Examples with IllegalAttributeTypeException org.molgenis.data.meta.IllegalAttributeTypeException used on opensource projects

Example 1 with IllegalAttributeTypeException

use of org.molgenis.data.meta.IllegalAttributeTypeException in project molgenis by molgenis.

the class EntityModelWriter method addRelationForAttribute.

private void addRelationForAttribute(Model model, Resource subject, IRI predicate, Entity objectEntity, Attribute objectAttribute) {
    String name = objectAttribute.getName();
    AttributeType attributeType = objectAttribute.getDataType();
    switch(attributeType) {
        case MREF:
        case CATEGORICAL_MREF:
            addRelationForMrefTypeAttribute(model, subject, predicate, objectEntity.getEntities(name));
            break;
        case BOOL:
            model.add(subject, predicate, valueFactory.createLiteral(objectEntity.getBoolean(name)));
            break;
        case DATE:
            XMLGregorianCalendar calendar = DATATYPE_FACTORY.newXMLGregorianCalendar(objectEntity.getLocalDate(name).toString());
            model.add(subject, predicate, valueFactory.createLiteral(calendar));
            break;
        case DATE_TIME:
            calendar = DATATYPE_FACTORY.newXMLGregorianCalendar(objectEntity.getInstant(name).toString());
            model.add(subject, predicate, valueFactory.createLiteral(calendar));
            break;
        case DECIMAL:
            model.add(subject, predicate, valueFactory.createLiteral(objectEntity.getDouble(name)));
            break;
        case LONG:
            model.add(subject, predicate, valueFactory.createLiteral(objectEntity.getLong(name)));
            break;
        case INT:
            model.add(subject, predicate, valueFactory.createLiteral(objectEntity.getInt(name)));
            break;
        case ENUM:
        case EMAIL:
        case HTML:
        case TEXT:
        case SCRIPT:
        case STRING:
            addRelationForStringTypeAttribute(model, subject, predicate, objectEntity.getString(name));
            break;
        case HYPERLINK:
            model.add(subject, predicate, valueFactory.createIRI(objectEntity.getString(name)));
            break;
        case XREF:
        case CATEGORICAL:
        case FILE:
            addRelationForXrefTypeAttribute(model, subject, predicate, objectEntity.getEntity(name));
            break;
        default:
            throw new IllegalAttributeTypeException(attributeType);
    }
}

Example 2 with IllegalAttributeTypeException

use of org.molgenis.data.meta.IllegalAttributeTypeException in project molgenis by molgenis.

the class EntityMapperImpl method mapRecursive.

private Object mapRecursive(Entity entity, Attribute attribute, Selection filter, Selection expand, int depth) {
    Object value;
    String attributeName = attribute.getName();
    AttributeType attributeType = attribute.getDataType();
    switch(attributeType) {
        case BOOL:
            value = entity.getBoolean(attributeName);
            break;
        case CATEGORICAL:
        case FILE:
        case XREF:
            value = mapReference(entity, attribute, filter, expand, depth + 1);
            break;
        case CATEGORICAL_MREF:
        case MREF:
        case ONE_TO_MANY:
            value = mapReferences(entity, attribute, filter, expand, depth + 1);
            break;
        case DATE:
            value = entity.getLocalDate(attributeName);
            break;
        case DATE_TIME:
            value = entity.getInstant(attributeName);
            break;
        case DECIMAL:
            value = entity.getDouble(attributeName);
            break;
        case EMAIL:
        case ENUM:
        case HTML:
        case HYPERLINK:
        case SCRIPT:
        case STRING:
        case TEXT:
            value = entity.getString(attributeName);
            break;
        case INT:
            value = entity.getInt(attributeName);
            break;
        case LONG:
            value = entity.getLong(attributeName);
            break;
        case COMPOUND:
            throw new IllegalAttributeTypeException(attributeType);
        default:
            throw new UnexpectedEnumException(attributeType);
    }
    return value;
}

Example 3 with IllegalAttributeTypeException

use of org.molgenis.data.meta.IllegalAttributeTypeException in project molgenis by molgenis.

the class RestService method toEntityValue.

/**
 * Converts a HTTP request parameter to a entity value of which the type is defined by the
 * attribute. For file attributes persists the file in the file store and persist a file meta data
 * entity.
 *
 * @param attr attribute
 * @param paramValue HTTP parameter value
 * @return Object
 */
public Object toEntityValue(Attribute attr, Object paramValue, Object id) {
    // Treat empty strings as null
    if ((paramValue instanceof String) && ((String) paramValue).isEmpty()) {
        paramValue = null;
    }
    Object value;
    AttributeType attrType = attr.getDataType();
    switch(attrType) {
        case BOOL:
            value = convertBool(attr, paramValue);
            break;
        case EMAIL:
        case ENUM:
        case HTML:
        case HYPERLINK:
        case SCRIPT:
        case STRING:
        case TEXT:
            value = convertString(attr, paramValue);
            break;
        case CATEGORICAL:
        case XREF:
            value = convertRef(attr, paramValue);
            break;
        case CATEGORICAL_MREF:
        case MREF:
        case ONE_TO_MANY:
            value = convertMref(attr, paramValue);
            break;
        case DATE:
            value = convertDate(attr, paramValue);
            break;
        case DATE_TIME:
            value = convertDateTime(attr, paramValue);
            break;
        case DECIMAL:
            value = convertDecimal(attr, paramValue);
            break;
        case FILE:
            value = convertFile(attr, paramValue, id);
            break;
        case INT:
            value = convertInt(attr, paramValue);
            break;
        case LONG:
            value = convertLong(attr, paramValue);
            break;
        case COMPOUND:
            throw new IllegalAttributeTypeException(attrType);
        default:
            throw new UnexpectedEnumException(attrType);
    }
    return value;
}

