* @return the zenodo metadata
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*/
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public static ZenodoMetadata toZenodoMetadata(DepositionMetadata depositionMetadata){
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if(depositionMetadata==null)
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return null;
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ZenodoMetadata zm = new ZenodoMetadata();
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zm.setAccess_conditions(depositionMetadata.getAccess_conditions());
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zm.setDescription(depositionMetadata.getDescription());
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//Access Type
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AccessRights[] accessRight = null;
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if(depositionMetadata.getAccess_right()!=null) {
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AccessRights[] theAccessRight = { depositionMetadata.getAccess_right() };
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accessRight = theAccessRight;
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}
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zm.setAccess_right(CkanToZenodoUtil.toSerializableEnum(accessRight, AccessRights.values()));
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//Upload Type
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UploadType[] uploadType = null;
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if(depositionMetadata.getUpload_type()!=null) {
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UploadType[] theUploadType = { depositionMetadata.getUpload_type() };
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uploadType = theUploadType;
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}
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zm.setUpload_type(CkanToZenodoUtil.toSerializableEnum(uploadType, UploadType.values()));
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//Publication Type
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PublicationType[] publicationType = null;
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if(depositionMetadata.getPublication_type()!=null) {
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PublicationType[] thepublicationType = { depositionMetadata.getPublication_type() };
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publicationType = thepublicationType;
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}
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zm.setPublication_type(CkanToZenodoUtil.toSerializableEnum(publicationType, PublicationType.values()));
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//Image Type
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ImageType[] imageType = null;
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if(depositionMetadata.getImage_type()!=null) {
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ImageType[] theImageType = { depositionMetadata.getImage_type() };
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imageType = theImageType;
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}
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zm.setImage_type(CkanToZenodoUtil.toSerializableEnum(imageType, ImageType.values()));
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//Licenses
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List<LicenseBean> selectedLicenses = null;
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if(depositionMetadata.getLicense()!=null) {
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selectedLicenses = Arrays.asList(new LicenseBean(depositionMetadata.getLicense(),depositionMetadata.getLicense(), null));
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}
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zm.setLicenses(CkanToZenodoUtil.toSerializableEnum(selectedLicenses, null)); //NEED TO ADD ALL LICENSES
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if(depositionMetadata.getEmbargo_date()!=null) {
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}
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zm.setKeywords(depositionMetadata.getKeywords());
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zm.setCommunities(toZenodoCommunities(depositionMetadata.getCommunities()));
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zm.setConference_acronym(depositionMetadata.getConference_acronym());
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zm.setConference_dates(depositionMetadata.getConference_dates());
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zm.setConference_place(depositionMetadata.getConference_place());
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zm.setConference_session(depositionMetadata.getConference_session());
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zm.setConference_session_part(depositionMetadata.getConference_session_part());
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zm.setConference_title(depositionMetadata.getConference_title());
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zm.setConference_url(depositionMetadata.getConference_url());
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zm.setContributors(toZenodoContributors(depositionMetadata.getContributors()));
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zm.setCreators(toZenodoCreators(depositionMetadata.getCreators()));
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zm.setDates(toZenodoDateIntervals(depositionMetadata.getDates()));
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zm.setEmbargo_date(depositionMetadata.getEmbargo_date());
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zm.setRelated_identifiers(toRelatedIdentifiers(depositionMetadata.getRelated_identifiers()));
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zm.setSubjects(toZenodoSubjects(depositionMetadata.getSubjects()));
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zm.setThesis_supervisors(toZenodoCreators(depositionMetadata.getThesis_supervisors()));
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zm.setThesis_university(depositionMetadata.getThesis_university());
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zm.setTitle(depositionMetadata.getTitle());
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zm.setVersion(depositionMetadata.getVersion());
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zm.setNotes(depositionMetadata.getNotes());
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return zm;
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}
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/**
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* To zenodo subjects.
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*
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* @param subjects the subjects
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* @return the list
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*/
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private static List<ZenodoSubject> toZenodoSubjects(List<Subject> subjects) {
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if(subjects==null)
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return null;
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List<ZenodoSubject> list = new ArrayList<ZenodoSubject>(subjects.size());
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for (Subject sub : subjects) {
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ZenodoSubject zs = new ZenodoSubject(sub.getTerm(), sub.getIdentifier(), sub.getScheme());
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list.add(zs);
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}
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return list;
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}
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/**
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* To related identifiers.
