@Override
public Boolean getBoolean(String attributeName) {
if (fetch.hasField(attributeName)) {
return decoratedEntity.getBoolean(attributeName);
} else {
return entityManager
.getReference(getEntityMetaData(), getIdValue())
.getBoolean(attributeName);
}
}
public Collection<EntityMetaData> loadEMD(RepositoryCollection emdFormattedRepos) {
// extract entity metadata
Map<String, DefaultEntityMetaData> entities =
new LinkedHashMap<String, DefaultEntityMetaData>();
for (Entity e : emdFormattedRepos.getRepositoryByEntityName("entities")) {
DefaultEntityMetaData emd = new DefaultEntityMetaData(e.getString("name"));
if (e.getBoolean("abstract")) emd.setAbstract(true);
}
// extract extends relations
for (Entity e : emdFormattedRepos.getRepositoryByEntityName("entities")) {
if (e.get("extends") != null) {
DefaultEntityMetaData emd = entities.get(e.get("name"));
emd.setExtends(entities.get(e.get("extends")));
}
}
Collection<EntityMetaData> result = new ArrayList<EntityMetaData>();
result.addAll(entities.values());
return result;
}
private void createEntityValuesResponseRec(
Entity entity,
Iterable<AttributeMetaData> attrs,
Fetch fetch,
Map<String, Object> responseData) {
responseData.put(
"_href",
Href.concatEntityHref(BASE_URI, entity.getEntityMetaData().getName(), entity.getIdValue()));
for (AttributeMetaData attr : attrs) // TODO performance use fetch instead of attrs
{
String attrName = attr.getName();
if (fetch == null || fetch.hasField(attr)) {
FieldTypeEnum dataType = attr.getDataType().getEnumType();
switch (dataType) {
case BOOL:
responseData.put(attrName, entity.getBoolean(attrName));
break;
case CATEGORICAL:
case XREF:
case FILE:
Entity refEntity = entity.getEntity(attrName);
Map<String, Object> refEntityResponse;
if (refEntity != null) {
Fetch refAttrFetch = fetch != null ? fetch.getFetch(attr) : null;
refEntityResponse = createEntityResponse(refEntity, refAttrFetch, false);
} else {
refEntityResponse = null;
}
responseData.put(attrName, refEntityResponse);
break;
case CATEGORICAL_MREF:
case MREF:
Iterable<Entity> refEntities = entity.getEntities(attrName);
List<Map<String, Object>> refEntityResponses;
if (refEntities != null) {
refEntityResponses = new ArrayList<Map<String, Object>>();
Fetch refAttrFetch = fetch != null ? fetch.getFetch(attrName) : null;
for (Entity refEntitiesEntity : refEntities) {
refEntityResponses.add(
createEntityResponse(refEntitiesEntity, refAttrFetch, false));
}
} else {
refEntityResponses = null;
}
responseData.put(attrName, refEntityResponses);
break;
case COMPOUND:
throw new RuntimeException("Invalid data type [" + dataType + "]");
case DATE:
Date dateValue = entity.getDate(attrName);
String dateValueStr = dateValue != null ? getDateFormat().format(dateValue) : null;
responseData.put(attrName, dateValueStr);
break;
case DATE_TIME:
Date dateTimeValue = entity.getDate(attrName);
String dateTimeValueStr =
dateTimeValue != null ? getDateTimeFormat().format(dateTimeValue) : null;
responseData.put(attrName, dateTimeValueStr);
break;
case DECIMAL:
responseData.put(attrName, entity.getDouble(attrName));
break;
case EMAIL:
case ENUM:
case HTML:
case HYPERLINK:
case SCRIPT:
case STRING:
case TEXT:
responseData.put(attrName, entity.getString(attrName));
break;
case INT:
responseData.put(attrName, entity.getInt(attrName));
break;
case LONG:
responseData.put(attrName, entity.getLong(attrName));
break;
default:
throw new RuntimeException("Unknown data type [" + dataType + "]");
}
}
}
}
@Override
public Map<String, DefaultEntityMetaData> getEntityMetaData(RepositoryCollection source) {
// TODO: this task is actually a 'merge' instead of 'import'
// so we need to consider both new metadata as existing ...
Map<String, DefaultEntityMetaData> entities =
new LinkedHashMap<String, DefaultEntityMetaData>();
// load attributes first (because entities are optional).
for (Entity a : source.getRepositoryByEntityName("attributes")) {
int i = 1;
String entityName = a.getString("entity");
// required
if (entityName == null) throw new IllegalArgumentException("attributes.entity is missing");
if (a.get("name") == null) throw new IllegalArgumentException("attributes.name is missing");
// create entity if not yet defined
if (entities.get(entityName) == null)
entities.put(entityName, new DefaultEntityMetaData(entityName));
DefaultEntityMetaData md = entities.get(entityName);
DefaultAttributeMetaData am = new DefaultAttributeMetaData(a.getString("name"));
if (a.get("dataType") != null) {
FieldType t = MolgenisFieldTypes.getType(a.getString("dataType"));
if (t == null)
throw new IllegalArgumentException(
"attributes.type error on line " + i + ": " + a.getString("dataType") + " unknown");
am.setDataType(t);
}
if (a.get("nillable") != null) am.setNillable(a.getBoolean("nillable"));
if (a.get("auto") != null) am.setAuto(a.getBoolean("auto"));
if (a.get("idAttribute") != null) am.setIdAttribute(a.getBoolean("idAttribute"));
md.addAttributeMetaData(am);
}
// load all entities (optional)
if (source.getRepositoryByEntityName("entities") != null) {
int i = 1;
for (Entity e : source.getRepositoryByEntityName("entities")) {
i++;
String entityName = e.getString("name");
// required
if (entityName == null)
throw new IllegalArgumentException("entity.name is missing on line " + i);
if (entities.get(entityName) == null)
entities.put(entityName, new DefaultEntityMetaData(entityName));
DefaultEntityMetaData md = entities.get(entityName);
if (e.get("description") != null) md.setDescription(e.getString("description"));
}
}
// re-iterate to map the mrefs/xref refEntity (or give error if not found)
// TODO: consider also those in existing db
int i = 1;
for (Entity a : source.getRepositoryByEntityName("attributes")) {
i++;
if (a.get("refEntity") != null) {
DefaultEntityMetaData em = entities.get(a.getString("entity"));
DefaultAttributeMetaData am =
(DefaultAttributeMetaData) em.getAttribute(a.getString("name"));
if (entities.get(a.getString("refEntity")) == null) {
throw new IllegalArgumentException(
"attributes.refEntity error on line "
+ i
+ ": "
+ a.getString("refEntity")
+ " unknown");
}
am.setRefEntity(entities.get(a.getString("refEntity")));
}
}
return entities;
}