Example 4 with IllegalAttributeTypeException

use of org.molgenis.data.meta.IllegalAttributeTypeException in project molgenis by molgenis.

the class PostgreSqlUtils method getPostgreSqlValue.

/**
 * Returns the PostgreSQL value for the given entity attribute
 *
 * @param entity entity
 * @param attr attribute
 * @return PostgreSQL value
 */
static Object getPostgreSqlValue(Entity entity, Attribute attr) {
    String attrName = attr.getName();
    AttributeType attrType = attr.getDataType();
    switch(attrType) {
        case BOOL:
            return entity.getBoolean(attrName);
        case CATEGORICAL:
        case XREF:
            Entity xrefEntity = entity.getEntity(attrName);
            return xrefEntity != null ? getPostgreSqlValue(xrefEntity, xrefEntity.getEntityType().getIdAttribute()) : null;
        case CATEGORICAL_MREF:
        case MREF:
        case ONE_TO_MANY:
            Iterable<Entity> entities = entity.getEntities(attrName);
            return stream(entities).map(mrefEntity -> getPostgreSqlValue(mrefEntity, mrefEntity.getEntityType().getIdAttribute())).collect(toList());
        case DATE:
            return entity.getLocalDate(attrName);
        case DATE_TIME:
            // As a workaround for #5674, we don't store milliseconds
            Instant instant = entity.getInstant(attrName);
            return instant != null ? instant.truncatedTo(ChronoUnit.SECONDS).atOffset(UTC) : null;
        case DECIMAL:
            return entity.getDouble(attrName);
        case EMAIL:
        case ENUM:
        case HTML:
        case HYPERLINK:
        case SCRIPT:
        case STRING:
        case TEXT:
            return entity.getString(attrName);
        case FILE:
            FileMeta fileEntity = entity.getEntity(attrName, FileMeta.class);
            return fileEntity != null ? getPostgreSqlValue(fileEntity, fileEntity.getEntityType().getIdAttribute()) : null;
        case INT:
            return entity.getInt(attrName);
        case LONG:
            return entity.getLong(attrName);
        case COMPOUND:
            throw new IllegalAttributeTypeException(attrType);
        default:
            throw new UnexpectedEnumException(attrType);
    }
}

Example 5 with IllegalAttributeTypeException

use of org.molgenis.data.meta.IllegalAttributeTypeException in project molgenis by molgenis.

the class PostgreSqlQueryGenerator method getSqlCreateJunctionTable.

static String getSqlCreateJunctionTable(EntityType entityType, Attribute attr) {
    Attribute idAttr = entityType.getIdAttribute();
    StringBuilder sql = new StringBuilder("CREATE TABLE ").append(getJunctionTableName(entityType, attr)).append(" (").append(getJunctionTableOrderColumnName()).append(" INT,").append(getColumnName(idAttr)).append(' ').append(getPostgreSqlType(idAttr)).append(" NOT NULL, ").append(getColumnName(attr)).append(' ').append(getPostgreSqlType(attr.getRefEntity().getIdAttribute())).append(" NOT NULL").append(", FOREIGN KEY (").append(getColumnName(idAttr)).append(") REFERENCES ").append(getTableName(entityType)).append('(').append(getColumnName(idAttr)).append(") ON DELETE CASCADE DEFERRABLE INITIALLY DEFERRED");
    if (isPersistedInPostgreSql(attr.getRefEntity())) {
        sql.append(", FOREIGN KEY (").append(getColumnName(attr)).append(") REFERENCES ").append(getTableName(attr.getRefEntity())).append('(').append(getColumnName(attr.getRefEntity().getIdAttribute())).append(") DEFERRABLE INITIALLY DEFERRED");
    }
    AttributeType attrType = attr.getDataType();
    switch(attrType) {
        case CATEGORICAL_MREF:
        case MREF:
            sql.append(", UNIQUE (").append(getColumnName(idAttr)).append(',').append(getColumnName(attr)).append(')');
            break;
        default:
            throw new IllegalAttributeTypeException(attrType);
    }
    sql.append(", UNIQUE (").append(getJunctionTableOrderColumnName()).append(',').append(getColumnName(idAttr)).append(')');
    sql.append(')');
    return sql.toString();
}