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*
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* @param related_identifiers the related identifiers
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* @return the list
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*/
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private static List<ZenodoRelatedIdentifier> toRelatedIdentifiers(List<RelatedIdentifier> related_identifiers) {
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if(related_identifiers==null)
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return null;
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List<ZenodoRelatedIdentifier> list = new ArrayList<ZenodoRelatedIdentifier>(related_identifiers.size());
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for (RelatedIdentifier relatedIdentifier : related_identifiers) {
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Relation[] rel = { relatedIdentifier.getRelation() };
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SerializableEnum<String> sEnum = CkanToZenodoUtil.toSerializableEnum(rel, Relation.values());
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ZenodoRelatedIdentifier zdi = new ZenodoRelatedIdentifier(relatedIdentifier.getIdentifier(), sEnum);
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list.add(zdi);
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}
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return list;
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}
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/**
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* To zenodo date intervals.
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*
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* @param dateIntervals the date intervals
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* @return the list
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*/
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private static List<ZenodoDateInterval> toZenodoDateIntervals(List<DateInterval> dateIntervals) {
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if(dateIntervals==null)
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return null;
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List<ZenodoDateInterval> list = new ArrayList<ZenodoDateInterval>(dateIntervals.size());
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for (DateInterval dateInterval : dateIntervals) {
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SerializableEnum<String> types = null;
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if(dateInterval.getType()!=null) {
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DateInterval.Type[] rel = { dateInterval.getType() };
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types = CkanToZenodoUtil.toSerializableEnum(rel, DateInterval.Type.values());
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}
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list.add(new ZenodoDateInterval(dateInterval.getStart(), dateInterval.getEnd(), types, dateInterval.getDescription()));
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}
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return list;
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}
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/**
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* To zenodo communities.
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*
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* @param communities the communities
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* @return the list
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*/
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public static List<ZenodoCommunity> toZenodoCommunities(List<Community> communities) {
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if(communities==null)
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return null;
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List<ZenodoCommunity> list = new ArrayList<ZenodoCommunity>(communities.size());
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for (Community community : communities) {
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list.add(new ZenodoCommunity(community.getIdentifier()));
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}
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return list;
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}
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/**
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* To zenodo contributors.
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*
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* @param contributors the contributors
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* @return the list
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*/
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public static List<ZenodoContributor> toZenodoContributors(List<Contributor> contributors) {
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if(contributors==null)
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return null;
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List<ZenodoContributor> list = new ArrayList<ZenodoContributor>(contributors.size());
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for (Contributor contr : contributors) {
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ZenodoContributor zc = new ZenodoContributor();
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zc.setAffiliation(contr.getAffiliation());
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zc.setGnd(contr.getGnd());
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zc.setName(contr.getName());
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zc.setOrcid(contr.getOrcid());
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SerializableEnum<String> types = null;
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if(contr.getType()!=null) {
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Contributor.Type[] rel = { contr.getType() };
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types = CkanToZenodoUtil.toSerializableEnum(rel, Contributor.Type.values());
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}
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zc.setType(types);
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list.add(zc);
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}
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return list;
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}
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/**
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* To zenodo creators.
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*
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* @param creators the creators
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* @return the list
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*/
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public static List<ZenodoCreator> toZenodoCreators(List<Creator> creators) {
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if(creators==null)
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return null;
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List<ZenodoCreator> list = new ArrayList<ZenodoCreator>(creators.size());
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for (Creator contr : creators) {
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ZenodoCreator zc = new ZenodoCreator();
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zc.setAffiliation(contr.getAffiliation());
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zc.setGnd(contr.getGnd());
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zc.setName(contr.getName());
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zc.setOrcid(contr.getOrcid());
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list.add(zc);
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}
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return list;
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}
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/**
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* To service file deposition.
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*
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* @param zenodoFile the zenodo file
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* @return the file deposition
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*/
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public static FileDeposition toServiceFileDeposition(ZenodoFile zenodoFile) {
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if(zenodoFile==null)
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return null;
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FileDeposition fileDep = new FileDeposition();
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fileDep.setId(zenodoFile.getId());
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fileDep.setFilename(zenodoFile.getFilename());
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try {
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fileDep.setFilesize(Integer.parseInt(zenodoFile.getFilesize()));
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}catch (Exception e) {
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// TODO: handle exception
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}
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fileDep.setChecksum(zenodoFile.getChecksum());
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return fileDep;
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}
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/**
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* Update metadata info of deposition metadata.
