dnet-hadoop/dhp-workflows/dhp-graph-provision/src/main/java/eu/dnetlib/dhp/graph/GraphMappingUtils.java

package eu.dnetlib.dhp.graph;

import com.fasterxml.jackson.annotation.JsonInclude;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.ObjectMapper;
import com.google.common.collect.Maps;
import com.jayway.jsonpath.DocumentContext;
import com.jayway.jsonpath.JsonPath;
import eu.dnetlib.dhp.schema.oaf.*;
import net.minidev.json.JSONArray;
import org.apache.commons.lang3.StringUtils;

import java.util.LinkedHashMap;
import java.util.Map;
import java.util.stream.Collectors;

public class GraphMappingUtils {

    public final static Map<String, Class> types = Maps.newHashMap();

    static {
        types.put("datasource", Datasource.class);
        types.put("organization", Organization.class);
        types.put("project", Project.class);
        types.put("dataset", Dataset.class);
        types.put("otherresearchproduct", OtherResearchProduct.class);
        types.put("software", Software.class);
        types.put("publication", Publication.class);
        types.put("relation", Relation.class);
    }

    public static EntityRelEntity pruneModel(EntityRelEntity e) {

        final DocumentContext j = JsonPath.parse(e.getSource().getOaf());
        final RelatedEntity re = new RelatedEntity().setId(j.read("$.id")).setType(e.getSource().getType());

        switch (e.getSource().getType()) {
            case "publication":
            case "dataset":
            case "otherresearchproduct":
            case "software":
                mapTitle(j, re);
                re.setDateofacceptance(j.read("$.dateofacceptance.value"));
                re.setPublisher(j.read("$.publisher.value"));

                JSONArray pids = j.read("$.pid");
                re.setPid(pids.stream()
                        .map(p -> asStructuredProperty((LinkedHashMap<String, Object>) p))
                        .collect(Collectors.toList()));

                re.setResulttype(asQualifier(j.read("$.resulttype")));

                JSONArray collfrom = j.read("$.collectedfrom");
                re.setCollectedfrom(collfrom.stream()
                        .map(c -> asKV((LinkedHashMap<String, Object>)c))
                        .collect(Collectors.toList()));

                //TODO still to be mapped
                //re.setCodeRepositoryUrl(j.read("$.coderepositoryurl"));

                break;
            case "datasource":
                re.setOfficialname(j.read("$.officialname.value"));
                re.setWebsiteurl(j.read("$.websiteurl.value"));
                re.setDatasourcetype(asQualifier(j.read("$.datasourcetype")));
                re.setOpenairecompatibility(asQualifier(j.read("$.openairecompatibility")));

                break;
            case "organization":
                re.setLegalname(j.read("$.legalname.value"));
                re.setLegalshortname(j.read("$.legalshortname.value"));
                re.setCountry(asQualifier(j.read("$.country")));

                break;
            case "project":
                re.setProjectTitle(j.read("$.title.value"));
                re.setCode(j.read("$.code.value"));
                re.setAcronym(j.read("$.acronym.value"));
                re.setContracttype(asQualifier(j.read("$.contracttype")));

                JSONArray f = j.read("$.fundingtree");
                if (!f.isEmpty()) {
                    re.setFundingtree(f.stream()
                            .map(s -> s.toString())
                            .collect(Collectors.toList()));
                }

                break;
        }
        return new EntityRelEntity().setSource(
                new TypedRow()
                        .setSourceId(e.getSource().getSourceId())
                        .setDeleted(e.getSource().getDeleted())
                        .setType(e.getSource().getType())
                        .setOaf(serialize(re)));
    }

    private static KeyValue asKV(LinkedHashMap<String, Object> j) {
        final KeyValue kv = new KeyValue();
        kv.setKey((String) j.get("key"));
        kv.setValue((String) j.get("value"));
        return kv;
    }

    private static void mapTitle(DocumentContext j, RelatedEntity re) {
        final JSONArray a = j.read("$.title");
        if (!a.isEmpty()) {
            final StructuredProperty sp = asStructuredProperty((LinkedHashMap<String, Object>) a.get(0));
            if(StringUtils.isNotBlank(sp.getValue())) {
                re.setTitle(sp);
            }
        }
    }

    private static StructuredProperty asStructuredProperty(LinkedHashMap<String, Object> j) {
        final StructuredProperty sp = new StructuredProperty();
        final String value = (String) j.get("value");
        if (StringUtils.isNotBlank(value)) {
            sp.setValue((String) j.get("value"));
            sp.setQualifier(asQualifier((LinkedHashMap<String, String>) j.get("qualifier")));
        }
        return sp;
    }

    public static Qualifier asQualifier(LinkedHashMap<String, String> j) {
        final Qualifier q = new Qualifier();

        final String classid = j.get("classid");
        if (StringUtils.isNotBlank(classid)) {
            q.setClassid(classid);
        }

        final String classname = j.get("classname");
        if (StringUtils.isNotBlank(classname)) {
            q.setClassname(classname);
        }

        final String schemeid = j.get("schemeid");
        if (StringUtils.isNotBlank(schemeid)) {
            q.setSchemeid(schemeid);
        }

        final String schemename = j.get("schemename");
        if (StringUtils.isNotBlank(schemename)) {
            q.setSchemename(schemename);
        }
        return q;
    }

    public static String serialize(final Object o) {
        try {
            return new ObjectMapper()
                    .setSerializationInclusion(JsonInclude.Include.NON_NULL)
                    .writeValueAsString(o);
        } catch (JsonProcessingException e) {
            throw new IllegalArgumentException("unable to serialize: " + o.toString(), e);
        }
    }

}