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*
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* @param metadata the metadata
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* @param depositionMetadata the deposition metadata
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* @return the deposition metadata
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*/
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public static DepositionMetadata updateMetadataInfoOfDepositionMetadata(ZenodoMetadata metadata, DepositionMetadata depositionMetadata) {
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//upload type
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SerializableEnum<String> uploadType = metadata.getUpload_type();
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LOG.debug("Read upload type: "+uploadType);
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if(uploadType!=null && uploadType.getSelectedValues()!=null) {
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String theUploadTypeValue = uploadType.getSelectedValues().get(0);
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LOG.debug("Set upload type: "+theUploadTypeValue);
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depositionMetadata.setUpload_type(UploadType.valueOf(theUploadTypeValue));
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}
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//access right
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SerializableEnum<String> accessRight = metadata.getAccess_right();
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LOG.debug("Read access type: "+accessRight);
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if(accessRight!=null && accessRight.getSelectedValues()!=null) {
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try {
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String theAccessRightValue = accessRight.getSelectedValues().get(0);
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LOG.debug("Set access right: "+theAccessRightValue);
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depositionMetadata.setAccess_right(AccessRights.valueOf(theAccessRightValue));
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}catch (Exception e) {
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LOG.warn("Set access right error: ",e);
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}
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}
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//publication type
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SerializableEnum<String> publicationType = metadata.getPublication_type();
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LOG.debug("Read publication type: "+publicationType);
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if(publicationType!=null && publicationType.getSelectedValues()!=null) {
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try {
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String thePublicationTypeValue = publicationType.getSelectedValues().get(0);
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LOG.debug("Set publication type: "+thePublicationTypeValue);
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depositionMetadata.setPublication_type(PublicationType.valueOf(thePublicationTypeValue));
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}catch (Exception e) {
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LOG.warn("Set publication type error: ",e);
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}
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}
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//image type
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SerializableEnum<String> imageType = metadata.getImage_type();
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LOG.debug("Read image type: "+imageType);
|
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if(imageType!=null && imageType.getSelectedValues()!=null) {
|
|
try {
|
|
String imageTypeValue = imageType.getSelectedValues().get(0);
|
|
LOG.debug("Set image type: "+imageTypeValue);
|
|
depositionMetadata.setImage_type(ImageType.valueOf(imageTypeValue));
|
|
}catch (Exception e) {
|
|
LOG.warn("Set image type error: ",e);
|
|
}
|
|
}
|
|
|
|
//embargo_date
|
|
Date embargoDate = metadata.getEmbargo_date();
|
|
LOG.debug("Read embargo date: "+imageType);
|
|
if(embargoDate!=null) {
|
|
try {
|
|
LOG.debug("Set embargo date: "+embargoDate);
|
|
depositionMetadata.setEmbargo_date(embargoDate);
|
|
}catch (Exception e) {
|
|
LOG.warn("Set embargo date error: ",e);
|
|
}
|
|
}
|
|
|
|
//access conditions
|
|
String accessConditions = metadata.getAccess_conditions();
|
|
LOG.debug("Read access conditions: "+accessConditions);
|
|
if(accessConditions!=null) {
|
|
LOG.debug("Set access conditions: "+accessConditions);
|
|
depositionMetadata.setAccess_conditions(accessConditions);
|
|
}
|
|
|
|
//license
|
|
SerializableEnum<LicenseBean> licenses = metadata.getLicenses();
|
|
LOG.debug("Read licenses: "+licenses);
|
|
if(licenses!=null) {
|
|
try {
|
|
LicenseBean lB = licenses.getSelectedValues().get(0);
|
|
LOG.debug("Set license: "+lB);
|
|
depositionMetadata.setLicense(lB.getId());
|
|
}catch (Exception e) {
|
|
LOG.warn("Set license error: ",e);
|
|
}
|
|
}
|
|
|
|
//creators
|
|
List<Creator> creators = null;
|
|
List<? extends ZenodoAuthor> zenodoCreators = metadata.getCreators();
|
|
LOG.debug("Read Creators: "+zenodoCreators);
|
|
if(zenodoCreators!=null) {
|
|
creators = toCreators(zenodoCreators);
|
|
}
|
|
LOG.debug("Set Creators: "+creators);
|
|
depositionMetadata.setCreators(creators);
|
|
|
|
//contributors
|
|
List<Contributor> contributors = null;
|
|
List<? extends ZenodoAuthor> zenodoContributors = metadata.getContributors();
|
|
LOG.debug("Read Contributors: "+zenodoContributors);
|
|
if(zenodoContributors!=null) {
|
|
contributors = toContributors(zenodoContributors);
|
|
}
|
|
|
|
if(LOG.isDebugEnabled()) {
|
|
for (Contributor contributor : contributors) {
|
|
LOG.debug("Set contributor: name "+contributor.getName() + " type "+contributor.getType());
|
|
}
|
|
}
|
|
depositionMetadata.setContributors(contributors);
|
|
|
|
//keywords
|
|
depositionMetadata.setKeywords(metadata.getKeywords());
|
|
|
|
return depositionMetadata;
|
|
}
|
|
|
|
|
|
/**
|
|
* To creators.
|
|
*
|
|
* @param zenodoCreators the zenodo creators
|
|
* @return the list
|
|
*/
|
|
public static List<Creator> toCreators(List<? extends ZenodoAuthor> zenodoCreators){
|
|
|
|
if(zenodoCreators==null)
|
|
return null;
|
|
|
|
List<Creator> listOfCreators = new ArrayList<>(zenodoCreators.size());
|
|
for (ZenodoAuthor zenodoAuthor : zenodoCreators) {
|
|
Creator creator = new Creator();
|
|
creator.setName(zenodoAuthor.getName());
|
|
if(CkanToZenodoUtil.isNotEmpty(zenodoAuthor.getAffiliation())) {
|
|
creator.setAffiliation(zenodoAuthor.getAffiliation());
|
|
}
|
|
if(CkanToZenodoUtil.isNotEmpty(zenodoAuthor.getGnd())) {
|
|
creator.setGnd(zenodoAuthor.getGnd());
|
|
}
|
|
if(CkanToZenodoUtil.isNotEmpty(zenodoAuthor.getOrcid())) {
|
|
creator.setOrcid(zenodoAuthor.getOrcid());
|
|
}
|
|
listOfCreators.add(creator);
|
|
}
|
|
|
|
return listOfCreators;
|
|
}
|
|
|
|
/**
|
|
* To contributors.
|
|
*
|
|
* @param zenodoContributors the zenodo contributors
|
|
* @return the list
|
|
*/
|
|
public static List<Contributor> toContributors(List<? extends ZenodoAuthor> zenodoContributors){
|
|
|
|
if(zenodoContributors==null)
|
|
return null;
|
|
|
|
List<Contributor> listOfContributors = new ArrayList<Contributor>(zenodoContributors.size());
|
|
for (ZenodoAuthor zenodoAuthor : zenodoContributors) {
|
|
Contributor contributor = new Contributor();
|
|
contributor.setName(zenodoAuthor.getName());
|
|
if(CkanToZenodoUtil.isNotEmpty(zenodoAuthor.getAffiliation())) {
|
|
contributor.setAffiliation(zenodoAuthor.getAffiliation());
|
|
}
|
|
if(CkanToZenodoUtil.isNotEmpty(zenodoAuthor.getGnd())) {
|
|
contributor.setGnd(zenodoAuthor.getGnd());
|
|
}
|
|
if(CkanToZenodoUtil.isNotEmpty(zenodoAuthor.getOrcid())) {
|
|
contributor.setOrcid(zenodoAuthor.getOrcid());
|
|
}
|
|
Type type = null;
|
|
String theType = null;
|
|
try {
|
|
theType = zenodoAuthor.getType().getSelectedValues().get(0);
|
|
type = Type.valueOf(theType);
|
|
}catch (Exception e) {
|
|
LOG.error("I'm not able to convert "+theType + " as value of "+Type.class.getName());
|
|
}
|
|
contributor.setType(type);
|
|
listOfContributors.add(contributor);
|
|
}
|
|
|
|
return listOfContributors;
|
|
}
|
|
|
|
|
|
|
|
}
|